| Year |
Citation |
Score |
| 2018 |
Demchak B, Otasek D, Pico AR, Bader GD, Ono K, Settle B, Sage E, Morris JH, Longabaugh W, Lopes C, Kucera M, Treister A, Schwikowski B, Molenaar P, Ideker T. The Cytoscape Automation app article collection. F1000research. 7: 800. PMID 29983926 DOI: 10.12688/F1000Research.15355.1 |
0.321 |
|
| 2017 |
Nikolayeva I, Guitart-Pla O, Schwikowski B. Network module identification-a widespread theoretical bias and best practices. Methods (San Diego, Calif.). PMID 28941788 DOI: 10.1016/J.Ymeth.2017.08.008 |
0.353 |
|
| 2016 |
Gwinner F, Boulday G, Vandiedonck C, Arnould M, Cardoso C, Nikolayeva I, Guitart-Pla O, Denis CV, Christophe OD, Beghain J, Tournier-Lasserve E, Schwikowski B. Network-based analysis of omics data: The LEAN method. Bioinformatics (Oxford, England). PMID 27797778 DOI: 10.1093/Bioinformatics/Btw676 |
0.333 |
|
| 2015 |
Grange L, Bureau JF, Nikolayeva I, Paul R, Van Steen K, Schwikowski B, Sakuntabhai A. Filter-free exhaustive odds ratio-based genome-wide interaction approach pinpoints evidence for interaction in the HLA region in psoriasis. Bmc Genetics. 16: 11. PMID 25655172 DOI: 10.1186/S12863-015-0174-3 |
0.301 |
|
| 2013 |
Elo LL, Schwikowski B. Analysis of time-resolved gene expression measurements across individuals. Plos One. 8: e82340. PMID 24349258 DOI: 10.1371/Journal.Pone.0082340 |
0.324 |
|
| 2013 |
Gwinner F, Acosta-Martin AE, Boytard L, Chwastyniak M, Beseme O, Drobecq H, Duban-Deweer S, Juthier F, Jude B, Amouyel P, Pinet F, Schwikowski B. Identification of additional proteins in differential proteomics using protein interaction networks. Proteomics. 13: 1065-76. PMID 23386401 DOI: 10.1002/Pmic.201200482 |
0.344 |
|
| 2012 |
Vandenbogaert M, Hourdel V, Jardin-Mathé O, Bigeard J, Bonhomme L, Legros V, Hirt H, Schwikowski B, Pflieger D. Automated phosphopeptide identification using multiple MS/MS fragmentation modes. Journal of Proteome Research. 11: 5695-703. PMID 23094866 DOI: 10.1021/Pr300507J |
0.319 |
|
| 2012 |
Buescher JM, Liebermeister W, Jules M, Uhr M, Muntel J, Botella E, Hessling B, Kleijn RJ, Le Chat L, Lecointe F, Mäder U, Nicolas P, Piersma S, Rügheimer F, Becher D, ... ... Schwikowski B, et al. Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism. Science (New York, N.Y.). 335: 1099-103. PMID 22383848 DOI: 10.1126/Science.1206871 |
0.309 |
|
| 2012 |
Elo LL, Schwikowski B. Mining proteomic data for biomedical research Wiley Interdisciplinary Reviews: Data Mining and Knowledge Discovery. 2: 1-13. DOI: 10.1002/Widm.45 |
0.371 |
|
| 2011 |
Bochet P, Rügheimer F, Guina T, Brooks P, Goodlett D, Clote P, Schwikowski B. Fragmentation-free LC-MS can identify hundreds of proteins. Proteomics. 11: 22-32. PMID 21182191 DOI: 10.1002/Pmic.200900765 |
0.375 |
|
| 2010 |
Cerqueira FR, Graber A, Schwikowski B, Baumgartner C. MUDE: a new approach for optimizing sensitivity in the target-decoy search strategy for large-scale peptide/protein identification. Journal of Proteome Research. 9: 2265-77. PMID 20199108 DOI: 10.1021/Pr901023V |
0.334 |
|
| 2010 |
Besenbacher S, Schwikowski B, Stoye J. Indexing and searching a mass spectrometry database Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6060: 62-76. DOI: 10.1007/978-3-642-12476-1_4 |
0.333 |
|
| 2008 |
Vandenbogaert M, Li-Thiao-Té S, Kaltenbach HM, Zhang R, Aittokallio T, Schwikowski B. Alignment of LC-MS images, with applications to biomarker discovery and protein identification. Proteomics. 8: 650-72. PMID 18297649 DOI: 10.1002/Pmic.200700791 |
