Faculty Collaboration Database

Akinyemi Ojesina MBBS

Assistant Professor

Institution: Medical College of Wisconsin
Department: Obstetrics and Gynecology
Division: Obstetrics and Gynecology Research and Advanced Education

Member of the Cancer Center

I am willing to collaborate on research projects.
I am willing to mentor a junior faculty member.

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Publications (88)

Metabolic Dysfunction-Associated Steatotic Liver Disease (MASLD): the interplay of gut microbiome, insulin resistance, and diabetes. (Dua A, Kumari R, Singh M, Kumar R, Pradeep S, Ojesina AI, Kumar R) Front Med (Lausanne) 2025;12:1618275 PMID: 40893881 PMCID: PMC12392282 SCOPUS ID: 2-s2.0-105014515937 09/02/2025 11 Citations

Race-related host and microbe transcriptomic signatures in triple-negative breast cancer. (Kumar R, Duyar-Ayerdi S, Sundaresan A, Srinivasasainagendra V, Pedamallu CS, Behring M, Chandrashekar DS, Eltoum IE, Varambally S, Tiwari HK, Shrestha S, Auer PL, Chaudhary LN, Kirby JR, Yates C, Manne U, Ojesina AI) NPJ Breast Cancer 2025 Aug 08;11(1):87 PMID: 40781241 PMCID: PMC12334597 SCOPUS ID: 2-s2.0-105012896561 08/09/2025

Protocol for obtaining cancer type and subtype predictions using subSCOPE. (Grewal JK, Robertson AG, Ellrott K, Wong CK, Lee JA, Yau C, Tercan B, Castro MAA, Benz CC, Cancer Genome Atlas Analysis Network, Zenklusen JC, Cherniack AD, Laird PW, Jones SJM) STAR Protoc 2025 Jun 20;6(2):103705 PMID: 40202838 PMCID: PMC12013717 SCOPUS ID: 2-s2.0-105002049631 04/09/2025

Protocol for assessing distances in pathway space for classifier feature sets from machine learning methods. (Tercan B, Apolonio VH, Chagas VS, Wong CK, Lee JA, Yau C, Benz CC, Stuart JM, Karlberg BJ, Ellrott K, Grewal JK, Jones SJM, Cancer Genome Atlas Analysis Network, Zenklusen JC, Robertson AG, Laird PW, Cherniack AD, Castro MAA) STAR Protoc 2025 Jun 20;6(2):103681 PMID: 40106435 PMCID: PMC11968257 SCOPUS ID: 2-s2.0-105000123120 03/19/2025

Deciphering the divergent transcriptomic landscapes of cervical cancer cells grown in 3D and 2D cell culture systems. (Kumar R, Iden M, Tsaih SW, Schmidt R, Ojesina AI, Rader JS) Front Cell Dev Biol 2024;12:1413882 PMID: 39193365 PMCID: PMC11347336 SCOPUS ID: 2-s2.0-85202043249 08/28/2024 8 Citations

Expression patterns of mismatch repair proteins in cervical cancer uncover independent prognostic value of MSH-2. (van den Berg MC, Berg HF, Stokowy T, Hoivik EA, Woie K, Engerud H, Ojesina AI, Haldorsen IS, Trovik J, Bertelsen BI, Krakstad C, Halle MK) Int J Gynecol Cancer 2024 Jul 01;34(7):993-1000 PMID: 38950928 PMCID: PMC11228214 SCOPUS ID: 2-s2.0-85197692726 07/02/2024 1 Citation

From Gut to Hormones: Unraveling the Role of Gut Microbiota in (Phyto)Estrogen Modulation in Health and Disease. (Kumari N, Kumari R, Dua A, Singh M, Kumar R, Singh P, Duyar-Ayerdi S, Pradeep S, Ojesina AI, Kumar R) Mol Nutr Food Res 2024 Mar;68(6):e2300688 PMID: 38342595 SCOPUS ID: 2-s2.0-85184482849 02/12/2024 66 Citations

