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Thomas Dandekar - Publications

Affiliations: 
Biozentrum University of Würzburg, Würzburg, Bayern, Germany 
Website:
http://www.biozentrum.uni-wuerzburg.de/thomas_dandekar.html
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Year Citation  Score
2023 Luther CH, Brandt P, Vylkova S, Dandekar T, Müller T, Dittrich M. Integrated analysis of SR-like protein kinases Sky1 and Sky2 links signaling networks with transcriptional regulation in . Frontiers in Cellular and Infection Microbiology. 13: 1108235. PMID 37082713 DOI: 10.3389/fcimb.2023.1108235  0.446
2023 Vogg N, Müller T, Floren A, Dandekar T, Riester A, Dischinger U, Kurlbaum M, Kroiss M, Fassnacht M. Simplified urinary steroid profiling by LC-MS as diagnostic tool for malignancy in adrenocortical tumors. Clinica Chimica Acta; International Journal of Clinical Chemistry. 543: 117301. PMID 36948238 DOI: 10.1016/j.cca.2023.117301  0.346
2022 Rackevei AS, Borges A, Engstler M, Dandekar T, Wolf M. About the Analysis of 18S rDNA Sequence Data from Trypanosomes in Barcoding and Phylogenetics: Tracing a Continuation Error Occurring in the Literature. Biology. 11. PMID 36358313 DOI: 10.3390/biology11111612  0.363
2022 Vogg N, Müller T, Floren A, Dandekar T, Scherf-Clavel O, Fassnacht M, Kroiss M, Kurlbaum M. Targeted metabolic profiling of urinary steroids with a focus on analytical accuracy and sample stability. Journal of Mass Spectrometry and Advances in the Clinical Lab. 25: 44-52. PMID 35910411 DOI: 10.1016/j.jmsacl.2022.07.006  0.344
2020 Naseem M, Osmanoğlu Ö, Kaltdorf M, Alblooshi AAMA, Iqbal J, Howari FM, Srivastava M, Dandekar T. Integrated Framework of the Immune-Defense Transcriptional Signatures in the Arabidopsis Shoot Apical Meristem. International Journal of Molecular Sciences. 21. PMID 32796535 DOI: 10.3390/Ijms21165745  0.306
2020 Whisnant AW, Jürges CS, Hennig T, Wyler E, Prusty B, Rutkowski AJ, L'hernault A, Djakovic L, Göbel M, Döring K, Menegatti J, Antrobus R, Matheson NJ, Künzig FWH, Mastrobuoni G, ... ... Dandekar T, et al. Integrative functional genomics decodes herpes simplex virus 1. Nature Communications. 11: 2038. PMID 32341360 DOI: 10.1038/S41467-020-15992-5  0.339
2020 Shityakov S, Bencurova E, Förster C, Dandekar T. Modeling of shotgun sequencing of DNA plasmids using experimental and theoretical approaches. Bmc Bioinformatics. 21: 132. PMID 32245400 DOI: 10.1186/S12859-020-3461-6  0.31
2020 Gupta SK, Srivastava M, Osmanoglu Ö, Dandekar T. Genome-wide inference of the Camponotus floridanus protein-protein interaction network using homologous mapping and interacting domain profile pairs. Scientific Reports. 10: 2334. PMID 32047225 DOI: 10.1038/S41598-020-59344-1  0.328
2019 Yang M, Rajeeve K, Rudel T, Dandekar T. Comprehensive Flux Modeling of Proteome and qRT-PCR Data Indicate Biphasic Metabolic Differences Between Elementary Bodies and Reticulate Bodies During Infection. Frontiers in Microbiology. 10: 2350. PMID 31681215 DOI: 10.3389/Fmicb.2019.02350  0.312
2019 Akhoon BA, Gupta SK, Tiwari S, Rathor L, Pant A, Singh N, Gupta SK, Dandekar T, Pandey R. C. elegans protein interaction network analysis probes RNAi validated pro-longevity effect of nhr-6, a human homolog of tumor suppressor Nr4a1. Scientific Reports. 9: 15711. PMID 31673088 DOI: 10.1038/S41598-019-51649-0  0.33
2019 Kunz M, Wolf B, Fuchs M, Christoph J, Xiao K, Thum T, Atlan D, Prokosch HU, Dandekar T. A comprehensive method protocol for annotation and integrated functional understanding of lncRNAs. Briefings in Bioinformatics. PMID 31578571 DOI: 10.1093/Bib/Bbz066  0.353
2018 Orth MF, Gerke JS, Knösel T, Altendorf-Hofmann A, Musa J, Alba-Rubio R, Stein S, Hölting TLB, Cidrea-Aranaz F, Romero-Pérez L, Dallmayer M, Baldauf MC, Marchetto A, Sannino G, Knott MML, ... ... Dandekar T, et al. Functional genomics identifies AMPD2 as a new prognostic marker for undifferentiated pleomorphic sarcoma. International Journal of Cancer. PMID 30267407 DOI: 10.1002/Ijc.31903  0.316
2018 Page L, Weis P, Müller T, Dittrich M, Lazariotou M, Dragan M, Waaga-Gasser AM, Helm J, Dandekar T, Einsele H, Löffler J, Ullmann AJ, Wurster S. Evaluation of Aspergillus and Mucorales specific T-cells and peripheral blood mononuclear cell cytokine signatures as biomarkers of environmental mold exposure. International Journal of Medical Microbiology : Ijmm. PMID 30201279 DOI: 10.1016/J.Ijmm.2018.09.002  0.43
2018 Bencurova E, Gupta SK, Sarukhanyan E, Dandekar T. Identification of Antifungal Targets Based on Computer Modeling. Journal of Fungi (Basel, Switzerland). 4. PMID 29973534 DOI: 10.3390/Jof4030081  0.362
2018 Schmidt H, Vlaic S, Krüger T, Schmidt F, Balkenhohl J, Dandekar T, Guthke R, Kniemeyer O, Heinekamp T, Brakhage AA. Proteomics ofconidia-containing phagolysosomes identifies processes governing immune evasion. Molecular & Cellular Proteomics : McP. PMID 29507050 DOI: 10.1074/Mcp.Ra117.000069  0.335
2017 Ampattu BJ, Hagmann L, Liang C, Dittrich M, Schlüter A, Blom J, Krol E, Goesmann A, Becker A, Dandekar T, Müller T, Schoen C. Transcriptomic buffering of cryptic genetic variation contributes to meningococcal virulence. Bmc Genomics. 18: 282. PMID 28388876 DOI: 10.1186/S12864-017-3616-7  0.458
2017 Ewald J, Bartl M, Dandekar T, Kaleta C. Optimality principles reveal a complex interplay of intermediate toxicity and kinetic efficiency in the regulation of prokaryotic metabolism. Plos Computational Biology. 13: e1005371. PMID 28212377 DOI: 10.1371/Journal.Pcbi.1005371  0.302
2016 Czakai K, Dittrich M, Kaltdorf M, Müller T, Krappmann S, Schedler A, Bonin M, Dühring S, Schuster S, Speth C, Rambach G, Einsele H, Dandekar T, Löffler J. Influence of Platelet-rich Plasma on the immune response of human monocyte-derived dendritic cells and macrophages stimulated with Aspergillus fumigatus. International Journal of Medical Microbiology : Ijmm. PMID 27965080 DOI: 10.1016/J.Ijmm.2016.11.010  0.443
2016 Gupta SK, Gross R, Dandekar T. An antibiotic target ranking and prioritization pipeline combining sequence, structure and network-based approaches exemplified for Serratia marcescens. Gene. PMID 27425866 DOI: 10.1016/J.Gene.2016.07.030  0.347
2016 Kaltdorf M, Srivastava M, Gupta SK, Liang C, Binder J, Dietl AM, Meir Z, Haas H, Osherov N, Krappmann S, Dandekar T. Systematic Identification of Anti-Fungal Drug Targets by a Metabolic Network Approach. Frontiers in Molecular Biosciences. 3: 22. PMID 27379244 DOI: 10.3389/Fmolb.2016.00022  0.322
2015 Shityakov S, Dandekar T, Förster C. Gene expression profiles and protein-protein interaction network analysis in AIDS patients with HIV-associated encephalitis and dementia. Hiv/Aids (Auckland, N.Z.). 7: 265-276. PMID 26604827 DOI: 10.2147/Hiv.S88438  0.305
2015 Gabed N, Yang M, Bey Baba Hamed M, Drici H, Gross R, Dandekar T, Liang C. Draft Genome Sequence of the Moderately Heat-Tolerant Lactococcus lactis subsp. lactis bv. diacetylactis Strain GL2 from Algerian Dromedary Milk. Genome Announcements. 3. PMID 26586883 DOI: 10.1128/Genomea.01334-15  0.315
2015 Fiedler J, Breckwoldt K, Remmele CW, Hartmann D, Dittrich M, Pfanne A, Just A, Xiao K, Kunz M, Müller T, Hansen A, Geffers R, Dandekar T, Eschenhagen T, Thum T. Development of Long Noncoding RNA-Based Strategies to Modulate Tissue Vascularization. Journal of the American College of Cardiology. 66: 2005-15. PMID 26516004 DOI: 10.1016/J.Jacc.2015.07.081  0.469
2015 Remmele CW, Luther CH, Balkenhol J, Dandekar T, Müller T, Dittrich MT. Integrated inference and evaluation of host-fungi interaction networks. Frontiers in Microbiology. 6: 764. PMID 26300851 DOI: 10.3389/Fmicb.2015.00764  0.488
2015 Gupta SK, Kupper M, Ratzka C, Feldhaar H, Vilcinskas A, Gross R, Dandekar T, Förster F. Scrutinizing the immune defence inventory of Camponotus floridanus applying total transcriptome sequencing. Bmc Genomics. 16: 540. PMID 26198742 DOI: 10.1186/S12864-015-1748-1  0.323
2015 Wolf B, Kuonen P, Dandekar T, Atlan D. DNAseq Workflow in a Diagnostic Context and an Example of a User Friendly Implementation. Biomed Research International. 2015: 403497. PMID 26137478 DOI: 10.1155/2015/403497  0.326
2015 Cecil A, Ohlsen K, Menzel T, François P, Schrenzel J, Fischer A, Dörries K, Selle M, Lalk M, Hantzschmann J, Dittrich M, Liang C, Bernhardt J, Ölschläger TA, Bringmann G, ... ... Dandekar T, et al. Modelling antibiotic and cytotoxic isoquinoline effects in Staphylococcus aureus, Staphylococcus epidermidis and mammalian cells. International Journal of Medical Microbiology : Ijmm. 305: 96-109. PMID 25500547 DOI: 10.1016/J.Ijmm.2014.11.006  0.345
2014 Reister M, Hoffmeier K, Krezdorn N, Rotter B, Liang C, Rund S, Dandekar T, Sonnenborn U, Oelschlaeger TA. Complete genome sequence of the gram-negative probiotic Escherichia coli strain Nissle 1917. Journal of Biotechnology. 187: 106-7. PMID 25093936 DOI: 10.1016/J.Jbiotec.2014.07.442  0.305
2014 Boyanova D, Nilla S, Klau GW, Dandekar T, Müller T, Dittrich M. Functional module search in protein networks based on semantic similarity improves the analysis of proteomics data. Molecular & Cellular Proteomics : McP. 13: 1877-89. PMID 24807868 DOI: 10.1074/Mcp.M113.032839  0.515
2014 Dandekar T, Fieselmann A, Majeed S, Ahmed Z. Software applications toward quantitative metabolic flux analysis and modeling. Briefings in Bioinformatics. 15: 91-107. PMID 23142828 DOI: 10.1093/Bib/Bbs065  0.319
2013 Winstel V, Liang C, Sanchez-Carballo P, Steglich M, Munar M, Bröker BM, Penadés JR, Nübel U, Holst O, Dandekar T, Peschel A, Xia G. Wall teichoic acid structure governs horizontal gene transfer between major bacterial pathogens. Nature Communications. 4: 2345. PMID 23965785 DOI: 10.1038/Ncomms3345  0.303
2013 Liang C, Krüger B, Dandekar T. GoSynthetic database tool to analyse natural and engineered molecular processes. Database : the Journal of Biological Databases and Curation. 2013: bat043. PMID 23813641 DOI: 10.1093/Database/Bat043  0.318
2012 Krüger B, Liang C, Prell F, Fieselmann A, Moya A, Schuster S, Völker U, Dandekar T. Metabolic adaptation and protein complexes in prokaryotes. Metabolites. 2: 940-58. PMID 24957769 DOI: 10.3390/Metabo2040940  0.32
2012 Ratzka C, Förster F, Liang C, Kupper M, Dandekar T, Feldhaar H, Gross R. Molecular characterization of antimicrobial peptide genes of the carpenter ant Camponotus floridanus. Plos One. 7: e43036. PMID 22912782 DOI: 10.1371/Journal.Pone.0043036  0.356
2012 Beisser D, Grohme MA, Kopka J, Frohme M, Schill RO, Hengherr S, Dandekar T, Klau GW, Dittrich M, Müller T. Integrated pathway modules using time-course metabolic profiles and EST data from Milnesium tardigradum. Bmc Systems Biology. 6: 72. PMID 22713133 DOI: 10.1186/1752-0509-6-72  0.503
2012 Krueger B, Friedrich T, Förster F, Bernhardt J, Gross R, Dandekar T. Different evolutionary modifications as a guide to rewire two-component systems. Bioinformatics and Biology Insights. 6: 97-128. PMID 22586357 DOI: 10.4137/Bbi.S9356  0.324
2012 Beisser D, Brunkhorst S, Dandekar T, Klau GW, Dittrich MT, Müller T. Robustness and accuracy of functional modules in integrated network analysis. Bioinformatics (Oxford, England). 28: 1887-94. PMID 22581175 DOI: 10.1093/Bioinformatics/Bts265  0.483
2012 Förster F, Beisser D, Grohme MA, Liang C, Mali B, Siegl AM, Engelmann JC, Shkumatov AV, Schokraie E, Müller T, Schnölzer M, Schill RO, Frohme M, Dandekar T. Transcriptome analysis in tardigrade species reveals specific molecular pathways for stress adaptations. Bioinformatics and Biology Insights. 6: 69-96. PMID 22563243 DOI: 10.4137/Bbi.S9150  0.493
2012 Merget B, Koetschan C, Hackl T, Förster F, Dandekar T, Müller T, Schultz J, Wolf M. The ITS2 Database. Journal of Visualized Experiments : Jove. PMID 22433429 DOI: 10.3791/3806  0.633
2012 Fuchs TM, Eisenreich W, Kern T, Dandekar T. Toward a Systemic Understanding of Listeria monocytogenes Metabolism during Infection. Frontiers in Microbiology. 3: 23. PMID 22347216 DOI: 10.3389/Fmicb.2012.00023  0.301
2011 Cecil A, Rikanovi? C, Ohlsen K, Liang C, Bernhardt J, Oelschlaeger TA, Gulder T, Bringmann G, Holzgrabe U, Unger M, Dandekar T. Modeling antibiotic and cytotoxic effects of the dimeric isoquinoline IQ-143 on metabolism and its regulation in Staphylococcus aureus, Staphylococcus epidermidis and human cells. Genome Biology. 12: R24. PMID 21418624 DOI: 10.1186/Gb-2011-12-3-R24  0.33
2011 Liebeke M, Dörries K, Zühlke D, Bernhardt J, Fuchs S, Pané-Farré J, Engelmann S, Völker U, Bode R, Dandekar T, Lindequist U, Hecker M, Lalk M. A metabolomics and proteomics study of the adaptation of Staphylococcus aureus to glucose starvation. Molecular Biosystems. 7: 1241-53. PMID 21327190 DOI: 10.1039/C0Mb00315H  0.303
2011 Siegl A, Kamke J, Hochmuth T, Piel J, Richter M, Liang C, Dandekar T, Hentschel U. Single-cell genomics reveals the lifestyle of Poribacteria, a candidate phylum symbiotically associated with marine sponges. The Isme Journal. 5: 61-70. PMID 20613790 DOI: 10.1038/Ismej.2010.95  0.363
2011 Förster F, Beisser D, Frohme M, Schill RO, Dandekar T. Bioinformatics identifies tardigrade molecular adaptations including the DNA-j family and first steps towards dynamical modelling Journal of Zoological Systematics and Evolutionary Research. 49: 120-126. DOI: 10.1111/J.1439-0469.2010.00609.X  0.333
2010 Friedrich T, Rahmann S, Weigel W, Rabsch W, Fruth A, Ron E, Gunzer F, Dandekar T, Hacker J, Müller T, Dobrindt U. High-throughput microarray technology in diagnostics of enterobacteria based on genome-wide probe selection and regression analysis. Bmc Genomics. 11: 591. PMID 20964857 DOI: 10.1186/1471-2164-11-591  0.501
