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Complex Portal 2022: new curation frontiers.
Meldal BHM, Perfetto L, Combe C, Lubiana T, Ferreira Cavalcante JV, Bye-A-Jee H, Waagmeester A, Del-Toro N, Shrivastava A, Barrera E, Wong E, Mlecnik B, Bindea G, Panneerselvam K, Willighagen E, Rappsilber J, Porras P, Hermjakob H, Orchard S. Meldal BHM, et al. Among authors: combe c. Nucleic Acids Res. 2022 Jan 7;50(D1):D578-D586. doi: 10.1093/nar/gkab991. Nucleic Acids Res. 2022. PMID: 34718729 Free PMC article.
The IntAct database: efficient access to fine-grained molecular interaction data.
Del Toro N, Shrivastava A, Ragueneau E, Meldal B, Combe C, Barrera E, Perfetto L, How K, Ratan P, Shirodkar G, Lu O, Mészáros B, Watkins X, Pundir S, Licata L, Iannuccelli M, Pellegrini M, Martin MJ, Panni S, Duesbury M, Vallet SD, Rappsilber J, Ricard-Blum S, Cesareni G, Salwinski L, Orchard S, Porras P, Panneerselvam K, Hermjakob H. Del Toro N, et al. Among authors: combe c. Nucleic Acids Res. 2022 Jan 7;50(D1):D648-D653. doi: 10.1093/nar/gkab1006. Nucleic Acids Res. 2022. PMID: 34761267 Free PMC article.
ComplexViewer: visualization of curated macromolecular complexes.
Combe CW, Sivade MD, Hermjakob H, Heimbach J, Meldal BHM, Micklem G, Orchard S, Rappsilber J. Combe CW, et al. Bioinformatics. 2017 Nov 15;33(22):3673-3675. doi: 10.1093/bioinformatics/btx497. Bioinformatics. 2017. PMID: 29036573 Free PMC article.
JAMI: a Java library for molecular interactions and data interoperability.
Sivade Dumousseau M, Koch M, Shrivastava A, Alonso-López D, De Las Rivas J, Del-Toro N, Combe CW, Meldal BHM, Heimbach J, Rappsilber J, Sullivan J, Yehudi Y, Orchard S. Sivade Dumousseau M, et al. Among authors: combe cw. BMC Bioinformatics. 2018 Apr 11;19(1):133. doi: 10.1186/s12859-018-2119-0. BMC Bioinformatics. 2018. PMID: 29642846 Free PMC article.
Encompassing new use cases - level 3.0 of the HUPO-PSI format for molecular interactions.
Sivade Dumousseau M, Alonso-López D, Ammari M, Bradley G, Campbell NH, Ceol A, Cesareni G, Combe C, De Las Rivas J, Del-Toro N, Heimbach J, Hermjakob H, Jurisica I, Koch M, Licata L, Lovering RC, Lynn DJ, Meldal BHM, Micklem G, Panni S, Porras P, Ricard-Blum S, Roechert B, Salwinski L, Shrivastava A, Sullivan J, Thierry-Mieg N, Yehudi Y, Van Roey K, Orchard S. Sivade Dumousseau M, et al. Among authors: combe c. BMC Bioinformatics. 2018 Apr 11;19(1):134. doi: 10.1186/s12859-018-2118-1. BMC Bioinformatics. 2018. PMID: 29642841 Free PMC article.
xiNET: cross-link network maps with residue resolution.
Combe CW, Fischer L, Rappsilber J. Combe CW, et al. Mol Cell Proteomics. 2015 Apr;14(4):1137-47. doi: 10.1074/mcp.O114.042259. Epub 2015 Feb 3. Mol Cell Proteomics. 2015. PMID: 25648531 Free PMC article.
An integrated workflow for crosslinking mass spectrometry.
Mendes ML, Fischer L, Chen ZA, Barbon M, O'Reilly FJ, Giese SH, Bohlke-Schneider M, Belsom A, Dau T, Combe CW, Graham M, Eisele MR, Baumeister W, Speck C, Rappsilber J. Mendes ML, et al. Among authors: combe cw. Mol Syst Biol. 2019 Sep;15(9):e8994. doi: 10.15252/msb.20198994. Mol Syst Biol. 2019. PMID: 31556486 Free PMC article.
Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry.
Leitner A, Bonvin AMJJ, Borchers CH, Chalkley RJ, Chamot-Rooke J, Combe CW, Cox J, Dong MQ, Fischer L, Götze M, Gozzo FC, Heck AJR, Hoopmann MR, Huang L, Ishihama Y, Jones AR, Kalisman N, Kohlbacher O, Mechtler K, Moritz RL, Netz E, Novak P, Petrotchenko E, Sali A, Scheltema RA, Schmidt C, Schriemer D, Sinz A, Sobott F, Stengel F, Thalassinos K, Urlaub H, Viner R, Vizcaíno JA, Wilkins MR, Rappsilber J. Leitner A, et al. Among authors: combe cw. Structure. 2020 Nov 3;28(11):1259-1268. doi: 10.1016/j.str.2020.09.011. Epub 2020 Oct 15. Structure. 2020. PMID: 33065067 Free article.
479 results