0.336 |
|
| 2007 |
Cline MS, Smoot M, Cerami E, Kuchinsky A, Landys N, Workman C, Christmas R, Avila-Campilo I, Creech M, Gross B, Hanspers K, Isserlin R, Kelley R, Killcoyne S, Lotia S, ... ... Schwikowski B, et al. Integration of biological networks and gene expression data using Cytoscape. Nature Protocols. 2: 2366-82. PMID 17947979 DOI: 10.1038/Nprot.2007.324 |
0.348 |
|
| 2007 |
Prakash A, Piening B, Whiteaker J, Zhang H, Shaffer SA, Martin D, Hohmann L, Cooke K, Olson JM, Hansen S, Flory MR, Lee H, Watts J, Goodlett DR, Aebersold R, ... ... Schwikowski B, et al. Assessing bias in experiment design for large scale mass spectrometry-based quantitative proteomics. Molecular & Cellular Proteomics : McP. 6: 1741-8. PMID 17617667 DOI: 10.1074/Mcp.M600470-Mcp200 |
0.536 |
|
| 2007 |
Garcia O, Saveanu C, Cline M, Fromont-Racine M, Jacquier A, Schwikowski B, Aittokallio T. GOlorize: a Cytoscape plug-in for network visualization with Gene Ontology-based layout and coloring. Bioinformatics (Oxford, England). 23: 394-6. PMID 17127678 DOI: 10.1093/Bioinformatics/Btl605 |
0.303 |
|
| 2006 |
Aittokallio T, Schwikowski B. Graph-based methods for analysing networks in cell biology. Briefings in Bioinformatics. 7: 243-55. PMID 16880171 DOI: 10.1093/Bib/Bbl022 |
0.332 |
|
| 2006 |
Prakash A, Mallick P, Whiteaker J, Zhang H, Paulovich A, Flory M, Lee H, Aebersold R, Schwikowski B. Signal maps for mass spectrometry-based comparative proteomics. Molecular & Cellular Proteomics : McP. 5: 423-32. PMID 16269421 DOI: 10.1074/Mcp.M500133-Mcp200 |
0.535 |
|
| 2005 |
Zhang N, Li XJ, Ye M, Pan S, Schwikowski B, Aebersold R. ProbIDtree: an automated software program capable of identifying multiple peptides from a single collision-induced dissociation spectrum collected by a tandem mass spectrometer. Proteomics. 5: 4096-106. PMID 16196091 DOI: 10.1002/Pmic.200401260 |
0.314 |
|
| 2005 |
Reiss DJ, Avila-Campillo I, Thorsson V, Schwikowski B, Galitski T. Tools enabling the elucidation of molecular pathways active in human disease: application to Hepatitis C virus infection. Bmc Bioinformatics. 6: 154. PMID 15967031 DOI: 10.1186/1471-2105-6-154 |
0.342 |
|
| 2003 |
Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Schwikowski B, Ideker T. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Research. 13: 2498-504. PMID 14597658 DOI: 10.1101/Gr.1239303 |
0.354 |
|
| 2002 |
Zhang N, Aebersold R, Schwikowski B. ProbID: a probabilistic algorithm to identify peptides through sequence database searching using tandem mass spectral data. Proteomics. 2: 1406-12. PMID 12422357 DOI: 10.1002/1615-9861(200210)2:10<1406::Aid-Prot1406>3.0.Co;2-9 |
0.366 |
|
| 2002 |
Blanchette M, Schwikowski B, Tompa M. Algorithms for phylogenetic footprinting. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 9: 211-23. PMID 12015878 DOI: 10.1089/10665270252935421 |
0.31 |
|
| 2000 |
Schwikowski B, Uetz P, Fields S. A network of protein-protein interactions in yeast Nature Biotechnology. 18: 1257-1261. PMID 11101803 DOI: 10.1038/82360 |
0.306 |
|
| 1997 |
Schwikowski B. The deferred path heuristic for the Generalized Tree Alignment problem Journal of Computational Biology. 4: 415-431. PMID 9278068 DOI: 10.1089/Cmb.1997.4.415 |
0.309 |
|
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