2010 Schauer K, Geginat G, Liang C, Goebel W, Dandekar T, Fuchs TM. Deciphering the intracellular metabolism of Listeria monocytogenes by mutant screening and modelling. Bmc Genomics. 11: 573. PMID 20955543 DOI: 10.1186/1471-2164-11-573  0.345
2010 Fuchs S, Mehlan H, Kusch H, Teumer A, Zühlke D, Berth M, Wolf C, Dandekar T, Hecker M, Engelmann S, Bernhardt J. Protecs, a comprehensive and powerful storage and analysis system for OMICS data, applied for profiling the anaerobiosis response of Staphylococcus aureus COL. Proteomics. 10: 2982-3000. PMID 20662099 DOI: 10.1002/Pmic.200900388  0.353
2010 Mali B, Grohme MA, Förster F, Dandekar T, Schnölzer M, Reuter D, We?nicz W, Schill RO, Frohme M. Transcriptome survey of the anhydrobiotic tardigrade Milnesium tardigradum in comparison with Hypsibius dujardini and Richtersius coronifer. Bmc Genomics. 11: 168. PMID 20226016 DOI: 10.1186/1471-2164-11-168  0.39
2010 Schokraie E, Hotz-Wagenblatt A, Warnken U, Mali B, Frohme M, Förster F, Dandekar T, Hengherr S, Schill RO, Schnölzer M. Proteomic analysis of tardigrades: towards a better understanding of molecular mechanisms by anhydrobiotic organisms. Plos One. 5: e9502. PMID 20224743 DOI: 10.1371/Journal.Pone.0009502  0.357
2010 Beisser D, Klau GW, Dandekar T, Müller T, Dittrich MT. BioNet: an R-Package for the functional analysis of biological networks. Bioinformatics (Oxford, England). 26: 1129-30. PMID 20189939 DOI: 10.1093/Bioinformatics/Btq089  0.462
2010 Dittrich M, Strassberger V, Fackler M, Tas P, Lewandrowski U, Sickmann A, Walter U, Dandekar T, Birschmann I. Characterization of a novel interaction between vasodilator-stimulated phosphoprotein and Abelson interactor 1 in human platelets: a concerted computational and experimental approach. Arteriosclerosis, Thrombosis, and Vascular Biology. 30: 843-50. PMID 20110575 DOI: 10.1161/Atvbaha.109.200683  0.307
2010 Keller A, Förster F, Müller T, Dandekar T, Schultz J, Wolf M. Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees. Biology Direct. 5: 4. PMID 20078867 DOI: 10.1186/1745-6150-5-4  0.62
2010 Keller A, Wolf M, Dandekar T. Ribosomal RNA phylogenetics: The third dimension Biologia. 65: 388-391. DOI: 10.2478/S11756-010-0045-3  0.541
2010 Schill RO, Förster F, Dandekar T, Wolf M. Using compensatory base change analysis of internal transcribed spacer 2 secondary structures to identify three new species in Paramacrobiotus (Tardigrada) Organisms Diversity and Evolution. 10: 287-296. DOI: 10.1007/S13127-010-0025-Z  0.516
2009 Engelmann JC, Rahmann S, Wolf M, Schultz J, Fritzilas E, Kneitz S, Dandekar T, Müller T. Modelling cross-hybridization on phylogenetic DNA microarrays increases the detection power of closely related species. Molecular Ecology Resources. 9: 83-93. PMID 21564570 DOI: 10.1111/J.1755-0998.2008.02199.X  0.58
2009 Liang C, Schmid A, López-Sánchez MJ, Moya A, Gross R, Bernhardt J, Dandekar T. JANE: efficient mapping of prokaryotic ESTs and variable length sequence reads on related template genomes. Bmc Bioinformatics. 10: 391. PMID 19943962 DOI: 10.1186/1471-2105-10-391  0.347
2009 Förster F, Liang C, Shkumatov A, Beisser D, Engelmann JC, Schnölzer M, Frohme M, Müller T, Schill RO, Dandekar T. Tardigrade workbench: comparing stress-related proteins, sequence-similar and functional protein clusters as well as RNA elements in tardigrades. Bmc Genomics. 10: 469. PMID 19821996 DOI: 10.1186/1471-2164-10-469  0.326
2009 Schwarz R, Seibel PN, Rahmann S, Schoen C, Huenerberg M, Müller-Reible C, Dandekar T, Karchin R, Schultz J, Müller T. Detecting species-site dependencies in large multiple sequence alignments. Nucleic Acids Research. 37: 5959-68. PMID 19661281 DOI: 10.1093/Nar/Gkp634  0.507
2009 Krüger B, Dandekar T. Bioinformatical approaches to detect and analyze protein interactions. Methods in Molecular Biology (Clifton, N.J.). 564: 401-31. PMID 19544036 DOI: 10.1007/978-1-60761-157-8_23  0.372
2009 Schill RO, Mali B, Dandekar T, Schnölzer M, Reuter D, Frohme M. Molecular mechanisms of tolerance in tardigrades: new perspectives for preservation and stabilization of biological material. Biotechnology Advances. 27: 348-52. PMID 19472511 DOI: 10.1016/J.Biotechadv.2009.01.011  0.302
2009 Keller A, Schleicher T, Schultz J, Müller T, Dandekar T, Wolf M. 5.8S-28S rRNA interaction and HMM-based ITS2 annotation. Gene. 430: 50-7. PMID 19026726 DOI: 10.1016/J.Gene.2008.10.012  0.641
2009 Guidetti R, Schill RO, Bertolani R, Dandekar T, Wolf M. New molecular data for tardigrade phylogeny, with the erection of Paramacrobiotus gen. nov Journal of Zoological Systematics and Evolutionary Research. 47: 315-321. DOI: 10.1111/J.1439-0469.2009.00526.X  0.503
2008 Engelmann JC, Schwarz R, Blenk S, Friedrich T, Seibel PN, Dandekar T, Müller T. Unsupervised meta-analysis on diverse gene expression datasets allows insight into gene function and regulation. Bioinformatics and Biology Insights. 2: 265-80. PMID 19812781 DOI: 10.4137/Bbi.S665  0.502
2008 Kühnel M, Mayorga LS, Dandekar T, Thakar J, Schwarz R, Anes E, Griffiths G, Reich J. Modelling phagosomal lipid networks that regulate actin assembly. Bmc Systems Biology. 2: 107. PMID 19061496 DOI: 10.1186/1752-0509-2-107  0.518
2008 Seibel PN, Müller T, Dandekar T, Wolf M. Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE. Bmc Research Notes. 1: 91. PMID 18854023 DOI: 10.1186/1756-0500-1-91  0.61
2008 Wolf M, Ruderisch B, Dandekar T, Schultz J, Müller T. ProfDistS: (profile-) distance based phylogeny on sequence--structure alignments. Bioinformatics (Oxford, England). 24: 2401-2. PMID 18723521 DOI: 10.1093/Bioinformatics/Btn453  0.624
2008 Keller A, Schleicher T, Förster F, Ruderisch B, Dandekar T, Müller T, Wolf M. ITS2 data corroborate a monophyletic chlorophycean DO-group (Sphaeropleales). Bmc Evolutionary Biology. 8: 218. PMID 18655698 DOI: 10.1186/1471-2148-8-218  0.606
2008 Dittrich MT, Klau GW, Rosenwald A, Dandekar T, Müller T. Identifying functional modules in protein-protein interaction networks: an integrated exact approach. Bioinformatics (Oxford, England). 24: i223-31. PMID 18586718 DOI: 10.1093/bioinformatics/btn161  0.421
2008 Blenk S, Engelmann JC, Pinkert S, Weniger M, Schultz J, Rosenwald A, Müller-Hermelink HK, Müller T, Dandekar T. Explorative data analysis of MCL reveals gene expression networks implicated in survival and prognosis supported by explorative CGH analysis. Bmc Cancer. 8: 106. PMID 18416826 DOI: 10.1186/1471-2407-8-106  0.318
2008 Selig C, Wolf M, Müller T, Dandekar T, Schultz J. The ITS2 Database II: homology modelling RNA structure for molecular systematics. Nucleic Acids Research. 36: D377-80. PMID 17933769 DOI: 10.1093/Nar/Gkm827  0.627
2007 Blenk S, Engelmann J, Weniger M, Schultz J, Dittrich M, Rosenwald A, Müller-Hermelink HK, Müller T, Dandekar T. Germinal center B cell-like (GCB) and activated B cell-like (ABC) type of diffuse large B cell lymphoma (DLBCL): analysis of molecular predictors, signatures, cell cycle state and patient survival. Cancer Informatics. 3: 399-420. PMID 19455257 DOI: 10.4137/Cin.S0  0.469
2007 Gerlach D, Wolf M, Dandekar T, Müller T, Pokorny A, Rahmann S. Deep metazoan phylogeny. In Silico Biology. 7: 151-4. PMID 17688440  0.527
2007 Müller T, Philippi N, Dandekar T, Schultz J, Wolf M. Distinguishing species. Rna (New York, N.Y.). 13: 1469-72. PMID 17652131 DOI: 10.1261/rna.617107  0.538
2007 Pachkov M, Dandekar T, Korbel J, Bork P, Schuster S. Use of pathway analysis and genome context methods for functional genomics of Mycoplasma pneumoniae nucleotide metabolism. Gene. 396: 215-25. PMID 17467928 DOI: 10.1016/J.Gene.2007.02.033  0.69
2007 Wolf M, Selig C, Müller T, Philippi N, Dandekar T, Schultz J. Placozoa: At least two Biologia - Section Botany. 62: 641-645. DOI: 10.2478/S11756-007-0143-Z  0.537
2006 Deeken R, Engelmann JC, Efetova M, Czirjak T, Müller T, Kaiser WM, Tietz O, Krischke M, Mueller MJ, Palme K, Dandekar T, Hedrich R. An integrated view of gene expression and solute profiles of Arabidopsis tumors: a genome-wide approach. The Plant Cell. 18: 3617-34. PMID 17172353 DOI: 10.1105/Tpc.106.044743  0.302
2006 Seibel PN, Müller T, Dandekar T, Schultz J, Wolf M. 4SALE--a tool for synchronous RNA sequence and secondary structure alignment and editing. Bmc Bioinformatics. 7: 498. PMID 17101042 DOI: 10.1186/1471-2105-7-498  0.624
2006 Seibel PN, Krüger J, Hartmeier S, Schwarzer K, Löwenthal K, Mersch H, Dandekar T, Giegerich R. XML schemas for common bioinformatic data types and their application in workflow systems. Bmc Bioinformatics. 7: 490. PMID 17087823 DOI: 10.1186/1471-2105-7-490  0.348
2006 Liang C, Dandekar T. inGeno--an integrated genome and ortholog viewer for improved genome to genome comparisons. Bmc Bioinformatics. 7: 461. PMID 17054788 DOI: 10.1186/1471-2105-7-461  0.375
2006 Friedrich T, Pils B, Dandekar T, Schultz J, Müller T. Modelling interaction sites in protein domains with interaction profile hidden Markov models. Bioinformatics (Oxford, England). 22: 2851-7. PMID 17000753 DOI: 10.1093/Bioinformatics/Btl486  0.518
2006 Wolf M, Seibel PN, Dandekar T, Lynn DH. A java applet for exploring the new higher level classification of eukaryotes with emphasis on the taxonomy of protists. The Journal of Eukaryotic Microbiology. 53: 315. PMID 16968448 DOI: 10.1111/J.1550-7408.2006.00123.X  0.449
2006 Hain T, Steinweg C, Kuenne CT, Billion A, Ghai R, Chatterjee SS, Domann E, Kärst U, Goesmann A, Bekel T, Bartels D, Kaiser O, Meyer F, Pühler A, Weisshaar B, ... ... Dandekar T, et al. Whole-genome sequence of Listeria welshimeri reveals common steps in genome reduction with Listeria innocua as compared to Listeria monocytogenes. Journal of Bacteriology. 188: 7405-15. PMID 16936040 DOI: 10.1128/Jb.00758-06  0.309
2006 Schultz J, Müller T, Achtziger M, Seibel PN, Dandekar T, Wolf M. The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses. Nucleic Acids Research. 34: W704-7. PMID 16845103 DOI: 10.1093/Nar/Gkl129  0.632
2006 Nowrouzi A, Dittrich M, Klanke C, Heinkelein M, Rammling M, Dandekar T, von Kalle C, Rethwilm A. Genome-wide mapping of foamy virus vector integrations into a human cell line. The Journal of General Virology. 87: 1339-47. PMID 16603537 DOI: 10.1099/Vir.0.81554-0  0.3
2006 Dittrich M, Birschmann I, Pfrang J, Herterich S, Smolenski A, Walter U, Dandekar T. Analysis of SAGE data in human platelets: features of the transcriptome in an anucleate cell. Thrombosis and Haemostasis. 95: 643-51. PMID 16601835 DOI: 10.1160/Th05-11-0764  0.308
2006 Gaudermann P, Vogl I, Zientz E, Silva FJ, Moya A, Gross R, Dandekar T. Analysis of and function predictions for previously conserved hypothetical or putative proteins in Blochmannia floridanus. Bmc Microbiology. 6: 1. PMID 16401340 DOI: 10.1186/1471-2180-6-1  0.412
2006 Rahmann S, Müller T, Dandekar T, Wolf M. Efficient and robust analysis of large phylogenetic datasets Advanced Data Mining Technologies in Bioinformatics. 104-117. DOI: 10.4018/978-1-59140-863-5.ch006  0.392
2005 Wolf M, Achtziger M, Schultz J, Dandekar T, Müller T. Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures. Rna (New York, N.Y.). 11: 1616-23. PMID 16244129 DOI: 10.1261/Rna.2144205  0.621
2005 Wolf M, Friedrich J, Dandekar T, Müller T. CBCAnalyzer: inferring phylogenies based on compensatory base changes in RNA secondary structures. In Silico Biology. 5: 291-4. PMID 15996120  0.565
2005 Schwarz R, Musch P, von Kamp A, Engels B, Schirmer H, Schuster S, Dandekar T. YANA - a software tool for analyzing flux modes, gene-expression and enzyme activities. Bmc Bioinformatics. 6: 135. PMID 15929789 DOI: 10.1186/1471-2105-6-135  0.32
2005 Schmitt S, Hentschel U, Zea S, Dandekar T, Wolf M. ITS-2 and 18S rRNA gene phylogeny of Aplysinidae (Verongida, Demospongiae). Journal of Molecular Evolution. 60: 327-36. PMID 15871043 DOI: 10.1007/S00239-004-0162-0  0.517
2005 Friedrich J, Dandekar T, Wolf M, Müller T. ProfDist: a tool for the construction of large phylogenetic trees based on profile distances. Bioinformatics (Oxford, England). 21: 2108-9. PMID 15677706 DOI: 10.1093/Bioinformatics/Bti289  0.594
2004 Krause R, von Mering C, Bork P, Dandekar T. Shared components of protein complexes--versatile building blocks or biochemical artefacts? Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 26: 1333-43. PMID 15551274 DOI: 10.1002/Bies.20141  0.687
2004 Müller T, Rahmann S, Dandekar T, Wolf M. Accurate and robust phylogeny estimation based on profile distances: a study of the Chlorophyceae (Chlorophyta). Bmc Evolutionary Biology. 4: 20. PMID 15222898 DOI: 10.1186/1471-2148-4-20  0.57
2004 Bengert P, Dandekar T. Riboswitch finder--a tool for identification of riboswitch RNAs. Nucleic Acids Research. 32: W154-9. PMID 15215370 DOI: 10.1093/Nar/Gkh352  0.335
2004 Wolf M, Müller T, Dandekar T, Pollack JD. Phylogeny of Firmicutes with special reference to Mycoplasma (Mollicutes) as inferred from phosphoglycerate kinase amino acid sequence data. International Journal of Systematic and Evolutionary Microbiology. 54: 871-5. PMID 15143038 DOI: 10.1099/Ijs.0.02868-0  0.614
2004 Bertram H, Dandekar T. Stoffwechselanalyse: Der Weg vom Genom zum metabolischen Netzwerk (Pathway Analysis: On the Route from Genomics to Metabolic Networks) Information Technology. 46: 5-11. DOI: 10.1524/Itit.46.1.5.26504  0.317
2004 Dünßer M, Lampidis R, Schmidt S, Seipel D, Dandekar T. Integration of Data in Pathogenomics: Three Layers of cellular complexity and an XML-based Framework Journal of Integrative Bioinformatics. 1: 52-63. DOI: 10.1515/Jib-2004-5  0.382
2003 Zemojtel T, Wade RC, Dandekar T. In search of the prototype of nitric oxide synthase Febs Letters. 554: 1-5. PMID 14596904 DOI: 10.1016/S0014-5793(03)01081-0  0.316
2003 Dandekar T, Moldenhauer F, Bulik S, Bertram H, Schuster S. A method for classifying metabolites in topological pathway analyses based on minimization of pathway number Biosystems. 70: 255-270. PMID 12941488 DOI: 10.1016/S0303-2647(03)00067-4  0.308
2003 Lohmüller T, Wenzler D, Hagemann S, Kieß W, Peters C, Dandekar T, Reinheckel T. Toward computer-based cleavage site prediction of cysteine endopeptidases Biological Chemistry. 384: 899-909. PMID 12887057 DOI: 10.1515/Bc.2003.101  0.326
2003 Schmidt S, Sunyaev S, Bork P, Dandekar T. Metabolites: a helping hand for pathway evolution? Trends in Biochemical Sciences. 28: 336-41. PMID 12826406 DOI: 10.1016/S0968-0004(03)00114-2  0.67
2002 Dandekar T, Sauerborn R. Comparative genome analysis and pathway reconstruction Pharmacogenomics. 3: 245-256. PMID 11972445 DOI: 10.1517/14622416.3.2.245  0.342
2002 Schmidt S, Bork P, Dandekar T. A versatile structural domain analysis server using profile weight matrices. Journal of Chemical Information and Computer Sciences. 42: 405-7. PMID 11911710 DOI: 10.1021/Ci010374R  0.602
2001 Dandekar T, Du F, Schirmer RH, Schmidt S. Medical target prediction from genome sequence: Combining different sequence analysis algorithms with expert knowledge and input from artificial intelligence approaches Computers and Chemistry. 26: 15-21. PMID 11765847 DOI: 10.1016/S0097-8485(01)00095-X  0.364
2001 Saxena IM, Brown RM, Dandekar T. Structure - Function characterization of cellulose synthase: Relationship to other glycosyltransferases Phytochemistry. 57: 1135-1148. PMID 11430986 DOI: 10.1016/S0031-9422(01)00048-6  0.311
2001 Dandekar T. Trends in biochemical systems Trends in Biochemical Sciences. 26: 637. DOI: 10.1016/S0968-0004(01)01871-0  0.308
2000 Dandekar T, Huynen M, Regula JT, Ueberle B, Zimmermann CU, Andrade MA, Doerks T, Sánchez-Pulido L, Snel B, Suyama M, Yuan YP, Herrmann R, Bork P. Re-annotating the Mycoplasma pneumoniae genome sequence: adding value, function and reading frames. Nucleic Acids Research. 28: 3278-88. PMID 10954595 DOI: 10.1093/Nar/28.17.3278  0.781
2000 Kenealy MR, Flouriot G, Sonntag-Buck V, Dandekar T, Brand H, Gannon F. The 3′-untranslated region of the human estrogen receptor α gene mediates rapid messenger ribonucleic acid turnover Endocrinology. 141: 2805-2813. PMID 10919266 DOI: 10.1210/Endo.141.8.7613  0.303
2000 Schuster S, Fell DA, Dandekar T. A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks. Nature Biotechnology. 18: 326-32. PMID 10700151 DOI: 10.1038/73786  0.309
1999 Dandekar T, Schuster S, Snel B, Huynen M, Bork P. Pathway alignment: application to the comparative analysis of glycolytic enzymes. The Biochemical Journal. 343: 115-24. PMID 10493919 DOI: 10.1042/Bj3430115  0.762
1999 Huynen MA, Dandekar T, Bork P. Variation and evolution of the citric-acid cycle: a genomic perspective. Trends in Microbiology. 7: 281-91. PMID 10390638 DOI: 10.1016/S0966-842X(99)01539-5  0.673
1999 Schuster S, Dandekar T, Fell DA. Detection of elementary flux modes in biochemical networks: a promising tool for pathway analysis and metabolic engineering. Trends in Biotechnology. 17: 53-60. PMID 10087604 DOI: 10.1016/S0167-7799(98)01290-6  0.303
1999 König R, Dandekar T. Refined genetic algorithm simulations to model proteins Journal of Molecular Modeling. 5: 317-324. DOI: 10.1007/Pl00010719  0.353
1998 Bork P, Dandekar T, Diaz-Lazcoz Y, Eisenhaber F, Huynen M, Yuan Y. Predicting function: from genes to genomes and back. Journal of Molecular Biology. 283: 707-25. PMID 9790834 DOI: 10.1006/Jmbi.1998.2144  0.707
1998 Dandekar T, Snel B, Huynen M, Bork P. Conservation of gene order: a fingerprint of proteins that physically interact. Trends in Biochemical Sciences. 23: 324-8. PMID 9787636 DOI: 10.1016/S0968-0004(98)01274-2  0.744
1998 Dandekar T, Beyer K, Bork P, Kenealy MR, Pantopoulos K, Hentze M, Sonntag-Buck V, Flouriot G, Gannon F, Schreiber S. Systematic genomic screening and analysis of mRNA in untranslated regions and mRNA precursors: combining experimental and computational approaches. Bioinformatics (Oxford, England). 14: 271-8. PMID 9614270 DOI: 10.1093/BIOINFORMATICS/14.3.271  0.533
1998 Huynen M, Dandekar T, Bork P. Differential genome analysis applied to the species-specific features of Helicobacter pylori. Febs Letters. 426: 1-5. PMID 9598967 DOI: 10.1016/S0014-5793(98)00276-2  0.689
1998 Bork P, Dandekar T, Eisenhaber F, Huynen M. Characterization of targeting domains by sequence analysis: glycogen-binding domains in protein phosphatases. Journal of Molecular Medicine (Berlin, Germany). 76: 77-9. PMID 9500672 DOI: 10.1007/s001090050194  0.501
1998 Petfalski E, Dandekar T, Henry Y, Tollervey D. Processing of the precursors to small nucleolar RNAs and rRNAs requires common components Molecular and Cellular Biology. 18: 1181-1189. PMID 9488433 DOI: 10.1128/Mcb.18.3.1181  0.312
1998 Jacobs T, Bruchhaus I, Dandekar T, Tannich E, Leippe M. Isolation and molecular characterization of a surface-bound proteinase of Entamoeba histolytica. Molecular Microbiology. 27: 269-76. PMID 9484883 DOI: 10.1046/J.1365-2958.1998.00662.X  0.31
1998 Dandekar T, Argos P. Applying experimental data to protein fold prediction with the genetic algorithm. Protein Engineering. 10: 877-93. PMID 9415438 DOI: 10.1093/Protein/10.8.877  0.323
1997 Beyer K, Dandekar T, Keller W. RNA Ligands Selected by Cleavage Stimulation Factor Contain Distinct Sequence Motifs That Function as Downstream Elements in 3′-End Processing of Pre-mRNA Journal of Biological Chemistry. 272: 26769-26779. PMID 9334264 DOI: 10.1074/Jbc.272.42.26769  0.309
1996 Dandekar T, Argos P. Ab initio tertiary-fold prediction of helical and non-helical protein chains using a genetic algorithm. International Journal of Biological Macromolecules. 18: 1-4. PMID 8852746 DOI: 10.1016/0141-8130(95)01036-X  0.302
1996 Dandekar T, Argos P. Identifying the tertiary fold of small proteins with different topologies from sequence and secondary structure using the genetic algorithm and extended criteria specific for strand regions. Journal of Molecular Biology. 256: 645-60. PMID 8604145 DOI: 10.1006/Jmbi.1996.0115  0.344
1995 Dandekar T, Hentze MW. Finding the hairpin in the haystack: searching for RNA motifs. Trends in Genetics : Tig. 11: 45-50. PMID 7536364 DOI: 10.1016/S0168-9525(00)88996-9  0.311
1994 Dandekar T, Argos P. Folding the main chain of small proteins with the genetic algorithm. Journal of Molecular Biology. 236: 844-61. PMID 8114098 DOI: 10.1006/Jmbi.1994.1193  0.304
1993 Dandekar T, Argos P. Potential of genetic algorithms in protein folding and protein engineering simulations. Protein Engineering. 5: 637-45. PMID 1480618 DOI: 10.1093/Protein/5.7.637  0.306
1993 Dandekar T, Tollervey D. Identification and functional analysis of a novel yeast small nucleolar RNA Nucleic Acids Research. 21: 5386-5390. DOI: 10.1093/Nar/21.23.5386  0.32
1992 Dandekar T. Yeast U3 localization and correct sequence (snR17a) and promotor activity (snR17b) identified by homology search. Dna Sequence : the Journal of Dna Sequencing and Mapping. 1: 217-8. PMID 1773061 DOI: 10.3109/10425179109020774  0.308
1990 Dandekar T, Sibbald PR. Trans-splicing of pre-mRNA is predicted to occur in a wide range of organisms including vertebrates. Nucleic Acids Research. 18: 4719-25. PMID 2395638 DOI: 10.1093/Nar/18.16.4719  0.304
1989 Dandekar T, Ribes V, Tollervey D. Schizosaccharomyces pombe U4 small nuclear RNA closely resembles vertebrate U4 and is required for growth Journal of Molecular Biology. 208: 371-379. DOI: 10.1016/0022-2836(89)90502-0  0.317
Low-probability matches (unlikely to be authored by this person)
2004 Zientz E, Dandekar T, Gross R. Metabolic interdependence of obligate intracellular bacteria and their insect hosts. Microbiology and Molecular Biology Reviews : Mmbr. 68: 745-70. PMID 15590782 DOI: 10.1128/Mmbr.68.4.745-770.2004  0.299
2003 Bengert P, Dandekar T. A software tool-box for analysis of regulatory RNA elements Nucleic Acids Research. 31: 3441-3445. PMID 12824342 DOI: 10.1093/Nar/Gkg568  0.299
2009 Zhang Q, Liang C, Yu YA, Chen N, Dandekar T, Szalay AA. The highly attenuated oncolytic recombinant vaccinia virus GLV-1h68: comparative genomic features and the contribution of F14.5L inactivation. Molecular Genetics and Genomics : Mgg. 282: 417-35. PMID 19701652 DOI: 10.1007/S00438-009-0475-1  0.298
2002 Schuster S, Pfeiffer T, Moldenhauer F, Koch I, Dandekar T. Exploring the pathway structure of metabolism: Decomposition into subnetworks and application to Mycoplasma pneumoniae Bioinformatics. 18: 351-361. PMID 11847093 DOI: 10.1093/Bioinformatics/18.2.351  0.297
2011 Liang C, Liebeke M, Schwarz R, Zühlke D, Fuchs S, Menschner L, Engelmann S, Wolz C, Jaglitz S, Bernhardt J, Hecker M, Lalk M, Dandekar T. Staphylococcus aureus physiological growth limitations: insights from flux calculations built on proteomics and external metabolite data. Proteomics. 11: 1915-35. PMID 21472852 DOI: 10.1002/Pmic.201000151  0.297
2005 Dittrich M, Birschmann I, Stuhlfelder C, Sickmann A, Herterich S, Nieswandt B, Walter U, Dandekar T. Understanding platelets. Lessons from proteomics, genomics and promises from network analysis. Thrombosis and Haemostasis. 94: 916-25. PMID 16363231 DOI: 10.1160/Th05-02-0121  0.296
2019 Srivastava M, Bencurova E, Gupta SK, Weiss E, Löffler J, Dandekar T. Challenged by Human Dendritic Cells: Metabolic and Regulatory Pathway Responses Testify a Tight Battle. Frontiers in Cellular and Infection Microbiology. 9: 168. PMID 31192161 DOI: 10.3389/Fcimb.2019.00168  0.296
1999 Dandekar T, Du F. Analyzing the Interplay Between Secondary and Tertiary Structure Predictions in Folding Simulations with a Genetic Algorithm Journal of Molecular Modeling. 5: 78-89. DOI: 10.1007/S0089490050078  0.295
2012 Schokraie E, Warnken U, Hotz-Wagenblatt A, Grohme MA, Hengherr S, Förster F, Schill RO, Frohme M, Dandekar T, Schnölzer M. Comparative proteome analysis of Milnesium tardigradum in early embryonic state versus adults in active and anhydrobiotic state. Plos One. 7: e45682. PMID 23029181 DOI: 10.1371/Journal.Pone.0045682  0.294
1993 Dandekar T, Argos P. Genetic algorithms as a new tool to study protein stability Studies in Organic Chemistry. 47: 283-290. DOI: 10.1016/B978-0-444-89372-7.50037-3  0.293
2010 Vainshtein Y, Sanchez M, Brazma A, Hentze MW, Dandekar T, Muckenthaler MU. The IronChip evaluation package: a package of perl modules for robust analysis of custom microarrays. Bmc Bioinformatics. 11: 112. PMID 20193060 DOI: 10.1186/1471-2105-11-112  0.293
2013 Audretsch C, Lopez D, Srivastava M, Wolz C, Dandekar T. A semi-quantitative model of Quorum-Sensing in Staphylococcus aureus, approved by microarray meta-analyses and tested by mutation studies. Molecular Biosystems. 9: 2665-80. PMID 23959234 DOI: 10.1039/C3Mb70117D  0.292
2009 Philippi N, Walter D, Schlatter R, Ferreira K, Ederer M, Sawodny O, Timmer J, Borner C, Dandekar T. Modeling system states in liver cells: survival, apoptosis and their modifications in response to viral infection. Bmc Systems Biology. 3: 97. PMID 19772631 DOI: 10.1186/1752-0509-3-97  0.292
2014 Ahmed Z, Zeeshan S, Huber C, Hensel M, Schomburg D, Münch R, Eylert E, Eisenreich W, Dandekar T. 'Isotopo' a database application for facile analysis and management of mass isotopomer data. Database : the Journal of Biological Databases and Curation. 2014. PMID 25204646 DOI: 10.1093/Database/Bau077  0.291
2007 Schwarz R, Liang C, Kaleta C, Kühnel M, Hoffmann E, Kuznetsov S, Hecker M, Griffiths G, Schuster S, Dandekar T. Integrated network reconstruction, visualization and analysis using YANAsquare. Bmc Bioinformatics. 8: 313. PMID 17725829 DOI: 10.1186/1471-2105-8-313  0.29
2006 Eisenreich W, Slaghuis J, Laupitz R, Bussemer J, Stritzker J, Schwarz C, Schwarz R, Dandekar T, Goebel W, Bacher A. 13C isotopologue perturbation studies of Listeria monocytogenes carbon metabolism and its modulation by the virulence regulator PrfA. Proceedings of the National Academy of Sciences of the United States of America. 103: 2040-5. PMID 16461909 DOI: 10.1073/Pnas.0507580103  0.289
2013 Mischnik M, Boyanova D, Hubertus K, Geiger J, Philippi N, Dittrich M, Wangorsch G, Timmer J, Dandekar T. A Boolean view separates platelet activatory and inhibitory signalling as verified by phosphorylation monitoring including threshold behaviour and integrin modulation. Molecular Biosystems. 9: 1326-39. PMID 23463387 DOI: 10.1039/C3Mb25597B  0.288
2012 Dandekar T, Astrid F, Jasmin P, Hensel M. Salmonella enterica: a surprisingly well-adapted intracellular lifestyle. Frontiers in Microbiology. 3: 164. PMID 22563326 DOI: 10.3389/Fmicb.2012.00164  0.288
2012 Zirkel J, Cecil A, Schäfer F, Rahlfs S, Ouedraogo A, Xiao K, Sawadogo S, Coulibaly B, Becker K, Dandekar T. Analyzing Thiol-Dependent Redox Networks in the Presence of Methylene Blue and Other Antimalarial Agents with RT-PCR-Supported in silico Modeling. Bioinformatics and Biology Insights. 6: 287-302. PMID 23236254 DOI: 10.4137/Bbi.S10193  0.288
1997 Saxena P, Whang I, Voziyanov Y, Harkey C, Argos P, Jayaram M, Dandekar T. Probing Flp: A new approach to analyze the structure of a DNA recognizing protein by combining the genetic algorithm, mutagenesis and non-canonical DNA target sites Biochimica Et Biophysica Acta - Protein Structure and Molecular Enzymology. 1340: 187-204. PMID 9252106 DOI: 10.1016/S0167-4838(97)00017-4  0.287
2012 Naseem M, Philippi N, Hussain A, Wangorsch G, Ahmed N, Dandekar T. Integrated systems view on networking by hormones in Arabidopsis immunity reveals multiple crosstalk for cytokinin. The Plant Cell. 24: 1793-814. PMID 22643121 DOI: 10.1105/Tpc.112.098335  0.286
2010 Eisenreich W, Dandekar T, Heesemann J, Goebel W. Carbon metabolism of intracellular bacterial pathogens and possible links to virulence. Nature Reviews. Microbiology. 8: 401-12. PMID 20453875 DOI: 10.1038/Nrmicro2351  0.286
2002 Pollack JD, Myers MA, Dandekar T, Herrmann R. Suspected utility of enzymes with multiple activities in the small genome Mycoplasma species: The replacement of the missing "household" nucleoside diphosphate kinase gene and activity by glycolytic kinases Omics a Journal of Integrative Biology. 6: 247-258. PMID 12427276 DOI: 10.1089/15362310260256909  0.285
2014 Naseem M, Kunz M, Dandekar T. Probing the unknowns in cytokinin-mediated immune defense in Arabidopsis with systems biology approaches. Bioinformatics and Biology Insights. 8: 35-44. PMID 24558299 DOI: 10.4137/Bbi.S13462  0.285
2013 Karl S, Dandekar T. Jimena: efficient computing and system state identification for genetic regulatory networks. Bmc Bioinformatics. 14: 306. PMID 24118878 DOI: 10.1186/1471-2105-14-306  0.284
1991 Dandekar T, Stripecke R, Gray N, Goossen B, Constable A, Johansson H, Hentze M. Identification of a novel iron-responsive element in murine and human erythroid delta-aminolevulinic acid synthase mRNA. The Embo Journal. 10: 1903-1909. DOI: 10.1002/J.1460-2075.1991.Tb07716.X  0.284
2013 Ahmed Z, Zeeshan S, Huber C, Hensel M, Schomburg D, Münch R, Eisenreich W, Dandekar T. Software LS-MIDA for efficient mass isotopomer distribution analysis in metabolic modelling. Bmc Bioinformatics. 14: 218. PMID 23837681 DOI: 10.1186/1471-2105-14-218  0.284
2006 Petermann I, Mayer C, Stypmann J, Biniossek ML, Tobin DJ, Engelen MA, Dandekar T, Grune T, Schild L, Peters C, Reinheckel T. Lysosomal, cytoskeletal, and metabolic alterations in cardiomyopathy of cathepsin L knockout mice. Faseb Journal : Official Publication of the Federation of American Societies For Experimental Biology. 20: 1266-8. PMID 16636100 DOI: 10.1096/Fj.05-5517Fje  0.284
2005 Penzkofer T, Dandekar T, Zemojtel T. L1Base: from functional annotation to prediction of active LINE-1 elements. Nucleic Acids Research. 33: D498-500. PMID 15608246 DOI: 10.1093/Nar/Gki044  0.284
2012 Boyanova D, Nilla S, Birschmann I, Dandekar T, Dittrich M. PlateletWeb: a systems biologic analysis of signaling networks in human platelets. Blood. 119: e22-34. PMID 22123846 DOI: 10.1182/Blood-2011-10-387308  0.284
2011 Wangorsch G, Butt E, Mark R, Hubertus K, Geiger J, Dandekar T, Dittrich M. Time-resolved in silico modeling of fine-tuned cAMP signaling in platelets: feedback loops, titrated phosphorylations and pharmacological modulation. Bmc Systems Biology. 5: 178. PMID 22034949 DOI: 10.1186/1752-0509-5-178  0.284
2004 Faller D, Reinheckel T, Wenzler D, Hagemann S, Xiao K, Honerkamp J, Peters C, Dandekar T, Timmer J. An open source protein gel documentation system for proteome analyses. Journal of Chemical Information and Computer Sciences. 44: 168-9. PMID 14741024 DOI: 10.1021/Ci034174M  0.284
1992 Dandekar T, Tollervey D. Mutational analysis of Schizosaccharomyces pombe U4 snRNA by plasmid exchange. Yeast (Chichester, England). 8: 647-53. PMID 1441744 DOI: 10.1002/Yea.320080808  0.284
2017 Kunz M, Dandekar T, Naseem M. A Systems Biology Methodology Combining Transcriptome and Interactome Datasets to Assess the Implications of Cytokinin Signaling for Plant Immune Networks. Methods in Molecular Biology (Clifton, N.J.). 1569: 165-173. PMID 28265997 DOI: 10.1007/978-1-4939-6831-2_14  0.284
2020 Naseem M, Othman EM, Fathy M, Iqbal J, Howari FM, AlRemeithi FA, Kodandaraman G, Stopper H, Bencurova E, Vlachakis D, Dandekar T. Integrated structural and functional analysis of the protective effects of kinetin against oxidative stress in mammalian cellular systems. Scientific Reports. 10: 13330. PMID 32770053 DOI: 10.1038/S41598-020-70253-1  0.283
1999 Nickel R, Claudia O, Dandekar T, Leippe M. Pore-forming peptides of Entamoeba dispar. Similarity and divergence to amoebapores in structure, expression and activity European Journal of Biochemistry. 265: 1002-1007. PMID 10518795 DOI: 10.1046/J.1432-1327.1999.00807.X  0.283
2015 Dandekar T, Eisenreich W. Host-adapted metabolism and its regulation in bacterial pathogens. Frontiers in Cellular and Infection Microbiology. 5: 28. PMID 25870851 DOI: 10.3389/Fcimb.2015.00028  0.282
1997 Dandekar T. Improving Protein Structure Prediction by New Strategies: Experimental Insights and the Genetic Algorithm Journal of Molecular Modeling. 3: 312-314. DOI: 10.1007/S008940050043  0.282
2015 Ahmed Z, Dandekar T. MSL: Facilitating automatic and physical analysis of published scientific literature in PDF format. F1000research. 4: 1453. PMID 29721305 DOI: 10.12688/F1000Research.7329.3  0.282
2000 Tribble G, Ahn YT, Lee J, Dandekar T, Jayaram M. DNA recognition, strand selectivity, and cleavage mode during integrase family site-specific recombination Journal of Biological Chemistry. 275: 22255-22267. PMID 10748094 DOI: 10.1074/Jbc.M908261199  0.281
2016 Kunz M, Liang C, Nilla S, Cecil A, Dandekar T. The drug-minded protein interaction database (DrumPID) for efficient target analysis and drug development. Database : the Journal of Biological Databases and Curation. 2016. PMID 27055828 DOI: 10.1093/Database/Baw041  0.281
2008 Reuner A, Brümmer F, Schill RO, Zantke J, Kube M, Kuhl H, Reinhardt R, Mali B, Frohme M, Förster F, Dandekar T. Mechanisms and molecular adaptation to extreme dehydration in tardigrades: Hsp gene expression in Milnesium tardigradum Comparative Biochemistry and Physiology a-Molecular & Integrative Physiology. 151. DOI: 10.1016/J.Cbpa.2008.05.114  0.281
2004 Ziebuhr W, Xiao K, Coulibaly B, Schwarz R, Dandekar T. Pharmacogenomic strategies against resistance development in microbial infections. Pharmacogenomics. 5: 361-79. PMID 15165173 DOI: 10.1517/14622416.5.4.361  0.28
2019 Hamprecht A, Barber AE, Mellinghoff SC, Thelen P, Walther G, Yu Y, Neurgaonkar P, Dandekar T, Cornely OA, Martin R, Kurzai O. Candida auris in Germany and Previous Exposure to Foreign Healthcare. Emerging Infectious Diseases. 25. PMID 31223105 DOI: 10.3201/Eid2509.190262  0.28
2019 Kunz M, Jeromin J, Fuchs M, Christoph J, Veronesi G, Flentje M, Nietzer S, Dandekar G, Dandekar T. In silico signaling modeling to understand cancer pathways and treatment responses. Briefings in Bioinformatics. PMID 31117120 DOI: 10.1093/Bib/Bbz033  0.279
2016 Liang C, Schaack D, Srivastava M, Gupta SK, Sarukhanyan E, Giese A, Pagels M, Romanov N, Pané-Farré J, Fuchs S, Dandekar T. A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades. Proteomes. 4. PMID 28248218 DOI: 10.3390/Proteomes4010008  0.279
2001 Dandekar T, Du F, Bertram H. Identification of cellular interactions in rna and protein molecules Nonlinear Analysis, Theory, Methods and Applications. 47: 225-234. DOI: 10.1016/S0362-546X(01)00171-7  0.278
2016 Brietz A, Schuch KV, Wangorsch G, Lorenz K, Dandekar T. Analyzing ERK 1/2 signalling and targets. Molecular Biosystems. PMID 27301697 DOI: 10.1039/C6Mb00255B  0.277
2006 Thakar J, Schleinkofer K, Borner C, Dandekar T. RIP death domain structural interactions implicated in TNF-mediated proliferation and survival. Proteins. 63: 413-23. PMID 16470584 DOI: 10.1002/Prot.20895  0.276
2011 Agarwal S, Kern S, Halbert J, Przyborski JM, Baumeister S, Dandekar T, Doerig C, Pradel G. Two nucleus-localized CDK-like kinases with crucial roles for malaria parasite erythrocytic replication are involved in phosphorylation of splicing factor. Journal of Cellular Biochemistry. 112: 1295-310. PMID 21312235 DOI: 10.1002/Jcb.23034  0.275
2005 Bengert P, Dandekar T. Current efforts in the analysis of RNAi and RNAi target genes. Briefings in Bioinformatics. 6: 72-85. PMID 15826358 DOI: 10.1093/Bib/6.1.72  0.275
2014 Dandekar T, Fieselmann A, Fischer E, Popp J, Hensel M, Noster J. Salmonella-how a metabolic generalist adopts an intracellular lifestyle during infection. Frontiers in Cellular and Infection Microbiology. 4: 191. PMID 25688337 DOI: 10.3389/Fcimb.2014.00191  0.274
2013 Schulze K, Tillich UM, Dandekar T, Frohme M. PlanktoVision--an automated analysis system for the identification of phytoplankton. Bmc Bioinformatics. 14: 115. PMID 23537512 DOI: 10.1186/1471-2105-14-115  0.274
2019 Breitenbach T, Lorenz K, Dandekar T. How to Steer and Control ERK and the ERK Signaling Cascade Exemplified by Looking at Cardiac Insufficiency. International Journal of Molecular Sciences. 20. PMID 31052520 DOI: 10.3390/Ijms20092179  0.273
2008 Birschmann I, Mietner S, Dittrich M, Pfrang J, Dandekar T, Walter U. Use of functional highly purified human platelets for the identification of new proteins of the IPP signaling pathway. Thrombosis Research. 122: 59-68. PMID 17931695 DOI: 10.1016/J.Thromres.2007.08.022  0.273
2017 Temme S, Friebe D, Schmidt T, Poschmann G, Hesse J, Steckel B, Stühler K, Kunz M, Dandekar T, Ding Z, Akhyari P, Lichtenberg A, Schrader J. Genetic profiling and surface proteome analysis of human atrial stromal cells and rat ventricular epicardium-derived cells reveals novel insights into their cardiogenic potential. Stem Cell Research. 25: 183-190. PMID 29156374 DOI: 10.1016/J.Scr.2017.11.006  0.273
2014 Ahmed Z, Zeeshan S, Fleischmann P, Rössler W, Dandekar T. Ant-App-DB: a smart solution for monitoring arthropods activities, experimental data management and solar calculations without GPS in behavioral field studies. F1000research. 3: 311. PMID 25977753 DOI: 10.12688/F1000Research.5931.3  0.272
2014 Shityakov S, Förster C, Rethwilm A, Dandekar T. Evaluation and prediction of the HIV-1 central polypurine tract influence on foamy viral vectors to transduce dividing and growth-arrested cells. Thescientificworldjournal. 2014: 487969. PMID 25009830 DOI: 10.1155/2014/487969  0.27
2006 Sanchez M, Galy B, Dandekar T, Bengert P, Vainshtein Y, Stolte J, Muckenthaler MU, Hentze MW. Iron regulation and the cell cycle: identification of an iron-responsive element in the 3'-untranslated region of human cell division cycle 14A mRNA by a refined microarray-based screening strategy. The Journal of Biological Chemistry. 281: 22865-74. PMID 16760464 DOI: 10.1074/Jbc.M603876200  0.27
2011 Ratzka C, Liang C, Dandekar T, Gross R, Feldhaar H. Immune response of the ant Camponotus floridanus against pathogens and its obligate mutualistic endosymbiont. Insect Biochemistry and Molecular Biology. 41: 529-36. PMID 21440063 DOI: 10.1016/J.Ibmb.2011.03.002  0.27
2015 Karl S, Dandekar T. Convergence behaviour and Control in Non-Linear Biological Networks. Scientific Reports. 5: 9746. PMID 26068060 DOI: 10.1038/Srep09746  0.269
2020 Naseem M, Osmanoglu O, Iqbal J, Howari FM, AlRemeithi FA, Kaltdorf M, Dandekar T. Mapping a Transcriptome-Guided Arabidopsis SAM Interactome. Methods in Molecular Biology (Clifton, N.J.). 2094: 113-118. PMID 31797296 DOI: 10.1007/978-1-0716-0183-9_12  0.269
2019 Baur F, Nietzer SL, Kunz M, Saal F, Jeromin J, Matschos S, Linnebacher M, Walles H, Dandekar T, Dandekar G. Connecting Cancer Pathways to Tumor Engines: A Stratification Tool for Colorectal Cancer Combining Human In Vitro Tissue Models with Boolean In Silico Models. Cancers. 12. PMID 31861874 DOI: 10.3390/Cancers12010028  0.268
2017 Kaltdorf M, Dandekar T, Naseem M. Reconstruction of an Immune Dynamic Model to Simulate the Contrasting Role of Auxin and Cytokinin in Plant Immunity. Methods in Molecular Biology (Clifton, N.J.). 1569: 83-92. PMID 28265989 DOI: 10.1007/978-1-4939-6831-2_6  0.267
2014 Stratmann AT, Fecher D, Wangorsch G, Göttlich C, Walles T, Walles H, Dandekar T, Dandekar G, Nietzer SL. Establishment of a human 3D lung cancer model based on a biological tissue matrix combined with a Boolean in silico model. Molecular Oncology. 8: 351-65. PMID 24388494 DOI: 10.1016/J.Molonc.2013.11.009  0.267
2012 Schlatter R, Philippi N, Wangorsch G, Pick R, Sawodny O, Borner C, Timmer J, Ederer M, Dandekar T. Integration of Boolean models exemplified on hepatocyte signal transduction. Briefings in Bioinformatics. 13: 365-76. PMID 22016404 DOI: 10.1093/Bib/Bbr065  0.267
2013 Naseem M, Kunz M, Ahmed N, Dandekar T. Integration of boolean models on hormonal interactions and prospects of cytokinin-auxin crosstalk in plant immunity. Plant Signaling & Behavior. 8: e23890. PMID 23425857 DOI: 10.4161/Psb.23890  0.266
2018 Naseem M, Bencurova E, Dandekar T. The Cytokinin-Activating LOG-Family Proteins Are Not Lysine Decarboxylases. Trends in Biochemical Sciences. PMID 29525484 DOI: 10.1016/J.Tibs.2018.01.002  0.265
2004 Zemojtel T, Penzkofer T, Dandekar T, Schultz J. A novel conserved family of nitric oxide synthase? Trends in Biochemical Sciences. 29: 224-226. PMID 15130557 DOI: 10.1016/J.Tibs.2004.03.005  0.265
2007 Zemojtel T, Penzkofer T, Schultz J, Dandekar T, Badge R, Vingron M. Exonization of active mouse L1s: a driver of transcriptome evolution? Bmc Genomics. 8: 392. PMID 17963496 DOI: 10.1186/1471-2164-8-392  0.264
2020 Naseem M, Srivastava M, Osmanoglu O, Iqbal J, Howari FM, AlRemeithi FA, Dandekar T. Molecular Modeling of the Interaction Between Stem Cell Peptide and Immune Receptor in Plants. Methods in Molecular Biology (Clifton, N.J.). 2094: 67-77. PMID 31797292 DOI: 10.1007/978-1-0716-0183-9_8  0.263
2001 König R, Dandekar T. Solvent entropy-driven searching for protein modeling examined and tested in simplified models Protein Engineering. 14: 329-335. PMID 11438755 DOI: 10.1093/Protein/14.5.329  0.262
2019 Breitenbach T, Liang C, Beyersdorf N, Dandekar T. Analyzing pharmacological intervention points: A method to calculate external stimuli to switch between steady states in regulatory networks. Plos Computational Biology. 15: e1007075. PMID 31310618 DOI: 10.1371/Journal.Pcbi.1007075  0.262
2015 Dühring S, Germerodt S, Skerka C, Zipfel PF, Dandekar T, Schuster S. Host-pathogen interactions between the human innate immune system and Candida albicans-understanding and modeling defense and evasion strategies. Frontiers in Microbiology. 6: 625. PMID 26175718 DOI: 10.3389/Fmicb.2015.00625  0.261
2008 Dittrich M, Birschmann I, Mietner S, Sickmann A, Walter U, Dandekar T. Platelet protein interactions: map, signaling components, and phosphorylation groundstate. Arteriosclerosis, Thrombosis, and Vascular Biology. 28: 1326-31. PMID 18451328 DOI: 10.1161/Atvbaha.107.161000  0.261
2011 Mischke R, Kühnlein P, Kehl A, Langbein-Detsch I, Steudle F, Schmid A, Dandekar T, Czwalinna A, Müller E. G244E in the canine factor IX gene leads to severe haemophilia B in Rhodesian Ridgebacks. Veterinary Journal (London, England : 1997). 187: 113-8. PMID 20303304 DOI: 10.1016/J.Tvjl.2010.01.017  0.261
2014 Kern S, Agarwal S, Huber K, Gehring AP, Strödke B, Wirth CC, Brügl T, Abodo LO, Dandekar T, Doerig C, Fischer R, Tobin AB, Alam MM, Bracher F, Pradel G. Inhibition of the SR protein-phosphorylating CLK kinases of Plasmodium falciparum impairs blood stage replication and malaria transmission. Plos One. 9: e105732. PMID 25188378 DOI: 10.1371/Journal.Pone.0105732  0.26
2010 Löhmann C, Schachmann E, Dandekar T, Villmann C, Becker CM. Developmental profiling by mass spectrometry of phosphocholine containing phospholipids in the rat nervous system reveals temporo-spatial gradients. Journal of Neurochemistry. 114: 1119-34. PMID 20524967 DOI: 10.1111/J.1471-4159.2010.06836.X  0.26
2015 Ahmed Z, Mayr M, Zeeshan S, Dandekar T, Mueller MJ, Fekete A. Lipid-Pro: a computational lipid identification solution for untargeted lipidomics on data-independent acquisition tandem mass spectrometry platforms. Bioinformatics (Oxford, England). 31: 1150-3. PMID 25433698 DOI: 10.1093/Bioinformatics/Btu796  0.26
2008 Kube M, Schneider B, Kuhl H, Dandekar T, Heitmann K, Migdoll AM, Reinhardt R, Seemüller E. The linear chromosome of the plant-pathogenic mycoplasma 'Candidatus Phytoplasma mali'. Bmc Genomics. 9: 306. PMID 18582369 DOI: 10.1186/1471-2164-9-306  0.258
2018 Göttlich C, Kunz M, Zapp C, Nietzer SL, Walles H, Dandekar T, Dandekar G. A combined tissue engineered / in silico signature tool for patient stratification in lung cancer. Molecular Oncology. PMID 29797762 DOI: 10.1002/1878-0261.12323  0.258
1998 Dandekar T, König R. Computational methods for the prediction of protein folds. Biochimica Et Biophysica Acta. 1343: 1-15. PMID 9428653 DOI: 10.1016/S0167-4838(97)00132-5  0.257
2005 Robubi A, Mueller T, Fueller J, Hekman M, Rapp UR, Dandekar T. B-Raf and C-Raf signaling investigated in a simplified model of the mitogenic kinase cascade. Biological Chemistry. 386: 1165-71. PMID 16307482 DOI: 10.1515/Bc.2005.133  0.257
2009 Xiao K, Jehle F, Peters C, Reinheckel T, Schirmer RH, Dandekar T. CA/C1 peptidases of the malaria parasites Plasmodium falciparum and P. berghei and their mammalian hosts--a bioinformatical analysis. Biological Chemistry. 390: 1185-97. PMID 19663681 DOI: 10.1515/Bc.2009.124  0.256
2016 Kunz M, Wolf B, Schulze H, Atlan D, Walles T, Walles H, Dandekar T. Non-Coding RNAs in Lung Cancer: Contribution of Bioinformatics Analysis to the Development of Non-Invasive Diagnostic Tools. Genes. 8. PMID 28035947 DOI: 10.3390/Genes8010008  0.256
2010 Reuner A, Hengherr S, Mali B, Förster F, Arndt D, Reinhardt R, Dandekar T, Frohme M, Brümmer F, Schill RO. Stress response in tardigrades: differential gene expression of molecular chaperones. Cell Stress & Chaperones. 15: 423-30. PMID 19943197 DOI: 10.1007/S12192-009-0158-1  0.256
2012 Schokraie E, Warnken U, Hotz-Wagenblatt A, Grohme MA, Hengherr S, Förster F, Schill RO, Frohme M, Dandekar T, Schnölzer M. The experimental workflow to analyze the proteome of Milnesium tardigradum. Plos One. DOI: 10.1371/Journal.Pone.0045682.G003  0.256
2012 Naseem M, Dandekar T. The role of auxin-cytokinin antagonism in plant-pathogen interactions. Plos Pathogens. 8: e1003026. PMID 23209407 DOI: 10.1371/Journal.Ppat.1003026  0.254
2014 Naseem M, Wölfling M, Dandekar T. Cytokinins for immunity beyond growth, galls and green islands. Trends in Plant Science. 19: 481-4. PMID 24794463 DOI: 10.1016/J.Tplants.2014.04.001  0.254
2012 Ahmed Z, Majeed S, Dandekar T. Computational feature performance and domain specific architecture evaluation of software applications towards metabolic flux analysis Recent Patents On Computer Science. 5: 165-176. DOI: 10.2174/2213275911205030165  0.253
2008 Ohlsen K, Dandekar G, Schwarz R, Dandekar T. New trends in pharmacogenomic strategies against resistance development in microbial infections. Pharmacogenomics. 9: 1711-23. PMID 19018725 DOI: 10.2217/14622416.9.11.1711  0.253
2014 Kunz M, Xiao K, Liang C, Viereck J, Pachel C, Frantz S, Thum T, Dandekar T. Bioinformatics of cardiovascular miRNA biology. Journal of Molecular and Cellular Cardiology. PMID 25486579 DOI: 10.1016/J.Yjmcc.2014.11.027  0.252
1996 Dandekar T. The Genetic Algorithm Applied as a Modelling Tool to Predict the Fold of Small Proteins with Different Topologies Journal of Molecular Modeling. 2: 304-306. DOI: 10.1007/S0089460020304  0.252
2019 Sarukhanyan E, Shityakov S, Dandekar T. Rational Drug Design of Axl Tyrosine Kinase Type I Inhibitors as Promising Candidates Against Cancer. Frontiers in Chemistry. 7: 920. PMID 32117858 DOI: 10.3389/Fchem.2019.00920  0.252
2013 Naseem M, Kaltdorf M, Hussain A, Dandekar T. The impact of cytokinin on jasmonate-salicylate antagonism in Arabidopsis immunity against infection with Pst DC3000. Plant Signaling & Behavior. 8: doi: 10.4161/psb.267. PMID 24494231 DOI: 10.4161/Psb.26791  0.251
2004 Zemojtel T, Rini M, Heyne K, Dandekar T, Nibbering ETJ, Kozlowski PM. NO-Bound Myoglobin: Structural Diversity and Dynamics of the NO Ligand Journal of the American Chemical Society. 126: 1930-1931. PMID 14971914 DOI: 10.1021/Ja039086X  0.251
1997 Dandekar T, Koch G. DNA and mRNA sequence of the immune protective DNA ligase I gene match the rev response element of HIV. Dna Sequence : the Journal of Dna Sequencing and Mapping. 6: 119-21. PMID 8907308 DOI: 10.3109/10425179609010198  0.25
1999 König R, Dandekar T. Improving genetic algorithms for protein folding simulations by systematic crossover Biosystems. 50: 17-25. PMID 10235648 DOI: 10.1016/S0303-2647(98)00090-2  0.25
2001 Wang R, Zheng L, Touré YT, Dandekar T, Kafatos FC. When genetic distance matters: measuring genetic differentiation at microsatellite loci in whole-genome scans of recent and incipient mosquito species. Proceedings of the National Academy of Sciences of the United States of America. 98: 10769-74. PMID 11553812 DOI: 10.1073/Pnas.191003598  0.25
2017 Kaltdorf KV, Schulze K, Helmprobst F, Kollmannsberger P, Dandekar T, Stigloher C. FIJI Macro 3D ART VeSElecT: 3D Automated Reconstruction Tool for Vesicle Structures of Electron Tomograms. Plos Computational Biology. 13: e1005317. PMID 28056033 DOI: 10.1371/Journal.Pcbi.1005317  0.249
2016 Ahmed Z, Zeeshan S, Dandekar T. Mining biomedical images towards valuable information retrieval in biomedical and life sciences. Database : the Journal of Biological Databases and Curation. 2016. PMID 27538578 DOI: 10.1093/Database/Baw118  0.249
2013 Mischnik M, Hubertus K, Geiger J, Dandekar T, Timmer J. Dynamical modelling of prostaglandin signalling in platelets reveals individual receptor contributions and feedback properties. Molecular Biosystems. 9: 2520-9. PMID 23903629 DOI: 10.1039/C3Mb70142E  0.249
1996 Gray NK, Pantopoulos K, Dandekar T, Ackrell BA, Hentze MW. Translational regulation of mammalian and Drosophila citric acid cycle enzymes via iron-responsive elements. Proceedings of the National Academy of Sciences of the United States of America. 93: 4925-30. PMID 8643505 DOI: 10.1073/Pnas.93.10.4925  0.249
2014 Duell J, Dittrich M, Bedke T, Mueller T, Rasche L, Dandekar T, Einsele H, Topp MS. Crucial Role of Regulatory T Cells in Predicting the Outcome of the T Cell Engaging Antibody Blinatumomab in Relapsed and Refractory B Precursor ALL Patients Blood. 124: 2291-2291. DOI: 10.1182/Blood.V124.21.2291.2291  0.248
2010 Dandekar T, Dandekar G. Pharmacogenomic strategies against microbial resistance: from bright to bleak to innovative. Pharmacogenomics. 11: 1193-6. PMID 20860457 DOI: 10.2217/Pgs.10.18  0.247
2017 Kunz M, Göttlich C, Walles T, Nietzer S, Dandekar G, Dandekar T. MicroRNA-21 versus microRNA-34: Lung cancer promoting and inhibitory microRNAs analysed in silico and in vitro and their clinical impact. Tumour Biology : the Journal of the International Society For Oncodevelopmental Biology and Medicine. 39: 1010428317706430. PMID 28705115 DOI: 10.1177/1010428317706430  0.247
2014 Mischnik M, Gambaryan S, Subramanian H, Geiger J, Schütz C, Timmer J, Dandekar T. A comparative analysis of the bistability switch for platelet aggregation by logic ODE based dynamical modeling. Molecular Biosystems. 10: 2082-9. PMID 24852796 DOI: 10.1039/C4Mb00170B  0.246
1989 Dandekar T, Tollervey D. Cloning of Schizosaccharomyces pombe genes encoding the U1, U2, U3 and U4 snRNAs. Gene. 81: 227-35. PMID 2806913 DOI: 10.1016/0378-1119(89)90183-2  0.246
2013 Ahmed Z, Helfrich-Förster C, Dandekar T. Integrating formal UML designs and HCI patterns with spiral SDLC in droLIGHT implementation Recent Patents On Computer Science. 6: 85-98. DOI: 10.2174/22132759113069990005  0.246
2016 Viereck J, Kumarswamy R, Foinquinos A, Xiao K, Avramopoulos P, Kunz M, Dittrich M, Maetzig T, Zimmer K, Remke J, Just A, Fendrich J, Scherf K, Bolesani E, Schambach A, ... ... Dandekar T, et al. Long noncoding RNA Chast promotes cardiac remodeling. Science Translational Medicine. 8: 326ra22. PMID 26888430 DOI: 10.1126/Scitranslmed.Aaf1475  0.246
2016 Göttlich C, Müller LC, Kunz M, Schmitt F, Walles H, Walles T, Dandekar T, Dandekar G, Nietzer SL. A Combined 3D Tissue Engineered In Vitro/In Silico Lung Tumor Model for Predicting Drug Effectiveness in Specific Mutational Backgrounds. Journal of Visualized Experiments : Jove. PMID 27077967 DOI: 10.3791/53885  0.246
1999 Liu Z, Song D, Kramer A, Martin ACR, Dandekar T, Schneider-Mergener J, Bautz EKF, Dübel S. Fine mapping of the antigen-antibody interaction of scFv215, a recombinant antibody inhibiting RNA polymerase II from Drosophila melanogaster. Journal of Molecular Recognition. 12: 103-111. PMID 10398401 DOI: 10.1002/(Sici)1099-1352(199903/04)12:2<103::Aid-Jmr447>3.0.Co;2-B  0.246
2014 Ahmed Z, Zeeshan S, Dandekar T. Developing sustainable software solutions for bioinformatics by the " Butterfly" paradigm. F1000research. 3: 71. PMID 25383181 DOI: 10.12688/F1000Research.3681.2  0.245
2017 Dühring S, Ewald J, Germerodt S, Kaleta C, Dandekar T, Schuster S. Modelling the host-pathogen interactions of macrophages and Candida albicans using Game Theory and dynamic optimization. Journal of the Royal Society, Interface. 14. PMID 28701506 DOI: 10.1098/Rsif.2017.0095  0.245
2019 Cecil A, Gentschev I, Adelfinger M, Dandekar T, Szalay AA. Vaccinia virus injected human tumors: oncolytic virus efficiency predicted by antigen profiling analysis fitted boolean models. Bioengineered. 10: 190-196. PMID 31142183 DOI: 10.1080/21655979.2019.1622220  0.245
2017 Mitjans M, Begemann M, Ju A, Dere E, Wüstefeld L, Hofer S, Hassouna I, Balkenhol J, Oliveira B, van der Auwera S, Tammer R, Hammerschmidt K, Völzke H, Homuth G, Cecconi F, ... ... Dandekar T, et al. Sexual dimorphism of AMBRA1-related autistic features in human and mouse. Translational Psychiatry. 7: e1247. PMID 28994820 DOI: 10.1038/Tp.2017.213  0.244
2010 Shityakov S, Dandekar T. Lead expansion and virtual screening of Indinavir derivate HIV-1 protease inhibitors using pharmacophoric - shape similarity scoring function. Bioinformation. 4: 295-9. PMID 20978602 DOI: 10.6026/97320630004295  0.244
2014 Cecil A, Gentschev I, Adelfinger M, Nolte I, Dandekar T, Szalay AA. Antigen profiling analysis of vaccinia virus injected canine tumors: oncolytic virus efficiency predicted by boolean models. Bioengineered. 5: 319-25. PMID 25482233 DOI: 10.4161/Bioe.32227  0.244
2019 Fathy M, Fawzy MA, Hintzsche H, Nikaido T, Dandekar T, Othman EM. Eugenol Exerts Apoptotic Effect and Modulates the Sensitivity of HeLa Cells to Cisplatin and Radiation. Molecules (Basel, Switzerland). 24. PMID 31684176 DOI: 10.3390/Molecules24213979  0.243
2014 Naseem M, Srivastava M, Dandekar T. Stem-cell-triggered immunity safeguards cytokinin enriched plant shoot apexes from pathogen infection. Frontiers in Plant Science. 5: 588. PMID 25400652 DOI: 10.3389/Fpls.2014.00588  0.242
2018 Kunz M, Pittroff A, Dandekar T. Systems Biology Analysis to Understand Regulatory miRNA Networks in Lung Cancer. Methods in Molecular Biology (Clifton, N.J.). 1819: 235-247. PMID 30421407 DOI: 10.1007/978-1-4939-8618-7_11  0.241
2014 Wirth CC, Glushakova S, Scheuermayer M, Repnik U, Garg S, Schaack D, Kachman MM, Weißbach T, Zimmerberg J, Dandekar T, Griffiths G, Chitnis CE, Singh S, Fischer R, Pradel G. Perforin-like protein PPLP2 permeabilizes the red blood cell membrane during egress of Plasmodium falciparum gametocytes. Cellular Microbiology. 16: 709-33. PMID 24602217 DOI: 10.1111/Cmi.12288  0.241
2017 Wurster S, Thielen V, Weis P, Walther P, Elias J, Waaga-Gasser AM, Dragan M, Dandekar T, Einsele H, Löffler J, Ullmann AJ. Mucorales spores induce a proinflammatory cytokine response in human mononuclear phagocytes and harbor no rodlet hydrophobins. Virulence. 1-11. PMID 28783439 DOI: 10.1080/21505594.2017.1342920  0.241
2018 Prada J, Sasi M, Martin C, Jablonka S, Dandekar T, Blum R. An open source tool for automatic spatiotemporal assessment of calcium transients and local 'signal-close-to-noise' activity in calcium imaging data. Plos Computational Biology. 14: e1006054. PMID 29601577 DOI: 10.1371/Journal.Pcbi.1006054  0.241
2019 Grebinyk A, Yashchuk V, Bashmakova N, Gryn D, Hagemann T, Naumenko A, Kutsevol N, Dandekar T, Frohme M. A new triple system DNA-Nanosilver-Berberine for cancer therapy Applied Nanoscience. 9: 945-956. DOI: 10.1007/S13204-018-0688-X  0.24
2018 Kaltdorf KV, Theiss M, Markert SM, Zhen M, Dandekar T, Stigloher C, Kollmannsberger P. Automated classification of synaptic vesicles in electron tomograms of C. elegans using machine learning. Plos One. 13: e0205348. PMID 30296290 DOI: 10.1371/Journal.Pone.0205348  0.24
2019 Sbiera S, Kunz M, Weigand I, Deutschbein T, Dandekar T, Fassnacht M. The New Genetic Landscape of Cushing's Disease: Deubiquitinases in the Spotlight. Cancers. 11. PMID 31717455 DOI: 10.3390/Cancers11111761  0.24
2014 Fricke F, Malkusch S, Wangorsch G, Greiner JF, Kaltschmidt B, Kaltschmidt C, Widera D, Dandekar T, Heilemann M. Quantitative single-molecule localization microscopy combined with rule-based modeling reveals ligand-induced TNF-R1 reorganization toward higher-order oligomers. Histochemistry and Cell Biology. 142: 91-101. PMID 24519400 DOI: 10.1007/S00418-014-1195-0  0.239
2020 Mammadova-Bach E, Gil-Pulido J, Sarukhanyan E, Burkard P, Shityakov S, Schonhart C, Stegner D, Remer K, Nurden P, Nurden AT, Dandekar T, Nehez L, Dank M, Braun A, Mezzano D, et al. Platelet glycoprotein VI promotes metastasis through interaction with cancer cell-derived Galectin-3. Blood. PMID 32040544 DOI: 10.1182/Blood.2019002649  0.239
2011 Schokraie E, Hotz-Wagenblatt A, Warnken U, Frohme M, Dandekar T, Schill RO, Schnölzer M. Investigating heat shock proteins of tardigrades in active versus anhydrobiotic state using shotgun proteomics Journal of Zoological Systematics and Evolutionary Research. 49: 111-119. DOI: 10.1111/J.1439-0469.2010.00608.X  0.239
2012 Buga AM, Scholz CJ, Kumar S, Herndon JG, Alexandru D, Cojocaru GR, Dandekar T, Popa-Wagner A. Identification of new therapeutic targets by genome-wide analysis of gene expression in the ipsilateral cortex of aged rats after stroke. Plos One. 7: e50985. PMID 23251410 DOI: 10.1371/Journal.Pone.0050985  0.238
2008 Grohme M, Mali B, Frohme M, Schnölzer M, Dandekar T, Reuter D, Schill R. Differential gene expression in the tardigrade Milnesium tardigradum during anhydrobiosis Comparative Biochemistry and Physiology Part a: Molecular & Integrative Physiology. 151: S35-S36. DOI: 10.1016/J.Cbpa.2008.05.183  0.238
2016 Othman EM, Naseem M, Awad E, Dandekar T, Stopper H. The Plant Hormone Cytokinin Confers Protection against Oxidative Stress in Mammalian Cells. Plos One. 11: e0168386. PMID 28005918 DOI: 10.1371/Journal.Pone.0168386  0.238
1999 Keese MA, Saffrich R, Dandekar T, Becker K, Schirmer RH. Microinjected glutathione reductase crystals as indicators of the redox status in living cells. Febs Letters. 447: 135-138. PMID 10214933 DOI: 10.1016/S0014-5793(99)00296-3  0.238
2008 Buchholz K, Schirmer RH, Eubel JK, Akoachere MB, Dandekar T, Becker K, Gromer S. Interactions of methylene blue with human disulfide reductases and their orthologues from Plasmodium falciparum. Antimicrobial Agents and Chemotherapy. 52: 183-91. PMID 17967916 DOI: 10.1128/Aac.00773-07  0.237
2019 Grebinyk A, Prylutska S, Grebinyk S, Prylutskyy Y, Ritter U, Matyshevska O, Dandekar T, Frohme M. Complexation with C Fullerene Increases Doxorubicin Efficiency against Leukemic Cells In Vitro. Nanoscale Research Letters. 14: 61. PMID 30788638 DOI: 10.1186/S11671-019-2894-1  0.237
2015 Naseem M, Sarukhanyan E, Dandekar T. LONELY-GUY Knocks Every Door: Crosskingdom Microbial Pathogenesis. Trends in Plant Science. PMID 26777904 DOI: 10.1016/J.Tplants.2015.10.017  0.236
1997 Dandekar T, Leippe M. Molecular modeling of amoebapore and NK-lysin: a four-alpha-helix bundle motif of cytolytic peptides from distantly related organisms. Folding & Design. 2: 47-52. PMID 9080198 DOI: 10.1016/S1359-0278(97)00005-9  0.234
2018 Grebinyk A, Grebinyk S, Prylutska S, Ritter U, Matyshevska O, Dandekar T, Frohme M. HPLC-ESI-MS method for C fullerene mitochondrial content quantification. Data in Brief. 19: 2047-2052. PMID 30229080 DOI: 10.1016/J.Dib.2018.06.089  0.233
2011 Dittrich M, Birschmann I, Dandekar T. Integrated platelet networks for the analysis of different system states Current Proteomics. 8: 229-236. DOI: 10.2174/157016411797247477  0.231
2014 Hemer S, Konrad C, Spiliotis M, Koziol U, Schaack D, Förster S, Gelmedin V, Stadelmann B, Dandekar T, Hemphill A, Brehm K. Host insulin stimulates Echinococcus multilocularis insulin signalling pathways and larval development. Bmc Biology. 12: 5. PMID 24468049 DOI: 10.1186/1741-7007-12-5  0.231
2018 Grebinyk A, Grebinyk S, Prylutska S, Ritter U, Matyshevska O, Dandekar T, Frohme M. C Fullerene Accumulation in Human Leukemic Cells and Perspectives of LED-mediated Photodynamic Therapy. Free Radical Biology & Medicine. PMID 29940354 DOI: 10.1016/J.Freeradbiomed.2018.06.022  0.23
2017 Duell J, Dittrich M, Bedke T, Mueller T, Eisele F, Rosenwald A, Rasche L, Hartmann E, Dandekar T, Einsele H, Topp MS. Frequency of regulatory T cells determines the outcome of the T cell engaging antibody blinatumomab in patients with B precursor ALL. Leukemia. PMID 28119525 DOI: 10.1038/Leu.2017.41  0.23
2015 Naseem M, Kaltdorf M, Dandekar T. The nexus between growth and defence signalling: auxin and cytokinin modulate plant immune response pathways. Journal of Experimental Botany. PMID 26109575 DOI: 10.1093/Jxb/Erv297  0.228
2012 Dandekar T, Gramsch C, Houghten RA, Schulz R. Affinity purification of ?-endorphin-like material from NG108CC15 hybrid cells by means of the monoclonal ?-endorphin antibody 3-E7. Neurochemistry International. 7: 247-53. PMID 20492921 DOI: 10.1016/0197-0186(85)90112-3  0.227
2013 Shityakov S, Neuhaus W, Dandekar T, Förster C. Analysing molecular polar surface descriptors to predict blood-brain barrier permeation. International Journal of Computational Biology and Drug Design. 6: 146-56. PMID 23428480 DOI: 10.1504/Ijcbdd.2013.052195  0.225
2017 Naseem M, Kunz M, Dandekar T. Plant-Pathogen Maneuvering over Apoplastic Sugars. Trends in Plant Science. PMID 28779901 DOI: 10.1016/J.Tplants.2017.07.001  0.225
2020 Naseem M, Gun G, Osmanoglu O, AlRemeithi FA, Iqbal J, Dandekar T. Bacterial Shoot Apical Meristem Inoculation Assay. Methods in Molecular Biology (Clifton, N.J.). 2094: 17-22. PMID 31797286 DOI: 10.1007/978-1-0716-0183-9_2  0.224
2017 Gotru SK, Chen W, Kraft P, Becker IC, Wolf K, Stritt S, Zierler S, Hermanns HM, Rao D, Perraud AL, Schmitz C, Zahedi RP, Noy PJ, Tomlinson MG, Dandekar T, et al. TRPM7 (Transient Receptor Potential Melastatin-Like 7 Channel) Kinase Controls Calcium Responses in Arterial Thrombosis and Stroke in Mice. Arteriosclerosis, Thrombosis, and Vascular Biology. PMID 29146750 DOI: 10.1161/Atvbaha.117.310391  0.224
2013 Ahmed Z, Majeed S, Eisenreich W, Dandekar T. Isotopo towards quantitative mass isotopomers distribution analysis using spectral data F1000research. 4. DOI: 10.7490/F1000Research.1094727.1  0.224
2011 Shityakov S, Dandekar T. Molecular dynamics simulation of POPC and POPE lipid membrane bilayers enforced by an intercalated single-wall carbon nanotube Nano. 6: 19-29. DOI: 10.1142/S1793292011002317  0.22
2020 Wunder J, Pemp D, Spielmann B, Schmalbach K, Cecil A, Hauptstein R, Kleider C, Geppert LN, Köllmann C, Eckert P, Neshkova I, Dandekar T, Esch HL, Lehmann L. Identification of variables affecting metabolic estrogen‐DNA adduct fluxes in human glandular breast tissues Lebensmittelchemie. 74. DOI: 10.1002/Lemi.202051027  0.22
2021 Fasemore AM, Helbich A, Walter MC, Dandekar T, Vergnaud G, Förstner KU, Frangoulidis D. CoxBase: an Online Platform for Epidemiological Surveillance, Visualization, Analysis, and Typing of Coxiella burnetii Genomic Sequences. Msystems. 6: e0040321. PMID 34931882 DOI: 10.1128/mSystems.00403-21  0.219
2019 Grebinyk A, Prylutska S, Chepurna O, Grebinyk S, Prylutskyy Y, Ritter U, Ohulchanskyy TY, Matyshevska O, Dandekar T, Frohme M. Synergy of Chemo- and Photodynamic Therapies with C Fullerene-Doxorubicin Nanocomplex. Nanomaterials (Basel, Switzerland). 9. PMID 31671590 DOI: 10.3390/Nano9111540  0.219
2016 Hassouna I, Ott C, Wüstefeld L, Offen N, Neher RA, Mitkovski M, Winkler D, Sperling S, Fries L, Goebbels S, Vreja IC, Hagemeyer N, Dittrich M, Rossetti MF, Kröhnert K, ... ... Dandekar T, et al. Revisiting adult neurogenesis and the role of erythropoietin for neuronal and oligodendroglial differentiation in the hippocampus. Molecular Psychiatry. PMID 26809838 DOI: 10.1038/Mp.2015.212  0.218
2019 Grebinyk A, Prylutska S, Buchelnikov A, Tverdokhleb N, Grebinyk S, Evstigneev M, Matyshevska O, Cherepanov V, Prylutskyy Y, Yashchuk V, Naumovets A, Ritter U, Dandekar T, Frohme M. C Fullerene as an Effective Nanoplatform of Alkaloid Berberine Delivery into Leukemic Cells. Pharmaceutics. 11. PMID 31717305 DOI: 10.3390/Pharmaceutics11110586  0.217
2020 Kann S, Kunz M, Hansen J, Sievertsen J, Crespo JJ, Loperena A, Arriens S, Dandekar T. Chagas Disease: Detection of by a New, High-Specific Real Time PCR. Journal of Clinical Medicine. 9. PMID 32443464 DOI: 10.3390/Jcm9051517  0.217
2018 Rau M, Rehman A, Dittrich M, Groen AK, Hermanns HM, Seyfried F, Beyersdorf N, Dandekar T, Rosenstiel P, Geier A. Fecal SCFAs and SCFA-producing bacteria in gut microbiome of human NAFLD as a putative link to systemic T-cell activation and advanced disease. United European Gastroenterology Journal. 6: 1496-1507. PMID 30574320 DOI: 10.1177/2050640618804444  0.216
2008 Grohme M, Frohme M, Schnölzer M, Dandekar T, Reuter D, Schill R. New insights into anhydrobiotic organisms: Perspectives for preservation and stabilization of biological material Comparative Biochemistry and Physiology Part a: Molecular & Integrative Physiology. 151: S34. DOI: 10.1016/J.Cbpa.2008.05.121  0.215
2018 Hof M, Dahlke RI, Dandekar T, Kaltdorf M, Beck LA. A non-invasive manual method for the assessment of pregnancy in female Scyliorhinus canicula catsharks Mediterranean Marine Science. 19: 201-208. DOI: 10.12681/Mms.13838  0.212
2016 Lehmann L, Schmalbach K, Tschiggfrei K, Soukup ST, Hauptstein R, Brückner L, Kleider C, Geppert LN, Köllmann C, Kulling SE, Dandekar T, Ickstadt K, Eckert P, Neshkova I, Esch HL. Influence of soy isoflavones on metabolism and activity of 17beta-estradiol in human mammary gland Toxicology Letters. 258: S6. DOI: 10.1016/J.Toxlet.2016.06.138  0.211
2015 Ahmed Z, Mayr M, Zeeshan S, Dandekar T, Mueller M, Fekete A. Lipid-Pro: a bioinformatics tool towards lipid identification F1000research. 4. DOI: 10.7490/F1000Research.1110702.1  0.211
2005 Robubi A, Mueller T, Fueller J, Hekman M, Rapp UR, Dandekar T. Supplementary material to the paper "B-Raf and C-Raf signaling investigated in a simplified model of the mitogenic kinase cascade" Biological Chemistry. 386: Sup36-Sup37. DOI: 10.1515/Bc.2005.133Sup  0.211
2003 Kneitz S, Dandekar T. Integrated Genomic and Proteomic Analyses of a Systematically Perturbed Metabolic Network: Complementary Profiling of Gene Expression at the Transcriptome and Proteome Levels in Saccharomyces cerevisiae Chemtracts. 16: 806-809.  0.21
1999 Struttmann T, Fabro M, Romieu G, De Roquefeuil G, Touchon J, Dandekar T, Ritchie K. Quality-of-life assessment in the old using the WHOQOL 100: Differences between patients with senile dementia and patients with cancer International Psychogeriatrics. 11: 273-279. PMID 10547127 DOI: 10.1017/S1041610299005839  0.209
2006 Kneitz S, Dandekar T. Bioinformatics: Data Mining Among Genome Sequences Pathogenomics: Genome Analysis of Pathogenic Microbes. 1-19. DOI: 10.1002/352760801X.ch1  0.209
2016 Mohsen AM, Mandour YM, Sarukhanyan E, Breitinger U, Villmann C, Banoub MM, Breitinger HG, Dandekar T, Holzgrabe U, Sotriffer C, Jensen AA, Zlotos DP. Oxime Ethers of (E)-11-Isonitrosostrychnine as Highly Potent Glycine Receptor Antagonists. Journal of Natural Products. PMID 27966945 DOI: 10.1021/Acs.Jnatprod.6B00479  0.209
2021 Gupta SK, Srivastava M, Osmanoglu Ö, Xu Z, Brakhage AA, Dandekar T. versus Genus : Conservation, Adaptive Evolution and Specific Virulence Genes. Microorganisms. 9. PMID 34683335 DOI: 10.3390/microorganisms9102014  0.207
2022 Aydinli M, Liang C, Dandekar T. Motif and conserved module analysis in DNA (promoters, enhancers) and RNA (lncRNA, mRNA) using AlModules. Scientific Reports. 12: 17588. PMID 36266399 DOI: 10.1038/s41598-022-21732-0  0.207
2018 Schweitzer S, Kunz M, Kurlbaum M, Vey J, Kendl S, Deutschbein T, Hahner S, Fassnacht M, Dandekar T, Kroiss M. Plasma steroid metabolome profiling for the diagnosis of adrenocortical carcinoma. European Journal of Endocrinology. PMID 30481155 DOI: 10.1530/Eje-18-0782  0.206
2015 Wiegering A, Kunz M, Hussein M, Klein I, Wiegering V, Uthe FW, Dietz UA, Jurowich C, Bley T, Dandekar T, Germer CT, Ritter C. Diagnostic value of preoperative CT scan to stratify colon cancer for neoadjuvant therapy. International Journal of Colorectal Disease. PMID 25997602 DOI: 10.1007/S00384-015-2265-Z  0.206
2021 Liang C, Rios-Miguel AB, Jarick M, Neurgaonkar P, Girard M, François P, Schrenzel J, Ibrahim ES, Ohlsen K, Dandekar T. Transcriptome Data and Metabolic Modelling Investigate the Interplay of Ser/Thr Kinase PknB, Its Phosphatase Stp, the Regulon and the Operon for Metabolic Adaptation. Microorganisms. 9. PMID 34683468 DOI: 10.3390/microorganisms9102148  0.206
2013 Pachel C, Mathes D, Bayer B, Dienesch C, Wangorsch G, Heitzmann W, Lang I, Ardehali H, Ertl G, Dandekar T, Wajant H, Frantz S. Exogenous administration of a recombinant variant of TWEAK impairs healing after myocardial infarction by aggravation of inflammation. Plos One. 8: e78938. PMID 24244389 DOI: 10.1371/Journal.Pone.0078938  0.205
2019 Grebinyk A, Prylutska S, Grebinyk S, Prylutskyy Y, Ritter U, Matyshevska O, Dandekar T, Frohme M. Correction to: Complexation with C Fullerene Increases Doxorubicin Efficiency against Leukemic Cells In Vitro. Nanoscale Research Letters. 14: 91. PMID 30868449 DOI: 10.1186/S11671-019-2917-Y  0.205
2020 Naseem M, Osmanoglu Ö, Dandekar T. Synthetic Rewiring of Plant CO Sequestration Galvanizes Plant Biomass Production. Trends in Biotechnology. PMID 31959363 DOI: 10.1016/J.Tibtech.2019.12.019  0.203
2013 Dandekar T, Ahmed Z, Majeed S, Liang C, Cecil A, Wangorsch G, Naseem M, Fieselmann A, Nilla S, Boyanova D, Dittrich M. Intelligent information management for efficient computational biology F1000research. 4. DOI: 10.7490/F1000Research.1094099.1  0.2
1986 Schulz R, Metzner K, Dandekar T, Gramsch C. Opiates induce long-term increases in prodynorphin-derived peptide levels in the guinea-pig myenteric plexus. Naunyn-Schmiedeberg's Archives of Pharmacology. 333: 381-6. PMID 3774018 DOI: 10.1007/Bf00500013  0.199
2020 Schneider F, Horowitz A, Lesch KP, Dandekar T. Delaying memory decline: different options and emerging solutions. Translational Psychiatry. 10: 13. PMID 32066684 DOI: 10.1038/S41398-020-0697-X  0.191
2018 Dangwal S, Martino F, Batkai S, Scholz CJ, Kunz M, Dandekar T, Thum T. Abstract 251: miRNA Mapping of Cardiac Endothelial and Fibroblast Cells during Hypertrophy Progression Arteriosclerosis, Thrombosis, and Vascular Biology. 38. DOI: 10.1161/Atvb.38.Suppl_1.251  0.19
2014 Becker P, Niesler B, Tschopp O, Berr F, Canbay A, Dandekar T, Müllhaupt B, Schmitt J, Geier A. MicroRNAs as Mediators in the Pathogenesis of Non-Alcoholic Fatty Liver Disease and Steatohepatitis Zeitschrift FüR Gastroenterologie. 52. DOI: 10.1055/S-0033-1360871  0.182
2020 Shityakov S, Fischer A, Su KP, Hussein AA, Dandekar T, Broscheit J. Novel Approach for Characterizing Propofol Binding Affinities to Serum Albumins from Different Species. Acs Omega. 5: 25543-25551. PMID 33073080 DOI: 10.1021/acsomega.0c01295  0.178
2022 Balkenhol J, Bencurova E, Gupta SK, Schmidt H, Heinekamp T, Brakhage A, Pottikkadavath A, Dandekar T. Prediction and validation of host-pathogen interactions by a versatile inference approach using as a case study. Computational and Structural Biotechnology Journal. 20: 4225-4237. PMID 36051885 DOI: 10.1016/j.csbj.2022.07.050  0.175
2021 Audretsch C, Gratani F, Wolz C, Dandekar T. Modeling of stringent-response reflects nutrient stress induced growth impairment and essential amino acids in different Staphylococcus aureus mutants. Scientific Reports. 11: 9651. PMID 33958641 DOI: 10.1038/s41598-021-88646-1  0.169
2023 Salihoglu R, Srivastava M, Liang C, Schilling K, Szalay A, Bencurova E, Dandekar T. PRO-Simat: Protein network simulation and design tool. Computational and Structural Biotechnology Journal. 21: 2767-2779. PMID 37181657 DOI: 10.1016/j.csbj.2023.04.023  0.168
2023 Caliskan A, Caliskan D, Rasbach L, Yu W, Dandekar T, Breitenbach T. Optimized cell type signatures revealed from single-cell data by combining principal feature analysis, mutual information, and machine learning. Computational and Structural Biotechnology Journal. 21: 3293-3314. PMID 37333862 DOI: 10.1016/j.csbj.2023.06.002  0.162
2021 Gupta SK, Ponte-Sucre A, Bencurova E, Dandekar T. An Ebola, human protein interaction census reveals a conserved human protein cluster targeted by various human pathogens. Computational and Structural Biotechnology Journal. 19: 5292-5308. PMID 34745452 DOI: 10.1016/j.csbj.2021.09.017  0.162
2005 Dandekar T, Schmidt S. Metabolites and pathway flexibility. In Silico Biology. 5: 103-10. PMID 15972010  0.162
1991 Dandekar T, Tollervey D. Thirty-three nucleotides of 5' flanking sequence including the 'TATA' box are necessary and sufficient for efficient U2 snRNA transcription in Schizosaccharomyces pombe Molecular Microbiology. 5: 1621-1625. DOI: 10.1111/j.1365-2958.1991.tb01909.x  0.161
2023 Kaltdorf M, Breitenbach T, Karl S, Fuchs M, Kessie DK, Psota E, Prelog M, Sarukhanyan E, Ebert R, Jakob F, Dandekar G, Naseem M, Liang C, Dandekar T. Software JimenaE allows efficient dynamic simulations of Boolean networks, centrality and system state analysis. Scientific Reports. 13: 1855. PMID 36725967 DOI: 10.1038/s41598-022-27098-7  0.16
2022 Fareed MM, Dutta K, Dandekar T, Tarabonda H, Skorb EV, Shityakov S. In silico investigation of nonsynonymous single nucleotide polymorphisms in BCL2 apoptosis regulator gene to design novel protein-based drugs against cancer. Journal of Cellular Biochemistry. PMID 36146908 DOI: 10.1002/jcb.30330  0.159
2018 Bencurova E, Gupta SK, Oskoueian E, Bhide M, Dandekar T. Omics and bioinformatics applied to vaccine development against Borrelia. Molecular Omics. PMID 30113617 DOI: 10.1039/c8mo00130h  0.158
2022 Gupta SK, Osmanoglu Ö, Minocha R, Bandi SR, Bencurova E, Srivastava M, Dandekar T. Genome-wide scan for potential CD4+ T-cell vaccine candidates in by exploiting reverse vaccinology and evolutionary information. Frontiers in Medicine. 9: 1008527. PMID 36405591 DOI: 10.3389/fmed.2022.1008527  0.146
2022 Breitenbach T, Schmitt MJ, Dandekar T. Optimization of synthetic molecular reporters for a mesenchymal glioblastoma transcriptional program by integer programming. Bioinformatics (Oxford, England). PMID 35809064 DOI: 10.1093/bioinformatics/btac488  0.146
2023 Gamaleldin NM, Bahr HS, Millán-Aguiñaga N, Danesh M, Othman EM, Dandekar T, Hassan HM, Abdelmohsen UR. Targeting antimalarial metabolites from the actinomycetes associated with the Red Sea sponge Callyspongia siphonella using a metabolomic method. Bmc Microbiology. 23: 396. PMID 38087203 DOI: 10.1186/s12866-023-03094-3  0.141
2023 Caliskan A, Dangwal S, Dandekar T. Metadata integrity in bioinformatics: Bridging the gap between data and knowledge. Computational and Structural Biotechnology Journal. 21: 4895-4913. PMID 37860229 DOI: 10.1016/j.csbj.2023.10.006  0.141
2006 Schleinkofer K, Dandekar T. Proteome survey reveals modularity of the yeast cell machinery - Global landscape of protein complexes in the yeast Saccharomyces cervisiae Chemtracts. 19: 469-473.  0.14
2022 Gupta SK, Minocha R, Thapa PJ, Srivastava M, Dandekar T. Role of the Pangolin in Origin of SARS-CoV-2: An Evolutionary Perspective. International Journal of Molecular Sciences. 23. PMID 36012377 DOI: 10.3390/ijms23169115  0.137
2022 Caliskan A, Crouch SAW, Giddins S, Dandekar T, Dangwal S. Progeria and Aging-Omics Based Comparative Analysis. Biomedicines. 10. PMID 36289702 DOI: 10.3390/biomedicines10102440  0.132
1999 Unrau PJ, Bartel DP, Koch G, Dandekar T. RNA-catalysed nucleotide synthesis Chemtracts. 12: 938-943. DOI: 10.1038/26193  0.129
2007 Dandekar G, Dandekar T. From sanger to ultrafast DNA sequencing: Dreams and limitations Chemtracts. 20: 127-137.  0.128
2002 Bertram H, Dandekar T. A "periodic table" for protein structure Chemtracts. 15: 735-739.  0.125
2021 Scherer M, Fleishman SJ, Jones PR, Dandekar T, Bencurova E. Computational Enzyme Engineering Pipelines for Optimized Production of Renewable Chemicals. Frontiers in Bioengineering and Biotechnology. 9: 673005. PMID 34211966 DOI: 10.3389/fbioe.2021.673005  0.124
2021 Liang C, Bencurova E, Psota E, Neurgaonkar P, Prelog M, Scheller C, Dandekar T. Population-Predicted MHC Class II Epitope Presentation of SARS-CoV-2 Structural Proteins Correlates to the Case Fatality Rates of COVID-19 in Different Countries. International Journal of Molecular Sciences. 22. PMID 33807854 DOI: 10.3390/ijms22052630  0.12
2020 Kühnemundt J, Leifeld H, Scherg F, Schmitt M, Nelke L, Schmitt T, Baur F, Göttlich C, Fuchs M, Kunz M, Peindl M, Brähler C, Kronenthaler C, Wischhusen J, Prelog M, ... ... Dandekar T, et al. Modular micro-physiological human tumor/tissue models based on decellularized tissue for improved preclinical testing. Altex. PMID 33313956 DOI: 10.14573/altex.2008141  0.12
2024 Rasbach L, Caliskan A, Saderi F, Dandekar T, Breitenbach T. An orchestra of machine learning methods reveals landmarks in single-cell data exemplified with aging fibroblasts. Plos One. 19: e0302045. PMID 38630692 DOI: 10.1371/journal.pone.0302045  0.12
2024 Salihoglu R, Balkenhol J, Dandekar G, Liang C, Dandekar T, Bencurova E. Cat-E: A comprehensive web tool for exploring cancer targeting strategies. Computational and Structural Biotechnology Journal. 23: 1376-1386. PMID 38596315 DOI: 10.1016/j.csbj.2024.03.024  0.12
2022 Eisenhaber F, Thakar J, Ponte-Sucre A, Dandekar T. Editorial: Innovative Strategies From Synthetic Biology and Bacterial Pathways to Master Biochemical Environmental Challenges. Frontiers in Bioengineering and Biotechnology. 9: 828632. PMID 35087812 DOI: 10.3389/fbioe.2021.828632  0.12
2020 Balkenhol J, Kaltdorf KV, Mammadova-Bach E, Braun A, Nieswandt B, Dittrich M, Dandekar T. Comparison of the central human and mouse platelet signaling cascade by systems biological analysis. Bmc Genomics. 21: 897. PMID 33353544 DOI: 10.1186/s12864-020-07215-4  0.111
2021 Osmanoglu Ö, Shams S, Dandekar T, Naseem M. Modeling Immune Dynamics in Plants Using JIMENA-Package. Methods in Molecular Biology (Clifton, N.J.). 2328: 183-189. PMID 34251626 DOI: 10.1007/978-1-0716-1534-8_11  0.111
2021 Breitenbach T, Helfrich-Förster C, Dandekar T. An effective model of endogenous clocks and external stimuli determining circadian rhythms. Scientific Reports. 11: 16165. PMID 34373483 DOI: 10.1038/s41598-021-95391-y  0.11
2022 Fathy M, Saad Eldin SM, Naseem M, Dandekar T, Othman EM. Cytokinins: Wide-Spread Signaling Hormones from Plants to Humans with High Medical Potential. Nutrients. 14. PMID 35406107 DOI: 10.3390/nu14071495  0.109
2000 Schultzberg M, Gu LQ, Boulin C, Braha O, Dandekar T, Conlan S, Cheley S, Bayley H. Stochastic sensing of organic analytes by a pore-forming protein containing a molecular adapter Chemtracts. 13: 198-202.  0.109
2022 Peindl M, Göttlich C, Crouch S, Hoff N, Lüttgens T, Schmitt F, Pereira JGN, May C, Schliermann A, Kronenthaler C, Cheufou D, Reu-Hofer S, Rosenwald A, Weigl E, Walles T, ... ... Dandekar T, et al. EMT, Stemness, and Drug Resistance in Biological Context: A 3D Tumor Tissue/In Silico Platform for Analysis of Combinatorial Treatment in NSCLC with Aggressive KRAS-Biomarker Signatures. Cancers. 14. PMID 35565305 DOI: 10.3390/cancers14092176  0.107
2003 Dandekar G, Dandekar T. A Single Motif Responsible for Ubiquitin Recognition and Monoubiquitination in Endocytic Proteins Chemtracts. 16: 632-637.  0.106
2005 Dandekar T. What keeps pathways flexible? Gbm Annual Fall Meeting Berlin/Potsdam 2005. 2005. DOI: 10.1240/SAV_GBM_2005_H_001141  0.103
2020 Stelzner K, Winkler AC, Liang C, Boyny A, Ade CP, Dandekar T, Fraunholz MJ, Rudel T. Intracellular Staphylococcus aureus Perturbs the Host Cell Ca Homeostasis To Promote Cell Death. Mbio. 11. PMID 33323513 DOI: 10.1128/mBio.02250-20  0.102
2021 Dunker C, Polke M, Schulze-Richter B, Schubert K, Rudolphi S, Gressler AE, Pawlik T, Prada Salcedo JP, Niemiec MJ, Slesiona-Künzel S, Swidergall M, Martin R, Dandekar T, Jacobsen ID. Rapid proliferation due to better metabolic adaptation results in full virulence of a filament-deficient Candida albicans strain. Nature Communications. 12: 3899. PMID 34162849 DOI: 10.1038/s41467-021-24095-8  0.101
2021 Osmanoglu Ö, Khaled AlSeiari M, AlKhoori HA, Shams S, Bencurova E, Dandekar T, Naseem M. Topological Analysis of the Carbon-Concentrating CETCH Cycle and a Photorespiratory Bypass Reveals Boosted CO-Sequestration by Plants. Frontiers in Bioengineering and Biotechnology. 9: 708417. PMID 34790651 DOI: 10.3389/fbioe.2021.708417  0.1
2007 Dandekar G, Dandekar T. Systematic discovery of regulatory motifs in human promoters and 3′UTRs by comparison of several mammals Chemtracts. 19: 234-238.  0.099
2024 Ruscu M, Capitanescu B, Rupek P, Dandekar T, Radu E, Hermann DM, Popa-Wagner A. The post-stroke young adult brain has limited capacity to re-express the gene expression patterns seen during early postnatal brain development. Brain Pathology (Zurich, Switzerland). e13232. PMID 38198833 DOI: 10.1111/bpa.13232  0.098
2001 Jeong H, Tombor B, Albert R, Oltavai ZN, Barabási AL, Dandekar T, Schuster S. The large-scale organization of metabolic networks Chemtracts. 14: 137-141.  0.097
2015 Srivastava M, Malviya N, Dandekar T. Application of biotechnology and bioinformatics tools in plant–fungus interactions Plant Biology and Biotechnology: Volume Ii: Plant Genomics and Biotechnology. 49-64. DOI: 10.1007/978-81-322-2283-5_3  0.095
2023 Bencurova E, Akash A, Dobson RCJ, Dandekar T. DNA storage-from natural biology to synthetic biology. Computational and Structural Biotechnology Journal. 21: 1227-1235. PMID 36817961 DOI: 10.1016/j.csbj.2023.01.045  0.094
2022 Loroch S, Kopczynski D, Schneider AC, Schumbrutzki C, Feldmann I, Panagiotidis E, Reinders Y, Sakson R, Solari FA, Vening A, Swieringa F, Heemskerk JWM, Grandoch M, Dandekar T, Sickmann A. Toward Zero Variance in Proteomics Sample Preparation: Positive-Pressure FASP in 96-Well Format (PF96) Enables Highly Reproducible, Time- and Cost-Efficient Analysis of Sample Cohorts. Journal of Proteome Research. 21: 1181-1188. PMID 35316605 DOI: 10.1021/acs.jproteome.1c00706  0.093
2023 Akash A, Bencurova E, Dandekar T. How to make DNA data storage more applicable. Trends in Biotechnology. PMID 37591721 DOI: 10.1016/j.tibtech.2023.07.006  0.093
2021 Gupta SK, Srivastava M, Minocha R, Akash A, Dangwal S, Dandekar T. Alveolar Regeneration in COVID-19 Patients: A Network Perspective. International Journal of Molecular Sciences. 22. PMID 34681944 DOI: 10.3390/ijms222011279  0.091
2022 Karl F, Liang C, Boettcher-Loschinski R, Stoll A, Flamann CS, Richter S, Lischer C, Völkl S, Jacobs B, Böttcher M, Jitschin R, Bruns H, Fischer T, Holler E, Roesler W, ... Dandekar T, et al. Oxidative DNA Damage in Reconstituting T-cells is Associated with Relapse and Inferior Survival Following Allo-SCT. Blood. PMID 36564029 DOI: 10.1182/blood.2022017267  0.089
2022 Bencurova E, Shityakov S, Schaack D, Kaltdorf M, Sarukhanyan E, Hilgarth A, Rath C, Montenegro S, Roth G, Lopez D, Dandekar T. Nanocellulose Composites as Smart Devices With Chassis, Light-Directed DNA Storage, Engineered Electronic Properties, and Chip Integration. Frontiers in Bioengineering and Biotechnology. 10: 869111. PMID 36105598 DOI: 10.3389/fbioe.2022.869111  0.089
2021 Heib T, Hermanns HM, Manukjan G, Englert M, Kusch C, Becker IC, Gerber A, Wackerbarth LM, Burkard P, Dandekar T, Balkenhol J, Jahn D, Beck S, Meub M, Dütting S, et al. RhoA/Cdc42 signaling drives cytoplasmic maturation but not endomitosis in megakaryocytes. Cell Reports. 35: 109102. PMID 33979620 DOI: 10.1016/j.celrep.2021.109102  0.088
2018 Sarukhanyan E, Shityakov S, Dandekar T. In Silico Designed Axl Receptor Blocking Drug Candidates Against Zika Virus Infection. Acs Omega. 3: 5281-5290. PMID 30023915 DOI: 10.1021/acsomega.8b00223  0.088
2021 Shityakov S, Skorb EV, Förster CY, Dandekar T. Scaffold Searching of FDA and EMA-Approved Drugs Identifies Lead Candidates for Drug Repurposing in Alzheimer's Disease. Frontiers in Chemistry. 9: 736509. PMID 34751244 DOI: 10.3389/fchem.2021.736509  0.082
2005 Dandekar T. Modeling cellular networks Chemtracts. 18: 386-394.  0.082
2007 Dandekar G, Dandekar T. Darwinian evolution can follow only very few mutational paths to fitter proteins Chemtracts. 19: 239-244.  0.081
2021 Wunder J, Pemp D, Cecil A, Mahdiani M, Hauptstein R, Schmalbach K, Geppert LN, Ickstadt K, Esch HL, Dandekar T, Lehmann L. Influence of breast cancer risk factors on proliferation and DNA damage in human breast glandular tissues: role of intracellular estrogen levels, oxidative stress and estrogen biotransformation. Archives of Toxicology. PMID 34921608 DOI: 10.1007/s00204-021-03198-7  0.08
2021 Othman EM, Fathy M, Bekhit AA, Abdel-Razik AH, Jamal A, Nazzal Y, Shams S, Dandekar T, Naseem M. Modulatory and Toxicological Perspectives on the Effects of the Small Molecule Kinetin. Molecules (Basel, Switzerland). 26. PMID 33525350 DOI: 10.3390/molecules26030670  0.079
2021 Othman EM, Fathy M, Bekhit AA, Abdel-Razik AH, Jamal A, Nazzal Y, Shams S, Dandekar T, Naseem M. Modulatory and Toxicological Perspectives on the Effects of the Small Molecule Kinetin. Molecules (Basel, Switzerland). 26. PMID 33525350 DOI: 10.3390/molecules26030670  0.079
2022 Klaile E, Prada Salcedo JP, Klassert TE, Besemer M, Bothe AK, Durotin A, Müller MM, Schmitt V, Luther CH, Dittrich M, Singer BB, Dandekar T, Slevogt H. Antibody ligation of CEACAM1, CEACAM3, and CEACAM6, differentially enhance the cytokine release of human neutrophils in responses to Candida albicans. Cellular Immunology. 371: 104459. PMID 34847408 DOI: 10.1016/j.cellimm.2021.104459  0.078
2022 Schmidt A, Fuchs M, Stojanović SD, Liang C, Schmidt K, Jung M, Xiao K, Weusthoff J, Just A, Pfanne A, Distler JHW, Dandekar T, Fiedler J, Thum T, Kunz M. Deciphering Pro-angiogenic Transcription Factor Profiles in Hypoxic Human Endothelial Cells by Combined Bioinformatics and Modeling. Frontiers in Cardiovascular Medicine. 9: 877450. PMID 35783871 DOI: 10.3389/fcvm.2022.877450  0.077
2022 Breitenbach T, Englert N, Osmanoglu Ö, Rukoyatkina N, Wangorsch G, Heinze K, Friebe A, Butt E, Feil R, Dittrich M, Gambaryan S, Dandekar T. A modular systems biological modelling framework studies cyclic nucleotide signaling in platelets. Journal of Theoretical Biology. 550: 111222. PMID 35843440 DOI: 10.1016/j.jtbi.2022.111222  0.076
2023 Knop JL, Burkard N, Danesh M, Kintrup S, Dandekar T, Srivastava M, Springer R, Hiermaier M, Wagner NM, Waschke J, Flemming S, Schlegel N. Endothelial barrier dysfunction in systemic inflammation is mediated by soluble VE-cadherin interfering VE-PTP signaling. Iscience. 26: 108049. PMID 37822505 DOI: 10.1016/j.isci.2023.108049  0.074
2021 Othman EM, Bekhit AA, Anany MA, Dandekar T, Ragab HM, Wahid A. Design, Synthesis, and Anticancer Screening for Repurposed Pyrazolo[3,4-d]pyrimidine Derivatives on Four Mammalian Cancer Cell Lines. Molecules (Basel, Switzerland). 26. PMID 34065773 DOI: 10.3390/molecules26102961  0.068
2021 Griffoni C, Neidhart B, Yang K, Groeber-Becker F, Maniura-Weber K, Dandekar T, Walles H, Rottmar M. In vitro skin culture media influence the viability and inflammatory response of primary macrophages. Scientific Reports. 11: 7070. PMID 33782484 DOI: 10.1038/s41598-021-86486-7  0.068
2023 Osmanoglu Ö, Gupta SK, Almasi A, Yagci S, Srivastava M, Araujo GHM, Nagy Z, Balkenhol J, Dandekar T. Signaling network analysis reveals fostamatinib as a potential drug to control platelet hyperactivation during SARS-CoV-2 infection. Frontiers in Immunology. 14: 1285345. PMID 38187394 DOI: 10.3389/fimmu.2023.1285345  0.067
2022 Sarukhanyan E, Dandekar T. designed microtubule-stabilizer drugs against tauopathy in Alzheimer's disease. Journal of Biomolecular Structure & Dynamics. 1-21. PMID 36331069 DOI: 10.1080/07391102.2022.2139760  0.067
1989 Dandekar T, Tollervey D. Cloning of Schizosaccharomyces pombe genes encoding the U1, U2, U3 and U4 snRNAs Gene. 81: 227-235. DOI: 10.1016/0378-1119(89)90183-2  0.067
2023 Khalid H, Fareed MM, Dandekar T, Shityakov S. Calcineurin and mTOR inhibitors in kidney transplantation: integrative metamodeling on transplant survival and kidney function. International Urology and Nephrology. PMID 37751051 DOI: 10.1007/s11255-023-03754-3  0.067
2023 Han C, Ren P, Mamtimin M, Kruk L, Sarukhanyan E, Li C, Anders HJ, Dandekar T, Krueger I, Elvers M, Goebel S, Adler K, Münch G, Gudermann T, Braun A, et al. Minimal Collagen-Binding Epitope of Glycoprotein VI in Human and Mouse Platelets. Biomedicines. 11. PMID 36830959 DOI: 10.3390/biomedicines11020423  0.067
2001 Dandekar T, Nissen P, Hansen J, Ban N, Moore PB, Steitz TA. The structural basis of ribosome activity in peptide bond synthesis Chemtracts. 14: 746-750.  0.064
2007 Birschmann I, Dittrich M, Mietner S, Günther N, Walter U, Dandekar T. Assembly of an in silico model of the platelet interactome and in vitro validation of IPP complex interactions of human platelets Gbm Fall Meeting Hamburg 2007. 2007. DOI: 10.1240/sav_gbm_2007_h_001909  0.064
2000 Dandekar T. Crystal structures of the membrane-binding C2 domain of human coagulation factor V. Structure of the C2 domain of human factor VIII at 1.5 Å resolution Chemtracts. 13: 398-401.  0.063
2008 Dandekar T. Functional atlas of the integrin adhesome Chemtracts. 21: 245-247.  0.061
2011 Dandekar T, Xiao K. New Bioinformatic Strategies Against Apicomplexan Parasites Apicomplexan Parasites: Molecular Approaches Toward Targeted Drug Development. 21-33. DOI: 10.1002/9783527633883.ch2  0.061
2022 Fathy M, Abdel-Latif R, Abdelgwad YM, Othman OA, Abdel-Razik AH, Dandekar T, Othman EM. Nephroprotective potential of eugenol in a rat experimental model of chronic kidney injury; targeting NOX, TGF-β, and Akt signaling. Life Sciences. 308: 120957. PMID 36113730 DOI: 10.1016/j.lfs.2022.120957  0.058
2022 Prada JP, Maag LE, Siegmund L, Bencurova E, Chunguang L, Koutsilieri E, Dandekar T, Scheller C. Estimation of R0 for the spread of SARS-CoV-2 in Germany from excess mortality. Scientific Reports. 12: 17221. PMID 36241688 DOI: 10.1038/s41598-022-22101-7  0.057
2022 Sarukhanyan E, Shanmugam TA, Dandekar T. In Silico Studies Reveal Peramivir and Zanamivir as an Optimal Drug Treatment Even If H7N9 Avian Type Influenza Virus Acquires Further Resistance. Molecules (Basel, Switzerland). 27. PMID 36144655 DOI: 10.3390/molecules27185920  0.057
2021 Karl-Schöller F, Kunz M, Kreß L, Held M, Egenolf N, Wiesner A, Dandekar T, Sommer C, Üçeyler N. A translational study: Involvement of miR-21-5p in development and maintenance of neuropathic pain via immune-related targets CCL5 and YWHAE. Experimental Neurology. 347: 113915. PMID 34758342 DOI: 10.1016/j.expneurol.2021.113915  0.055
2022 Fathy M, Darwish MA, Abdelhamid AM, Alrashedy GM, Othman OA, Naseem M, Dandekar T, Othman EM. Kinetin Ameliorates Cisplatin-Induced Hepatotoxicity and Lymphotoxicity via Attenuating Oxidative Damage, Cell Apoptosis and Inflammation in Rats. Biomedicines. 10. PMID 35884925 DOI: 10.3390/biomedicines10071620  0.055
2021 Li K, Prada J, Damineli DSC, Liese A, Romeis T, Dandekar T, Feijó JA, Hedrich R, Konrad KR. An optimized genetically encoded dual reporter for simultaneous ratio imaging of Ca - and H reveals new insights into ion signaling in plants. The New Phytologist. PMID 33455006 DOI: 10.1111/nph.17202  0.054
2021 Li K, Prada J, Damineli DSC, Liese A, Romeis T, Dandekar T, Feijó JA, Hedrich R, Konrad KR. An optimized genetically encoded dual reporter for simultaneous ratio imaging of Ca - and H reveals new insights into ion signaling in plants. The New Phytologist. PMID 33455006 DOI: 10.1111/nph.17202  0.054
2022 Abdel-Latif R, Fathy M, Anwar HA, Naseem M, Dandekar T, Othman EM. Cisplatin-Induced Reproductive Toxicity and Oxidative Stress: Ameliorative Effect of Kinetin. Antioxidants (Basel, Switzerland). 11. PMID 35624727 DOI: 10.3390/antiox11050863  0.053
1987 Dandekar T, Schulz R. Evidence for the expression of peptides derived from three opioid precursors in NG 108CC15 hybrid cells. Neuropeptides. 9: 25-32. PMID 3561721 DOI: 10.1016/0143-4179(87)90028-X  0.052
2020 Prada JP, Wangorsch G, Kucka K, Lang I, Dandekar T, Wajant H. A systems-biology model of the tumor necrosis factor (TNF) interactions with TNF receptor 1 and 2. Bioinformatics (Oxford, England). PMID 32991680 DOI: 10.1093/bioinformatics/btaa844  0.052
2021 Alnusaire TS, Sayed AM, Elmaidomy AH, Al-Sanea MM, Albogami S, Albqmi M, Alowaiesh BF, Mostafa EM, Musa A, Youssif KA, Refaat H, Othman EM, Dandekar T, Alaaeldin E, Ghoneim MM, et al. An In Vitro and In Silico Study of the Enhanced Antiproliferative and Pro-Oxidant Potential of L. cv. Arbosana Leaf Extract via Elastic Nanovesicles (Spanlastics). Antioxidants (Basel, Switzerland). 10. PMID 34942963 DOI: 10.3390/antiox10121860  0.05
1992 Dandekar T, Tollervey D. Mutational analysis ofSchizosaccharomyces pombe U4 snRNA by plasmid exchange Yeast. 8: 647-653. DOI: 10.1002/yea.320080808  0.045
2016 Ahmed Z, Zeeshan S, Dandekar T. Mining biomedical images towards valuable information retrieval in biomedical and life sciences. Database : the Journal of Biological Databases and Curation. 2016. PMID 27599750 DOI: 10.1093/database/baw134  0.044
2022 Sanchez GM, Incedal TC, Prada J, O'Callaghan P, Dyachok O, Echeverry S, Dumral Ö, Nguyen PM, Xie B, Barg S, Kreuger J, Dandekar T, Idevall-Hagren O. The β-cell primary cilium is an autonomous Ca2+ compartment for paracrine GABA signaling. The Journal of Cell Biology. 222. PMID 36350286 DOI: 10.1083/jcb.202108101  0.043
2022 Rohlfing AK, Kolb K, Sigle M, Ziegler M, Bild A, Münzer P, Sudmann J, Dicenta V, Harm T, Manke MC, Geue S, Kremser M, Chatterjee M, Liang C, von Eysmondt H, ... Dandekar T, et al. ACKR3 regulates platelet activation and ischemia-reperfusion tissue injury. Nature Communications. 13: 1823. PMID 35383158 DOI: 10.1038/s41467-022-29341-1  0.04
2008 Dandekar T. WHAMM Is an Arp2/3 complex activator that binds microtubules and functions in ER to Golgi transport Chemtracts. 21: 248-250.  0.038
2019 Rajkumar R, Nemichandrappa M, Dandekar TA, Ayyanagowdar M, Polisgowdar B, Rao S, Vishwa J, tha n. Influence of Different Irrigation Methods and Water Salinity Levels on Tomato (Solanum lycopersicum) Growth under Vertisols of Tungabhadra Project Command International Journal of Current Microbiology and Applied Sciences. 8: 2566-2576. DOI: 10.20546/ijcmas.2019.808.298  0.037
1999 Parcy F, Nils O, Busch MA, Lee I, Weigel D, Koch G, Dandekar T. A genetic framework for floral patterning Chemtracts. 12: 956-959.  0.037
2004 Dittrich M, Dandekar T. Targets of the cyclin-dependent kinase Cdk1 Chemtracts. 17: 156-160.  0.035
2012 Seipel D, Kovalchuck O, Dandekar T. Drug design with answer set programming Proceedings of Science.  0.03
2022 Prada JP, Maag LE, Siegmund L, Bencurova E, Liang C, Koutsilieri E, Dandekar T, Scheller C. Author Correction: Estimation of R0 for the spread of SARS-CoV-2 in Germany from excess mortality. Scientific Reports. 12: 22071. PMID 36543859 DOI: 10.1038/s41598-022-26627-8  0.019
2016 Dandekar T. Free radicals and memory loss. Redox Report : Communications in Free Radical Research. 3: 71-3. PMID 27414774 DOI: 10.1080/13510002.1997.11747093  0.01
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