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A mouse to human search for plasma proteome changes associated with pancreatic tumor development.
Faca VM, Song KS, Wang H, Zhang Q, Krasnoselsky AL, Newcomb LF, Plentz RR, Gurumurthy S, Redston MS, Pitteri SJ, Pereira-Faca SR, Ireton RC, Katayama H, Glukhova V, Phanstiel D, Brenner DE, Anderson MA, Misek D, Scholler N, Urban ND, Barnett MJ, Edelstein C, Goodman GE, Thornquist MD, McIntosh MW, DePinho RA, Bardeesy N, Hanash SM. Faca VM, et al. PLoS Med. 2008 Jun 10;5(6):e123. doi: 10.1371/journal.pmed.0050123. PLoS Med. 2008. PMID: 18547137 Free PMC article.
Mango: a bias-correcting ChIA-PET analysis pipeline.
Phanstiel DH, Boyle AP, Heidari N, Snyder MP. Phanstiel DH, et al. Bioinformatics. 2015 Oct 1;31(19):3092-8. doi: 10.1093/bioinformatics/btv336. Epub 2015 Jun 1. Bioinformatics. 2015. PMID: 26034063 Free PMC article.
CoralP: Flexible visualization of the human phosphatome.
Min A, Deoudes E, Bond ML, Davis ES, Phanstiel DH. Min A, et al. Among authors: phanstiel dh. J Open Source Softw. 2019;4(44):1837. doi: 10.21105/joss.01837. Epub 2019 Dec 3. J Open Source Softw. 2019. PMID: 31903446 Free PMC article.
Bedtoolsr: An R package for genomic data analysis and manipulation.
Patwardhan MN, Wenger CD, Davis ES, Phanstiel DH. Patwardhan MN, et al. Among authors: phanstiel dh. J Open Source Softw. 2019;4(44):1742. doi: 10.21105/joss.01742. Epub 2019 Dec 6. J Open Source Softw. 2019. PMID: 31903447 Free PMC article.
Phase separation drives aberrant chromatin looping and cancer development.
Ahn JH, Davis ES, Daugird TA, Zhao S, Quiroga IY, Uryu H, Li J, Storey AJ, Tsai YH, Keeley DP, Mackintosh SG, Edmondson RD, Byrum SD, Cai L, Tackett AJ, Zheng D, Legant WR, Phanstiel DH, Wang GG. Ahn JH, et al. Among authors: phanstiel dh. Nature. 2021 Jul;595(7868):591-595. doi: 10.1038/s41586-021-03662-5. Epub 2021 Jun 23. Nature. 2021. PMID: 34163069 Free PMC article.
Plotgardener: cultivating precise multi-panel figures in R.
Kramer NE, Davis ES, Wenger CD, Deoudes EM, Parker SM, Love MI, Phanstiel DH. Kramer NE, et al. Among authors: phanstiel dh. Bioinformatics. 2022 Mar 28;38(7):2042-2045. doi: 10.1093/bioinformatics/btac057. Bioinformatics. 2022. PMID: 35134826 Free PMC article.
48 results