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ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks.
Bindea G, Mlecnik B, Hackl H, Charoentong P, Tosolini M, Kirilovsky A, Fridman WH, Pagès F, Trajanoski Z, Galon J. Bindea G, et al. Bioinformatics. 2009 Apr 15;25(8):1091-3. doi: 10.1093/bioinformatics/btp101. Epub 2009 Feb 23. Bioinformatics. 2009. PMID: 19237447 Free PMC article.
Spatiotemporal dynamics of intratumoral immune cells reveal the immune landscape in human cancer.
Bindea G, Mlecnik B, Tosolini M, Kirilovsky A, Waldner M, Obenauf AC, Angell H, Fredriksen T, Lafontaine L, Berger A, Bruneval P, Fridman WH, Becker C, Pagès F, Speicher MR, Trajanoski Z, Galon J. Bindea G, et al. Immunity. 2013 Oct 17;39(4):782-95. doi: 10.1016/j.immuni.2013.10.003. Immunity. 2013. PMID: 24138885
The tumor microenvironment and Immunoscore are critical determinants of dissemination to distant metastasis.
Mlecnik B, Bindea G, Kirilovsky A, Angell HK, Obenauf AC, Tosolini M, Church SE, Maby P, Vasaturo A, Angelova M, Fredriksen T, Mauger S, Waldner M, Berger A, Speicher MR, Pagès F, Valge-Archer V, Galon J. Mlecnik B, et al. Sci Transl Med. 2016 Feb 24;8(327):327ra26. doi: 10.1126/scitranslmed.aad6352. Sci Transl Med. 2016. PMID: 26912905
Comprehensive functional analysis of large lists of genes and proteins.
Mlecnik B, Galon J, Bindea G. Mlecnik B, et al. J Proteomics. 2018 Jan 16;171:2-10. doi: 10.1016/j.jprot.2017.03.016. Epub 2017 Mar 22. J Proteomics. 2018. PMID: 28343001
The Link between the Multiverse of Immune Microenvironments in Metastases and the Survival of Colorectal Cancer Patients.
Van den Eynde M, Mlecnik B, Bindea G, Fredriksen T, Church SE, Lafontaine L, Haicheur N, Marliot F, Angelova M, Vasaturo A, Bruni D, Jouret-Mourin A, Baldin P, Huyghe N, Haustermans K, Debucquoy A, Van Cutsem E, Gigot JF, Hubert C, Kartheuser A, Remue C, Léonard D, Valge-Archer V, Pagès F, Machiels JP, Galon J. Van den Eynde M, et al. Cancer Cell. 2018 Dec 10;34(6):1012-1026.e3. doi: 10.1016/j.ccell.2018.11.003. Cancer Cell. 2018. PMID: 30537506
Automated exploration of gene ontology term and pathway networks with ClueGO-REST.
Mlecnik B, Galon J, Bindea G. Mlecnik B, et al. Bioinformatics. 2019 Oct 1;35(19):3864-3866. doi: 10.1093/bioinformatics/btz163. Bioinformatics. 2019. PMID: 30847467 Free PMC article.
Prognostic assessment of resected colorectal liver metastases integrating pathological features, RAS mutation and Immunoscore.
Baldin P, Van den Eynde M, Mlecnik B, Bindea G, Beniuga G, Carrasco J, Haicheur N, Marliot F, Lafontaine L, Fredriksen T, Lanthier N, Hubert C, Navez B, Huyghe N, Pagès F, Jouret-Mourin A, Galon J, Komuta M. Baldin P, et al. Among authors: galon j. J Pathol Clin Res. 2020 Sep 9:e178. doi: 10.1002/cjp2.178. Online ahead of print. J Pathol Clin Res. 2020. PMID: 32902189 Free article.
Biomolecular network reconstruction identifies T-cell homing factors associated with survival in colorectal cancer.
Mlecnik B, Tosolini M, Charoentong P, Kirilovsky A, Bindea G, Berger A, Camus M, Gillard M, Bruneval P, Fridman WH, Pagès F, Trajanoski Z, Galon J. Mlecnik B, et al. Gastroenterology. 2010 Apr;138(4):1429-40. doi: 10.1053/j.gastro.2009.10.057. Epub 2009 Nov 10. Gastroenterology. 2010. PMID: 19909745
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