Variations in Genes Encoding Human Papillomavirus Binding Receptors and Susceptibility to Cervical Precancer. (Mukherjee A, Ye Y, Wiener HW, Kuniholm MH, Minkoff H, Michel K, Palefsky J, D'Souza G, Rahangdale L, Butler KR, Kempf MC, Sudenga SL, Aouizerat BE, Ojesina AI, Shrestha S) Cancer Epidemiol Biomarkers Prev 2023 Sep 01;32(9):1190-1197 PMID: 37410084 PMCID: PMC10472094 SCOPUS ID: 2-s2.0-85169502444 07/06/2023 5 Citations

Evaluating Nurses' Time to Response by Severity and Cancer Stage in a Remote Symptom Monitoring Program for Patients With Breast Cancer. (Caston NE, Franks JA, Balas N, Eltoum N, Thigpen H, Patterson M, Azuero A, Ojesina AI, Dent DN, Hildreth K, Lalor FR, McGowen C, Huang CS, Dionne-Odom JN, Weiner BJ, Jackson BE, Basch EM, Stover AM, Howell D, Pierce JY, Rocque GB) JCO Clin Cancer Inform 2023 Jun;7:e2300015 PMID: 37279409 PMCID: PMC10530733 SCOPUS ID: 2-s2.0-85161103524 06/06/2023 12 Citations

Genome-wide variants and polygenic risk scores for cognitive impairment following blood or marrow transplantation. (Sharafeldin N, Zhang J, Singh P, Bosworth A, Chen Y, Patel SK, Wang X, Francisco L, Forman SJ, Wong FL, Ojesina AI, Bhatia S) Bone Marrow Transplant 2022 Jun;57(6):925-933 PMID: 35379913 PMCID: PMC9233077 SCOPUS ID: 2-s2.0-85127536986 04/06/2022 1 Citation

Partnership status and retention in care among cisgender heterosexual newly diagnosed people with HIV: a cohort study. (Sohail M, Long DM, Mugavero MJ, Batey DS, Ojesina AI, Levitan EB) AIDS Care 2023 Sep;35(9):1428-1436 PMID: 35348413 PMCID: PMC9519801 SCOPUS ID: 2-s2.0-85127686722 03/30/2022

Partnership status and time to viral suppression and sustained viral suppression among newly diagnosed heterosexual people with HIV. (Sohail M, Long DM, Batey DS, Mugavero MJ, Ojesina AI, Levitan EB) Int J STD AIDS 2022 Mar;33(4):347-354 PMID: 35085052 PMCID: PMC9364114 SCOPUS ID: 2-s2.0-85124105567 01/28/2022 1 Citation

Genomic alterations associated with mutational signatures, DNA damage repair and chromatin remodeling pathways in cervical carcinoma. (Halle MK, Sundaresan A, Zhang J, Pedamallu CS, Srinivasasainagendra V, Blair J, Brooke D, Bertelsen BI, Woie K, Shrestha S, Tiwari H, Wong YF, Krakstad C, Ojesina AI) NPJ Genom Med 2021 Oct 07;6(1):82 PMID: 34620846 PMCID: PMC8497615 SCOPUS ID: 2-s2.0-85116511399 10/09/2021 17 Citations

Genomic Characterization and Therapeutic Targeting of HPV Undetected Cervical Carcinomas. (Ruiz FJ, Sundaresan A, Zhang J, Pedamallu CS, Halle MK, Srinivasasainagendra V, Zhang J, Muhammad N, Stanley J, Markovina S, Tiwari HK, Grigsby PW, Krakstad C, Schwarz JK, Ojesina AI) Cancers (Basel) 2021 Sep 10;13(18) PMID: 34572780 PMCID: PMC8467954 SCOPUS ID: 2-s2.0-85114596552 09/29/2021 25 Citations

Treatment-related Correlates of Growth in Children With Sickle Cell Disease in the DISPLACE Cohort. (Galadanci NA, Sohail M, Akinyelure OP, Kanter J, Ojesina AI) J Pediatr Hematol Oncol 2022 Jul 01;44(5):249-254 PMID: 34486556 PMCID: PMC8898314 SCOPUS ID: 2-s2.0-85117265584 09/07/2021 7 Citations

Dissection of PIK3CA Aberration for Cervical Adenocarcinoma Outcomes. (Chung TKH, Doran G, Cheung TH, Yim SF, Yu MY, Worley MJ Jr, Elias KM, Thorner AR, Pedamallu CS, Ojesina AI, Lau KM, Ducar MD, Wong RRY, Wang VW, Nag A, Wollison BM, Dalgarno A, Lee JHS, Yeung SY, Wong L, Horowitz NS, Davis MR, Leung SA, Mu Y, Mok SC, Chan PKS, Lawrence MS, Crum CP, Chiu RWK, Berkowitz RS, Wong YF) Cancers (Basel) 2021 Jun 28;13(13) PMID: 34203201 PMCID: PMC8269188 SCOPUS ID: 2-s2.0-85108696152 07/03/2021 7 Citations

Immunophenotype-associated gene signature in ductal breast tumors varies by receptor subtype, but the expression of individual signature genes remains consistent. (Behring M, Ye Y, Elkholy A, Bajpai P, Agarwal S, Kim HG, Ojesina AI, Wiener HW, Manne U, Shrestha S, Vazquez AI) Cancer Med 2021 Aug;10(16):5712-5720 PMID: 34189853 PMCID: PMC8366080 SCOPUS ID: 2-s2.0-85108954858 07/01/2021 8 Citations

A 10-gene prognostic signature points to LIMCH1 and HLA-DQB1 as important players in aggressive cervical cancer disease. (Halle MK, Sødal M, Forsse D, Engerud H, Woie K, Lura NG, Wagner-Larsen KS, Trovik J, Bertelsen BI, Haldorsen IS, Ojesina AI, Krakstad C) Br J Cancer 2021 May;124(10):1690-1698 PMID: 33723390 PMCID: PMC8110544 SCOPUS ID: 2-s2.0-85102563831 03/17/2021 25 Citations

Inhibiting β-catenin disables nucleolar functions in triple-negative breast cancer. (Weeks SE, Kammerud SC, Metge BJ, AlSheikh HA, Schneider DA, Chen D, Wei S, Mobley JA, Ojesina AI, Shevde LA, Samant RS) Cell Death Dis 2021 Mar 04;12(3):242 PMID: 33664239 PMCID: PMC7933177 SCOPUS ID: 2-s2.0-85102032030 03/06/2021 20 Citations

Race/ethnicity, sex and insurance disparities in colorectal cancer screening among individuals with and without cardiovascular disease. (Sakhuja S, Fowler ME, Ojesina AI) Prev Med Rep 2021 Mar;21:101263 PMID: 33391980 PMCID: PMC7773575 SCOPUS ID: 2-s2.0-85098766038 01/05/2021 6 Citations

Author Correction: Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. (Bailey MH, Meyerson WU, Dursi LJ, Wang LB, Dong G, Liang WW, Weerasinghe A, Li S, Li Y, Kelso S, MC3 Working Group, PCAWG novel somatic mutation calling methods working group, Saksena G, Ellrott K, Wendl MC, Wheeler DA, Getz G, Simpson JT, Gerstein MB, Ding L, PCAWG Consortium) Nat Commun 2020 Nov 30;11(1):6232 PMID: 33257764 PMCID: PMC7705717 SCOPUS ID: 2-s2.0-85096915769 12/02/2020

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. (Bailey MH, Meyerson WU, Dursi LJ, Wang LB, Dong G, Liang WW, Weerasinghe A, Li S, Li Y, Kelso S, MC3 Working Group, PCAWG novel somatic mutation calling methods working group, Saksena G, Ellrott K, Wendl MC, Wheeler DA, Getz G, Simpson JT, Gerstein MB, Ding L, PCAWG Consortium) Nat Commun 2020 Sep 21;11(1):4748 PMID: 32958763 PMCID: PMC7505971 SCOPUS ID: 2-s2.0-85079069163 09/23/2020 43 Citations

HPV-EM: an accurate HPV detection and genotyping EM algorithm. (Inkman MJ, Jayachandran K, Ellis TM, Ruiz F, McLellan MD, Miller CA, Wu Y, Ojesina AI, Schwarz JK, Zhang J) Sci Rep 2020 Aug 31;10(1):14340 PMID: 32868873 PMCID: PMC7459114 SCOPUS ID: 2-s2.0-85089995588 09/02/2020 8 Citations

Sex differences in oncogenic mutational processes. (Li CH, Prokopec SD, Sun RX, Yousif F, Schmitz N, PCAWG Tumour Subtypes and Clinical Translation, Boutros PC, PCAWG Consortium) Nat Commun 2020 Aug 28;11(1):4330 PMID: 32859912 PMCID: PMC7455744 SCOPUS ID: 2-s2.0-85079052881 08/30/2020 79 Citations

Analysis of Ugandan cervical carcinomas identifies human papillomavirus clade-specific epigenome and transcriptome landscapes. (Gagliardi A, Porter VL, Zong Z, Bowlby R, Titmuss E, Namirembe C, Griner NB, Petrello H, Bowen J, Chan SK, Culibrk L, Darragh TM, Stoler MH, Wright TC, Gesuwan P, Dyer MA, Ma Y, Mungall KL, Jones SJM, Nakisige C, Novik K, Orem J, Origa M, Gastier-Foster JM, Yarchoan R, Casper C, Mills GB, Rader JS, Ojesina AI, Gerhard DS, Mungall AJ, Marra MA) Nat Genet 2020 Aug;52(8):800-810 PMID: 32747824 PMCID: PMC7498180 SCOPUS ID: 2-s2.0-85088926535 08/05/2020 59 Citations

Pan-cancer analysis of whole genomes. (ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium) Nature 2020 Feb;578(7793):82-93 PMID: 32025007 PMCID: PMC7025898 SCOPUS ID: 2-s2.0-85079038817 02/07/2020 2284 Citations

Comprehensive molecular characterization of mitochondrial genomes in human cancers. (Yuan Y, Ju YS, Kim Y, Li J, Wang Y, Yoon CJ, Yang Y, Martincorena I, Creighton CJ, Weinstein JN, Xu Y, Han L, Kim HL, Nakagawa H, Park K, Campbell PJ, Liang H, PCAWG Consortium) Nat Genet 2020 Mar;52(3):342-352 PMID: 32024997 PMCID: PMC7058535 SCOPUS ID: 2-s2.0-85079059405 02/07/2020 338 Citations

Genomic basis for RNA alterations in cancer. (PCAWG Transcriptome Core Group, Calabrese C, Davidson NR, Demircioğlu D, Fonseca NA, He Y, Kahles A, Lehmann KV, Liu F, Shiraishi Y, Soulette CM, Urban L, Greger L, Li S, Liu D, Perry MD, Xiang Q, Zhang F, Zhang J, Bailey P, Erkek S, Hoadley KA, Hou Y, Huska MR, Kilpinen H, Korbel JO, Marin MG, Markowski J, Nandi T, Pan-Hammarström Q, Pedamallu CS, Siebert R, Stark SG, Su H, Tan P, Waszak SM, Yung C, Zhu S, Awadalla P, Creighton CJ, Meyerson M, Ouellette BFF, Wu K, Yang H, PCAWG Transcriptome Working Group, Brazma A, Brooks AN, Göke J, Rätsch G, Schwarz RF, Stegle O, Zhang Z, PCAWG Consortium) Nature 2020 Feb;578(7793):129-136 PMID: 32025019 PMCID: PMC7054216 SCOPUS ID: 2-s2.0-85079073184 02/07/2020 339 Citations

Analyses of non-coding somatic drivers in 2,658 cancer whole genomes. (Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshøj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, Kim J, Mularoni L, Shuai S, Lanzós A, Herrmann C, Maruvka YE, Shen C, Amin SB, Bandopadhayay P, Bertl J, Boroevich KA, Busanovich J, Carlevaro-Fita J, Chakravarty D, Chan CWY, Craft D, Dhingra P, Diamanti K, Fonseca NA, Gonzalez-Perez A, Guo Q, Hamilton MP, Haradhvala NJ, Hong C, Isaev K, Johnson TA, Juul M, Kahles A, Kahraman A, Kim Y, Komorowski J, Kumar K, Kumar S, Lee D, Lehmann KV, Li Y, Liu EM, Lochovsky L, Park K, Pich O, Roberts ND, Saksena G, Schumacher SE, Sidiropoulos N, Sieverling L, Sinnott-Armstrong N, Stewart C, Tamborero D, Tubio JMC, Umer HM, Uusküla-Reimand L, Wadelius C, Wadi L, Yao X, Zhang CZ, Zhang J, Haber JE, Hobolth A, Imielinski M, Kellis M, Lawrence MS, von Mering C, Nakagawa H, Raphael BJ, Rubin MA, Sander C, Stein LD, Stuart JM, Tsunoda T, Wheeler DA, Johnson R, Reimand J, Gerstein M, Khurana E, Campbell PJ, López-Bigas N, PCAWG Drivers and Functional Interpretation Working Group, PCAWG Structural Variation Working Group, Weischenfeldt J, Beroukhim R, Martincorena I, Pedersen JS, Getz G, PCAWG Consortium) Nature 2020 Feb;578(7793):102-111 PMID: 32025015 PMCID: PMC7054214 SCOPUS ID: 2-s2.0-85079047263 02/07/2020 455 Citations

The landscape of viral associations in human cancers. (Zapatka M, Borozan I, Brewer DS, Iskar M, Grundhoff A, Alawi M, Desai N, Sültmann H, Moch H, PCAWG Pathogens, Cooper CS, Eils R, Ferretti V, Lichter P, PCAWG Consortium) Nat Genet 2020 Mar;52(3):320-330 PMID: 32025001 PMCID: PMC8076016 SCOPUS ID: 2-s2.0-85079063026 02/07/2020 311 Citations

High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations. (Zhang Y, Chen F, Fonseca NA, He Y, Fujita M, Nakagawa H, Zhang Z, Brazma A, PCAWG Transcriptome Working Group, PCAWG Structural Variation Working Group, Creighton CJ, PCAWG Consortium) Nat Commun 2020 Feb 05;11(1):736 PMID: 32024823 PMCID: PMC7002524 SCOPUS ID: 2-s2.0-85079031729 02/07/2020 63 Citations

Pathway and network analysis of more than 2500 whole cancer genomes. (Reyna MA, Haan D, Paczkowska M, Verbeke LPC, Vazquez M, Kahraman A, Pulido-Tamayo S, Barenboim J, Wadi L, Dhingra P, Shrestha R, Getz G, Lawrence MS, Pedersen JS, Rubin MA, Wheeler DA, Brunak S, Izarzugaza JMG, Khurana E, Marchal K, von Mering C, Sahinalp SC, Valencia A, PCAWG Drivers and Functional Interpretation Working Group, Reimand J, Stuart JM, Raphael BJ, PCAWG Consortium) Nat Commun 2020 Feb 05;11(1):729 PMID: 32024854 PMCID: PMC7002574 SCOPUS ID: 2-s2.0-85079060258 02/07/2020 91 Citations

A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns. (Jiao W, Atwal G, Polak P, Karlic R, Cuppen E, PCAWG Tumor Subtypes and Clinical Translation Working Group, Danyi A, de Ridder J, van Herpen C, Lolkema MP, Steeghs N, Getz G, Morris QD, Stein LD, PCAWG Consortium) Nat Commun 2020 Feb 05;11(1):728 PMID: 32024849 PMCID: PMC7002586 SCOPUS ID: 2-s2.0-85079062177 02/07/2020 170 Citations

Inferring structural variant cancer cell fraction. (Cmero M, Yuan K, Ong CS, Schröder J, PCAWG Evolution and Heterogeneity Working Group, Corcoran NM, Papenfuss T, Hovens CM, Markowetz F, Macintyre G, PCAWG Consortium) Nat Commun 2020 Feb 05;11(1):730 PMID: 32024845 PMCID: PMC7002525 SCOPUS ID: 2-s2.0-85079039901 02/07/2020 39 Citations

Divergent mutational processes distinguish hypoxic and normoxic tumours. (Bhandari V, Li CH, Bristow RG, Boutros PC, PCAWG Consortium) Nat Commun 2020 Feb 05;11(1):737 PMID: 32024819 PMCID: PMC7002770 SCOPUS ID: 2-s2.0-85079073682 02/07/2020 114 Citations

Genomic footprints of activated telomere maintenance mechanisms in cancer. (Sieverling L, Hong C, Koser SD, Ginsbach P, Kleinheinz K, Hutter B, Braun DM, Cortés-Ciriano I, Xi R, Kabbe R, Park PJ, Eils R, Schlesner M, PCAWG-Structural Variation Working Group, Brors B, Rippe K, Jones DTW, Feuerbach L, PCAWG Consortium) Nat Commun 2020 Feb 05;11(1):733 PMID: 32024817 PMCID: PMC7002710 SCOPUS ID: 2-s2.0-85079058593 02/07/2020 104 Citations

Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis. (Carlevaro-Fita J, Lanzós A, Feuerbach L, Hong C, Mas-Ponte D, Pedersen JS, PCAWG Drivers and Functional Interpretation Group, Johnson R, PCAWG Consortium) Commun Biol 2020 Feb 05;3(1):56 PMID: 32024996 PMCID: PMC7002399 SCOPUS ID: 2-s2.0-85079071080 02/07/2020 162 Citations

Integrative pathway enrichment analysis of multivariate omics data. (Paczkowska M, Barenboim J, Sintupisut N, Fox NS, Zhu H, Abd-Rabbo D, Mee MW, Boutros PC, PCAWG Drivers and Functional Interpretation Working Group, Reimand J, PCAWG Consortium) Nat Commun 2020 Feb 05;11(1):735 PMID: 32024846 PMCID: PMC7002665 SCOPUS ID: 2-s2.0-85079073313 02/07/2020 176 Citations

Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig. (Rubanova Y, Shi R, Harrigan CF, Li R, Wintersinger J, Sahin N, Deshwar AG, PCAWG Evolution and Heterogeneity Working Group, Morris QD, PCAWG Consortium) Nat Commun 2020 Feb 05;11(1):731 PMID: 32024834 PMCID: PMC7002414 SCOPUS ID: 2-s2.0-85079071600 02/07/2020 34 Citations

Combined burden and functional impact tests for cancer driver discovery using DriverPower. (Shuai S, PCAWG Drivers and Functional Interpretation Working Group, Gallinger S, Stein LD, PCAWG Consortium) Nat Commun 2020 Feb 05;11(1):734 PMID: 32024818 PMCID: PMC7002750 SCOPUS ID: 2-s2.0-85079072523 02/07/2020 41 Citations

The repertoire of mutational signatures in human cancer. (Alexandrov LB, Kim J, Haradhvala NJ, Huang MN, Tian Ng AW, Wu Y, Boot A, Covington KR, Gordenin DA, Bergstrom EN, Islam SMA, Lopez-Bigas N, Klimczak LJ, McPherson JR, Morganella S, Sabarinathan R, Wheeler DA, Mustonen V, PCAWG Mutational Signatures Working Group, Getz G, Rozen SG, Stratton MR, PCAWG Consortium) Nature 2020 Feb;578(7793):94-101 PMID: 32025018 PMCID: PMC7054213 SCOPUS ID: 2-s2.0-85079072353 02/07/2020 2519 Citations

The evolutionary history of 2,658 cancers. (Gerstung M, Jolly C, Leshchiner I, Dentro SC, Gonzalez S, Rosebrock D, Mitchell TJ, Rubanova Y, Anur P, Yu K, Tarabichi M, Deshwar A, Wintersinger J, Kleinheinz K, Vázquez-García I, Haase K, Jerman L, Sengupta S, Macintyre G, Malikic S, Donmez N, Livitz DG, Cmero M, Demeulemeester J, Schumacher S, Fan Y, Yao X, Lee J, Schlesner M, Boutros PC, Bowtell DD, Zhu H, Getz G, Imielinski M, Beroukhim R, Sahinalp SC, Ji Y, Peifer M, Markowetz F, Mustonen V, Yuan K, Wang W, Morris QD, PCAWG Evolution & Heterogeneity Working Group, Spellman PT, Wedge DC, Van Loo P, PCAWG Consortium) Nature 2020 Feb;578(7793):122-128 PMID: 32025013 PMCID: PMC7054212 SCOPUS ID: 2-s2.0-85079055162 02/07/2020 749 Citations

Patterns of somatic structural variation in human cancer genomes. (Li Y, Roberts ND, Wala JA, Shapira O, Schumacher SE, Kumar K, Khurana E, Waszak S, Korbel JO, Haber JE, Imielinski M, PCAWG Structural Variation Working Group, Weischenfeldt J, Beroukhim R, Campbell PJ, PCAWG Consortium) Nature 2020 Feb;578(7793):112-121 PMID: 32025012 PMCID: PMC7025897 SCOPUS ID: 2-s2.0-85078674086 02/07/2020 601 Citations

Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing. (Cortés-Ciriano I, Lee JJ, Xi R, Jain D, Jung YL, Yang L, Gordenin D, Klimczak LJ, Zhang CZ, Pellman DS, PCAWG Structural Variation Working Group, Park PJ, PCAWG Consortium) Nat Genet 2020 Mar;52(3):331-341 PMID: 32025003 PMCID: PMC7058534 SCOPUS ID: 2-s2.0-85079044799 02/07/2020 531 Citations

Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer. (Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R, Campbell PJ, Chin L, Dixon JR, Futreal PA, PCAWG Structural Variation Working Group, PCAWG Consortium) Nat Genet 2020 Mar;52(3):294-305 PMID: 32024999 PMCID: PMC7058537 SCOPUS ID: 2-s2.0-85079073876 02/07/2020 207 Citations

Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition. (Rodriguez-Martin B, Alvarez EG, Baez-Ortega A, Zamora J, Supek F, Demeulemeester J, Santamarina M, Ju YS, Temes J, Garcia-Souto D, Detering H, Li Y, Rodriguez-Castro J, Dueso-Barroso A, Bruzos AL, Dentro SC, Blanco MG, Contino G, Ardeljan D, Tojo M, Roberts ND, Zumalave S, Edwards PA, Weischenfeldt J, Puiggròs M, Chong Z, Chen K, Lee EA, Wala JA, Raine KM, Butler A, Waszak SM, Navarro FCP, Schumacher SE, Monlong J, Maura F, Bolli N, Bourque G, Gerstein M, Park PJ, Wedge DC, Beroukhim R, Torrents D, Korbel JO, Martincorena I, Fitzgerald RC, Van Loo P, Kazazian HH, Burns KH, PCAWG Structural Variation Working Group, Campbell PJ, Tubio JMC, PCAWG Consortium) Nat Genet 2020 Mar;52(3):306-319 PMID: 32024998 PMCID: PMC7058536 SCOPUS ID: 2-s2.0-85079062163 02/07/2020 345 Citations

Butler enables rapid cloud-based analysis of thousands of human genomes. (Yakneen S, Waszak SM, PCAWG Technical Working Group, Gertz M, Korbel JO, PCAWG Consortium) Nat Biotechnol 2020 Mar;38(3):288-292 PMID: 32024987 PMCID: PMC7062635 SCOPUS ID: 2-s2.0-85079041410 02/07/2020 10 Citations

Gain of function in somatic TP53 mutations is associated with immune-rich breast tumors and changes in tumor-associated macrophages. (Behring M, Vazquez AI, Cui X, Irvin MR, Ojesina AI, Agarwal S, Manne U, Shrestha S) Mol Genet Genomic Med 2019 Dec;7(12):e1001 PMID: 31637877 PMCID: PMC6900370 SCOPUS ID: 2-s2.0-85074329703 10/23/2019 13 Citations

The Immune Landscape of Cancer. (Thorsson V, Gibbs DL, Brown SD, Wolf D, Bortone DS, Ou Yang TH, Porta-Pardo E, Gao GF, Plaisier CL, Eddy JA, Ziv E, Culhane AC, Paull EO, Sivakumar IKA, Gentles AJ, Malhotra R, Farshidfar F, Colaprico A, Parker JS, Mose LE, Vo NS, Liu J, Liu Y, Rader J, Dhankani V, Reynolds SM, Bowlby R, Califano A, Cherniack AD, Anastassiou D, Bedognetti D, Mokrab Y, Newman AM, Rao A, Chen K, Krasnitz A, Hu H, Malta TM, Noushmehr H, Pedamallu CS, Bullman S, Ojesina AI, Lamb A, Zhou W, Shen H, Choueiri TK, Weinstein JN, Guinney J, Saltz J, Holt RA, Rabkin CS, Cancer Genome Atlas Research Network, Lazar AJ, Serody JS, Demicco EG, Disis ML, Vincent BG, Shmulevich I) Immunity 2019 Aug 20;51(2):411-412 PMID: 31433971 SCOPUS ID: 2-s2.0-85070213901 08/23/2019 259 Citations

Two high-risk susceptibility loci at 6p25.3 and 14q32.13 for Waldenström macroglobulinemia. (McMaster ML, Berndt SI, Zhang J, Slager SL, Li SA, Vajdic CM, Smedby KE, Yan H, Birmann BM, Brown EE, Smith A, Kleinstern G, Fansler MM, Mayr C, Zhu B, Chung CC, Park JH, Burdette L, Hicks BD, Hutchinson A, Teras LR, Adami HO, Bracci PM, McKay J, Monnereau A, Link BK, Vermeulen RCH, Ansell SM, Maria A, Diver WR, Melbye M, Ojesina AI, Kraft P, Boffetta P, Clavel J, Giovannucci E, Besson CM, Canzian F, Travis RC, Vineis P, Weiderpass E, Montalvan R, Wang Z, Yeager M, Becker N, Benavente Y, Brennan P, Foretova L, Maynadie M, Nieters A, de Sanjose S, Staines A, Conde L, Riby J, Glimelius B, Hjalgrim H, Pradhan N, Feldman AL, Novak AJ, Lawrence C, Bassig BA, Lan Q, Zheng T, North KE, Tinker LF, Cozen W, Severson RK, Hofmann JN, Zhang Y, Jackson RD, Morton LM, Purdue MP, Chatterjee N, Offit K, Cerhan JR, Chanock SJ, Rothman N, Vijai J, Goldin LR, Skibola CF, Caporaso NE) Nat Commun 2018 Oct 10;9(1):4182 PMID: 30305637 PMCID: PMC6180091 SCOPUS ID: 2-s2.0-85054606609 10/12/2018 17 Citations

Comprehensive Molecular Characterization of Muscle-Invasive Bladder Cancer. (Robertson AG, Kim J, Al-Ahmadie H, Bellmunt J, Guo G, Cherniack AD, Hinoue T, Laird PW, Hoadley KA, Akbani R, Castro MAA, Gibb EA, Kanchi RS, Gordenin DA, Shukla SA, Sanchez-Vega F, Hansel DE, Czerniak BA, Reuter VE, Su X, de Sa Carvalho B, Chagas VS, Mungall KL, Sadeghi S, Pedamallu CS, Lu Y, Klimczak LJ, Zhang J, Choo C, Ojesina AI, Bullman S, Leraas KM, Lichtenberg TM, Wu CJ, Schultz N, Getz G, Meyerson M, Mills GB, McConkey DJ, TCGA Research Network, Weinstein JN, Kwiatkowski DJ, Lerner SP) Cell 2018 Aug 09;174(4):1033 PMID: 30096301 PMCID: PMC6297116 SCOPUS ID: 2-s2.0-85050868685 08/11/2018 241 Citations

GATK PathSeq: a customizable computational tool for the discovery and identification of microbial sequences in libraries from eukaryotic hosts. (Walker MA, Pedamallu CS, Ojesina AI, Bullman S, Sharpe T, Whelan CW, Meyerson M) Bioinformatics 2018 Dec 15;34(24):4287-4289 PMID: 29982281 PMCID: PMC6289130 SCOPUS ID: 2-s2.0-85058495941 07/10/2018 92 Citations

The Immune Landscape of Cancer. (Thorsson V, Gibbs DL, Brown SD, Wolf D, Bortone DS, Ou Yang TH, Porta-Pardo E, Gao GF, Plaisier CL, Eddy JA, Ziv E, Culhane AC, Paull EO, Sivakumar IKA, Gentles AJ, Malhotra R, Farshidfar F, Colaprico A, Parker JS, Mose LE, Vo NS, Liu J, Liu Y, Rader J, Dhankani V, Reynolds SM, Bowlby R, Califano A, Cherniack AD, Anastassiou D, Bedognetti D, Mokrab Y, Newman AM, Rao A, Chen K, Krasnitz A, Hu H, Malta TM, Noushmehr H, Pedamallu CS, Bullman S, Ojesina AI, Lamb A, Zhou W, Shen H, Choueiri TK, Weinstein JN, Guinney J, Saltz J, