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Single-cell sequencing links multiregional immune landscapes and tissue-resident T cells in ccRCC to tumor topology and therapy efficacy.
Krishna C, DiNatale RG, Kuo F, Srivastava RM, Vuong L, Chowell D, Gupta S, Vanderbilt C, Purohit TA, Liu M, Kansler E, Nixon BG, Chen YB, Makarov V, Blum KA, Attalla K, Weng S, Salmans ML, Golkaram M, Liu L, Zhang S, Vijayaraghavan R, Pawlowski T, Reuter V, Carlo MI, Voss MH, Coleman J, Russo P, Motzer RJ, Li MO, Leslie CS, Chan TA, Hakimi AA. Krishna C, et al. Among authors: vijayaraghavan r. Cancer Cell. 2021 May 10;39(5):662-677.e6. doi: 10.1016/j.ccell.2021.03.007. Epub 2021 Apr 15. Cancer Cell. 2021. PMID: 33861994 Free PMC article.
HERVs establish a distinct molecular subtype in stage II/III colorectal cancer with poor outcome.
Golkaram M, Salmans ML, Kaplan S, Vijayaraghavan R, Martins M, Khan N, Garbutt C, Wise A, Yao J, Casimiro S, Abreu C, Macedo D, Costa AL, Alvim C, Mansinho A, Filipe P, Marques da Costa P, Fernandes A, Borralho P, Ferreira C, Aldeia F, Malaquias J, Godsey J, So A, Pawlowski T, Costa L, Zhang S, Liu L. Golkaram M, et al. Among authors: vijayaraghavan r. NPJ Genom Med. 2021 Feb 15;6(1):13. doi: 10.1038/s41525-021-00177-w. NPJ Genom Med. 2021. PMID: 33589643 Free PMC article.
Genetic and microenvironmental intra-tumor heterogeneity impacts colorectal cancer evolution and metastatic development.
Sobral D, Martins M, Kaplan S, Golkaram M, Salmans M, Khan N, Vijayaraghavan R, Casimiro S, Fernandes A, Borralho P, Ferreira C, Pinto R, Abreu C, Costa AL, Zhang S, Pawlowski T, Godsey J, Mansinho A, Macedo D, Lobo-Martins S, Filipe P, Esteves R, Coutinho J, Costa PM, Ramires A, Aldeia F, Quintela A, So A, Liu L, Grosso AR, Costa L. Sobral D, et al. Among authors: vijayaraghavan r. Commun Biol. 2022 Sep 9;5(1):937. doi: 10.1038/s42003-022-03884-x. Commun Biol. 2022. PMID: 36085309 Free PMC article.
Spatiotemporal evolution of the clear cell renal cell carcinoma microenvironment links intra-tumoral heterogeneity to immune escape.
Golkaram M, Kuo F, Gupta S, Carlo MI, Salmans ML, Vijayaraghavan R, Tang C, Makarov V, Rappold P, Blum KA, Zhao C, Mehio R, Zhang S, Godsey J, Pawlowski T, DiNatale RG, Morris LGT, Durack J, Russo P, Kotecha RR, Coleman J, Chen YB, Reuter VE, Motzer RJ, Voss MH, Liu L, Reznik E, Chan TA, Hakimi AA. Golkaram M, et al. Among authors: vijayaraghavan r. Genome Med. 2022 Dec 19;14(1):143. doi: 10.1186/s13073-022-01146-3. Genome Med. 2022. PMID: 36536472 Free PMC article.
Identification of biomarkers predictive of metastasis development in early-stage colorectal cancer using network-based regularization.
Peixoto C, Lopes MB, Martins M, Casimiro S, Sobral D, Grosso AR, Abreu C, Macedo D, Costa AL, Pais H, Alvim C, Mansinho A, Filipe P, Costa PMD, Fernandes A, Borralho P, Ferreira C, Malaquias J, Quintela A, Kaplan S, Golkaram M, Salmans M, Khan N, Vijayaraghavan R, Zhang S, Pawlowski T, Godsey J, So A, Liu L, Costa L, Vinga S. Peixoto C, et al. Among authors: vijayaraghavan r. BMC Bioinformatics. 2023 Jan 16;24(1):17. doi: 10.1186/s12859-022-05104-z. BMC Bioinformatics. 2023. PMID: 36647008 Free PMC article.
Targeted methylation sequencing of plasma cell-free DNA for cancer detection and classification.
Liu L, Toung JM, Jassowicz AF, Vijayaraghavan R, Kang H, Zhang R, Kruglyak KM, Huang HJ, Hinoue T, Shen H, Salathia NS, Hong DS, Naing A, Subbiah V, Piha-Paul SA, Bibikova M, Granger G, Barnes B, Shen R, Gutekunst K, Fu S, Tsimberidou AM, Lu C, Eng C, Moulder SL, Kopetz ES, Amaria RN, Meric-Bernstam F, Laird PW, Fan JB, Janku F. Liu L, et al. Among authors: vijayaraghavan r. Ann Oncol. 2018 Jun 1;29(6):1445-1453. doi: 10.1093/annonc/mdy119. Ann Oncol. 2018. PMID: 29635542 Free PMC article.
Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain.
Lake BB, Ai R, Kaeser GE, Salathia NS, Yung YC, Liu R, Wildberg A, Gao D, Fung HL, Chen S, Vijayaraghavan R, Wong J, Chen A, Sheng X, Kaper F, Shen R, Ronaghi M, Fan JB, Wang W, Chun J, Zhang K. Lake BB, et al. Among authors: vijayaraghavan r. Science. 2016 Jun 24;352(6293):1586-90. doi: 10.1126/science.aaf1204. Science. 2016. PMID: 27339989 Free PMC article.
Meta-analysis of new genome-wide association studies of colorectal cancer risk.
Peters U, Hutter CM, Hsu L, Schumacher FR, Conti DV, Carlson CS, Edlund CK, Haile RW, Gallinger S, Zanke BW, Lemire M, Rangrej J, Vijayaraghavan R, Chan AT, Hazra A, Hunter DJ, Ma J, Fuchs CS, Giovannucci EL, Kraft P, Liu Y, Chen L, Jiao S, Makar KW, Taverna D, Gruber SB, Rennert G, Moreno V, Ulrich CM, Woods MO, Green RC, Parfrey PS, Prentice RL, Kooperberg C, Jackson RD, Lacroix AZ, Caan BJ, Hayes RB, Berndt SI, Chanock SJ, Schoen RE, Chang-Claude J, Hoffmeister M, Brenner H, Frank B, Bézieau S, Küry S, Slattery ML, Hopper JL, Jenkins MA, Le Marchand L, Lindor NM, Newcomb PA, Seminara D, Hudson TJ, Duggan DJ, Potter JD, Casey G. Peters U, et al. Among authors: vijayaraghavan r. Hum Genet. 2012 Feb;131(2):217-34. doi: 10.1007/s00439-011-1055-0. Epub 2011 Jul 15. Hum Genet. 2012. PMID: 21761138 Free PMC article.
Genome-wide association analyses in East Asians identify new susceptibility loci for colorectal cancer.
Jia WH, Zhang B, Matsuo K, Shin A, Xiang YB, Jee SH, Kim DH, Ren Z, Cai Q, Long J, Shi J, Wen W, Yang G, Delahanty RJ; Genetics and Epidemiology of Colorectal Cancer Consortium (GECCO); Colon Cancer Family Registry (CCFR); Ji BT, Pan ZZ, Matsuda F, Gao YT, Oh JH, Ahn YO, Park EJ, Li HL, Park JW, Jo J, Jeong JY, Hosono S, Casey G, Peters U, Shu XO, Zeng YX, Zheng W. Jia WH, et al. Nat Genet. 2013 Feb;45(2):191-6. doi: 10.1038/ng.2505. Epub 2012 Dec 23. Nat Genet. 2013. PMID: 23263487 Free PMC article.
374 results