| Year |
Citation |
Score |
| 2024 |
Vega C, Ostaszewski M, Grouès V, Schneider R, Satagopam V. BioKC: a collaborative platform for curation and annotation of molecular interactions. Database : the Journal of Biological Databases and Curation. 2024. PMID 38537198 DOI: 10.1093/database/baae013 |
0.475 |
|
| 2024 |
Niarakis A, Ostaszewski M, Mazein A, Kuperstein I, Kutmon M, Gillespie ME, Funahashi A, Acencio ML, Hemedan A, Aichem M, Klein K, Czauderna T, Burtscher F, Yamada TG, Hiki Y, ... ... Satagopam V, et al. Drug-target identification in COVID-19 disease mechanisms using computational systems biology approaches. Frontiers in Immunology. 14: 1282859. PMID 38414974 DOI: 10.3389/fimmu.2023.1282859 |
0.423 |
|
| 2023 |
Acencio ML, Ostaszewski M, Mazein A, Rosenstiel P, Aden K, Mishra N, Andersen V, Sidiropoulos P, Banos A, Filia A, Rahmouni S, Finckh A, Gu W, Schneider R, Satagopam V. The SYSCID map: a graphical and computational resource of molecular mechanisms across rheumatoid arthritis, systemic lupus erythematosus and inflammatory bowel disease. Frontiers in Immunology. 14: 1257321. PMID 38022524 DOI: 10.3389/fimmu.2023.1257321 |
0.445 |
|
| 2023 |
Gawron P, Hoksza D, Piñero J, Peña-Chilet M, Esteban-Medina M, Fernandez-Rueda JL, Colonna V, Smula E, Heirendt L, Ancien F, Groues V, Satagopam VP, Schneider R, Dopazo J, Furlong LI, et al. Visualization of automatically combined disease maps and pathway diagrams for rare diseases. Frontiers in Bioinformatics. 3: 1101505. PMID 37502697 DOI: 10.3389/fbinf.2023.1101505 |
0.486 |
|
| 2023 |
Mazein A, Acencio ML, Balaur I, Rougny A, Welter D, Niarakis A, Ramirez Ardila D, Dogrusoz U, Gawron P, Satagopam V, Gu W, Kremer A, Schneider R, Ostaszewski M. A guide for developing comprehensive systems biology maps of disease mechanisms: planning, construction and maintenance. Frontiers in Bioinformatics. 3: 1197310. PMID 37426048 DOI: 10.3389/fbinf.2023.1197310 |
0.468 |
|
| 2023 |
Vega C, Schneider R, Satagopam V. Analysis: Flawed Datasets of Monkeypox Skin Images. Journal of Medical Systems. 47: 37. PMID 36933065 DOI: 10.1007/s10916-023-01928-1 |
0.385 |
|
| 2022 |
Vega C, Gawron P, Lebioda J, Grouès V, Matyjaszczyk P, Pauly C, Smula E, Krüger R, Schneider R, Satagopam V. Smart Scheduling (SMASCH): multi-appointment scheduling system for longitudinal clinical research studies. Jamia Open. 5: ooac038. PMID 35651522 DOI: 10.1093/jamiaopen/ooac038 |
0.384 |
|
| 2021 |
Ostaszewski M, Niarakis A, Mazein A, Kuperstein I, Phair R, Orta-Resendiz A, Singh V, Aghamiri SS, Acencio ML, Glaab E, Ruepp A, Fobo G, Montrone C, Brauner B, Frishman G, ... ... Satagopam V, et al. COVID-19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms. Molecular Systems Biology. 17: e10851. PMID 34939300 DOI: 10.15252/msb.202110851 |
0.403 |
|
| 2021 |
Kratochvíl M, Heirendt L, Wilken SE, Pusa T, Arreckx S, Noronha A, van Aalst M, Satagopam VP, Ebenhöh O, Schneider R, Trefois C, Gu W. COBREXA.jl: constraint-based reconstruction and exascale analysis. Bioinformatics (Oxford, England). PMID 34791064 DOI: 10.1093/bioinformatics/btab782 |
0.414 |
|
| 2021 |
Ostaszewski M, Niarakis A, Mazein A, Kuperstein I, Phair R, Orta-Resendiz A, Singh V, Aghamiri SS, Acencio ML, Glaab E, Ruepp A, Fobo G, Montrone C, Brauner B, Frishman G, ... ... Satagopam V, et al. COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms. Molecular Systems Biology. 17: e10387. PMID 34664389 DOI: 10.15252/msb.202110387 |
0.481 |
|
| 2021 |
Chowdhary A, Satagopam V, Schneider R. Long Non-coding RNAs: Mechanisms, Experimental, and Computational Approaches in Identification, Characterization, and Their Biomarker Potential in Cancer. Frontiers in Genetics. 12: 649619. PMID 34276764 DOI: 10.3389/fgene.2021.649619 |
0.404 |
|
| 2021 |
Bernhofer M, Dallago C, Karl T, Satagopam V, Heinzinger M, Littmann M, Olenyi T, Qiu J, Schütze K, Yachdav G, Ashkenazy H, Ben-Tal N, Bromberg Y, Goldberg T, Kajan L, et al. PredictProtein - Predicting Protein Structure and Function for 29 Years. Nucleic Acids Research. PMID 33999203 DOI: 10.1093/nar/gkab354 |
0.401 |
|
| 2021 |
Badimon L, Robinson EL, Jusic A, Carpusca I, de Windt LJ, Emanueli C, Ferdinandy P, Gu W, Gyöngyösi M, Hackl M, Karaduzovic-Hadziabdic K, Lustrek M, Martelli F, Nham E, Potočnjak I, ... Satagopam V, et al. Cardiovascular rna markers and artificial intelligence may improve covid-19 outcome: position paper from the eu-cardiorna cost action ca17129. Cardiovascular Research. PMID 33839767 DOI: 10.1093/cvr/cvab094 |
0.396 |
|
| 2020 |
Kratochvíl M, Hunewald O, Heirendt L, Verissimo V, Vondrášek J, Satagopam VP, Schneider R, Trefois C, Ollert M. GigaSOM.jl: High-performance clustering and visualization of huge cytometry datasets. Gigascience. 9. PMID 33205814 DOI: 10.1093/gigascience/giaa127 |
0.46 |
|
| 2020 |
Lebioda J, Heirendt L, Jarosz Y, Trefois C, Guerard E, Duarte D, Gu W, Satagopam V, Schneider R. Reproducible websites: a state-of-the-art ecosystem F1000research. 9. DOI: 10.7490/F1000Research.1117956.1 |
0.411 |
|
| 2020 |
Satagopam V, Trefois C, Alper P, Becker R, Ostaszewski M, Krause R, Lebioda J, Toukourou N, Gu W, Schneider R. ELIXIR-LU: Overview and updates on activities F1000research. 9. DOI: 10.7490/F1000Research.1117949.1 |
0.418 |
|
| 2019 |
Becker R, Alper P, Grouès V, Munoz S, Jarosz Y, Lebioda J, Rege K, Trefois C, Satagopam V, Schneider R. DAISY: A Data Information System for accountability under the General Data Protection Regulation. Gigascience. 8. PMID 31800037 DOI: 10.1093/Gigascience/Giz140 |
0.525 |
|
| 2019 |
Gu W, Yildirimman R, Van der Stuyft E, Verbeeck D, Herzinger S, Satagopam V, Barbosa-Silva A, Schneider R, Lange B, Lehrach H, Guo Y, Henderson D, Rowe A. Data and knowledge management in translational research: implementation of the eTRIKS platform for the IMI OncoTrack consortium. Bmc Bioinformatics. 20: 164. PMID 30935364 DOI: 10.1186/S12859-019-2748-Y |
0.476 |
|
| 2019 |
Alper P, Becker R, Grouès V, Munoz S, Jarosz Y, Lebioda J, Rege K, Trefois C, Satagopam V, Schneider R. DAISY: A tool to document biomedical research data processing for accountability under the GDPR F1000research. 8. DOI: 10.7490/F1000Research.1117085.1 |
0.508 |
|
| 2018 |
Barbosa-Silva A, Bratfalean D, Gu W, Satagopam V, Houston P, Becnel LB, Eifes S, Richard F, Tielmann A, Herzinger S, Rege K, Balling R, Peeters P, Schneider R. Presenting and Sharing Clinical Data using the eTRIKS Standards Master Tree for tranSMART. Bioinformatics (Oxford, England). PMID 30256906 DOI: 10.1093/Bioinformatics/Bty809 |
0.51 |
|
| 2018 |
Herzinger S, Grouès V, Gu W, Satagopam V, Banda P, Trefois C, Schneider R. Fractalis: A scalable open-source service for platform-independent interactive visual analysis of biomedical data. Gigascience. PMID 30165440 DOI: 10.1093/Gigascience/Giy109 |
0.523 |
|
| 2018 |
Schneider R, Gerloff D, Satagopam V, Krause R, Trefois C, Gu W, Lebioda J, Toukourou N, Alper P, Becker R. ELIXIR-LU : Current node activities F1000research. 7. DOI: 10.7490/F1000Research.1115781.1 |
0.408 |
|
| 2018 |
Alper P, Becker R, Satagopam V, Grouès V, Lebioda J, Jarosz Y, Trefois C, Krause R, Munoz S, Schneider R. Provenance-enabled stewardship of human data in the GDPR era F1000research. 7. DOI: 10.7490/F1000Research.1115768.1 |
0.482 |
|
| 2017 |
van Rijswijk M, Beirnaert C, Caron C, Cascante M, Dominguez V, Dunn WB, Ebbels TMD, Giacomoni F, Gonzalez-Beltran A, Hankemeier T, Haug K, Izquierdo-Garcia JL, Jimenez RC, Jourdan F, Kale N, ... ... Satagopam V, et al. The future of metabolomics in ELIXIR. F1000research. 6. PMID 29043062 DOI: 10.12688/F1000Research.12342.2 |
0.32 |
|
| 2017 |
Roomp K, Kristinsson H, Schvartz D, Ubhayasekera K, Sargsyan E, Manukyan L, Chowdhury A, Manell H, Satagopam V, Groebe K, Schneider R, Bergquist J, Sanchez JC, Bergsten P. Combined lipidomic and proteomic analysis of isolated human islets exposed to palmitate reveals time-dependent changes in insulin secretion and lipid metabolism. Plos One. 12: e0176391. PMID 28448538 DOI: 10.1371/Journal.Pone.0176391 |
0.455 |
|
| 2017 |
Herzinger S, Gu W, Satagopam V, Eifes S, Rege K, Barbosa Da Silva A, Schneider R. SmartR: An open-source platform for interactive visual analytics for translational research data. Bioinformatics (Oxford, England). PMID 28334291 DOI: 10.1093/Bioinformatics/Btx137 |
0.533 |
|
| 2016 |
Gawron P, Ostaszewski M, Satagopam V, Gebel S, Mazein A, Kuzma M, Zorzan S, McGee F, Otjacques B, Balling R, Schneider R. MINERVA-a platform for visualization and curation of molecular interaction networks. Npj Systems Biology and Applications. 2: 16020. PMID 28725475 DOI: 10.1038/npjsba.2016.20 |
0.456 |
|
| 2016 |
Satagopam V, Gu W, Eifes S, Gawron P, Ostaszewski M, Gebel S, Barbosa-Silva A, Balling R, Schneider R. Integration and Visualization of Translational Medicine Data for Better Understanding of Human Diseases. Big Data. 4: 97-108. PMID 27441714 DOI: 10.1089/big.2015.0057 |
0.493 |
|
| 2015 |
Jimenez-Sanchez M, Lam W, Hannus M, Sönnichsen B, Imarisio S, Fleming A, Tarditi A, Menzies F, Ed Dami T, Xu C, Gonzalez-Couto E, Lazzeroni G, Heitz F, Diamanti D, Massai L, ... Satagopam VP, et al. siRNA screen identifies QPCT as a druggable target for Huntington's disease. Nature Chemical Biology. 11: 347-54. PMID 25848931 DOI: 10.1038/Nchembio.1790 |
0.396 |
|
| 2015 |
Papanikolaou N, Pavlopoulos GA, Pafilis E, Theodosiou T, Schneider R, Satagopam VP, Ouzounis CA, Eliopoulos AG, Promponas VJ, Iliopoulos I. BioTextQuest+: a knowledge integration platform for literature mining and concept discovery. Bioinformatics (Oxford, England). 31: 979. PMID 25673338 DOI: 10.7490/F1000Research.1096805.1 |
0.421 |
|
| 2014 |
Davey NE, Satagopam VP, Santiago-Mozos S, Villacorta-Martin C, Bharat TA, Schneider R, Briggs JA. The HIV mutation browser: a resource for human immunodeficiency virus mutagenesis and polymorphism data. Plos Computational Biology. 10: e1003951. PMID 25474213 DOI: 10.1371/Journal.Pcbi.1003951 |
0.385 |
|
| 2014 |
Papanikolaou N, Pavlopoulos GA, Pafilis E, Theodosiou T, Schneider R, Satagopam VP, Ouzounis CA, Eliopoulos AG, Promponas VJ, Iliopoulos I. BioTextQuest(+): a knowledge integration platform for literature mining and concept discovery. Bioinformatics (Oxford, England). 30: 3249-56. PMID 25100685 DOI: 10.1093/Bioinformatics/Btu524 |
0.493 |
|
| 2014 |
Fujita KA, Ostaszewski M, Matsuoka Y, Ghosh S, Glaab E, Trefois C, Crespo I, Perumal TM, Jurkowski W, Antony PM, Diederich N, Buttini M, Kodama A, Satagopam VP, Eifes S, et al. Integrating pathways of Parkinson's disease in a molecular interaction map. Molecular Neurobiology. 49: 88-102. PMID 23832570 DOI: 10.1007/S12035-013-8489-4 |
0.396 |
|
| 2014 |
Trefois C, Jarosz Y, Gu W, Satagopam V, Coronado S, Schneider R. Reproducible Research Results R3 F1000research. 6. DOI: 10.7490/F1000Research.1097472.1 |
0.424 |
|
| 2013 |
Bali KK, Venkataramani V, Satagopam VP, Gupta P, Schneider R, Kuner R. Transcriptional mechanisms underlying sensitization of peripheral sensory neurons by granulocyte-/granulocyte-macrophage colony stimulating factors. Molecular Pain. 9: 48. PMID 24067145 DOI: 10.1186/1744-8069-9-48 |
0.378 |
|
| 2013 |
Bali KK, Selvaraj D, Satagopam VP, Lu J, Schneider R, Kuner R. Genome-wide identification and functional analyses of microRNA signatures associated with cancer pain. Embo Molecular Medicine. 5: 1740-58. PMID 24039159 DOI: 10.1002/Emmm.201302797 |
0.384 |
|
| 2013 |
Chowdhury A, Satagopam VP, Manukyan L, Artemenko KA, Fung YM, Schneider R, Bergquist J, Bergsten P. Signaling in insulin-secreting MIN6 pseudoislets and monolayer cells. Journal of Proteome Research. 12: 5954-62. PMID 24006944 DOI: 10.1021/pr400864w |
0.383 |
|
| 2013 |
Simonetti M, Hagenston AM, Vardeh D, Freitag HE, Mauceri D, Lu J, Satagopam VP, Schneider R, Costigan M, Bading H, Kuner R. Nuclear calcium signaling in spinal neurons drives a genomic program required for persistent inflammatory pain. Neuron. 77: 43-57. PMID 23312515 DOI: 10.1016/J.Neuron.2012.10.037 |
0.361 |
|
| 2013 |
Pafilis E, Pavlopoulos GA, Satagopam VP, Papanikolaou N, Horn H, Arvanitidis C, Jensen LJ, Schneider R, Iliopoulos I. OnTheFly 2.0: A tool for automatic annotation of files and biological information extraction 13th Ieee International Conference On Bioinformatics and Bioengineering, Ieee Bibe 2013. DOI: 10.1109/BIBE.2013.6701679 |
0.397 |
|
| 2012 |
Soldatos TG, O'Donoghue SI, Satagopam VP, Barbosa-Silva A, Pavlopoulos GA, Wanderley-Nogueira AC, Soares-Cavalcanti NM, Schneider R. Caipirini: using gene sets to rank literature. Biodata Mining. 5: 1. PMID 22297131 DOI: 10.1186/1756-0381-5-1 |
0.45 |
|
| 2010 |
Satagopam VP, Theodoropoulou MC, Stampolakis CK, Pavlopoulos GA, Papandreou NC, Bagos PG, Schneider R, Hamodrakas SJ. GPCRs, G-proteins, effectors and their interactions: human-gpDB, a database employing visualization tools and data integration techniques. Database : the Journal of Biological Databases and Curation. 2010: baq019. PMID 20689020 DOI: 10.1093/Database/Baq019 |
0.441 |
|
| 2010 |
Marji J, O'Donoghue SI, McClintock D, Satagopam VP, Schneider R, Ratner D, Worman HJ, Gordon LB, Djabali K. Defective lamin A-Rb signaling in Hutchinson-Gilford Progeria Syndrome and reversal by farnesyltransferase inhibition. Plos One. 5: e11132. PMID 20559568 DOI: 10.1371/Journal.Pone.0011132 |
0.379 |
|
| 2010 |
Neumann B, Walter T, Hériché JK, Bulkescher J, Erfle H, Conrad C, Rogers P, Poser I, Held M, Liebel U, Cetin C, Sieckmann F, Pau G, Kabbe R, Wünsche A, ... Satagopam V, et al. Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes. Nature. 464: 721-7. PMID 20360735 DOI: 10.1038/Nature08869 |
0.499 |
|
| 2010 |
Soldatos TG, O'Donoghue SI, Satagopam VP, Jensen LJ, Brown NP, Barbosa-Silva A, Schneider R. Martini: using literature keywords to compare gene sets. Nucleic Acids Research. 38: 26-38. PMID 19858102 DOI: 10.1093/Nar/Gkp876 |
0.429 |
|
| 2010 |
O'Donoghue SI, Horn H, Pafilis E, Haag S, Kuhn M, Satagopam VP, Schneider R, Jensen LJ. Reflect: A practical approach to web semantics Journal of Web Semantics. 8: 182-189. DOI: 10.1016/J.Websem.2010.03.003 |
0.416 |
|
| 2008 |
Pavlopoulos GA, O'Donoghue SI, Satagopam VP, Soldatos TG, Pafilis E, Schneider R. Arena3D: visualization of biological networks in 3D. Bmc Systems Biology. 2: 104. PMID 19040715 DOI: 10.1186/1752-0509-2-104 |
0.436 |
|
| 2008 |
Barbosa-Silva A, Satagopam VP, Schneider R, Ortega JM. Clustering of cognate proteins among distinct proteomes derived from multiple links to a single seed sequence. Bmc Bioinformatics. 9: 141. PMID 18321373 DOI: 10.1186/1471-2105-9-141 |
0.401 |
|
| Show low-probability matches. |
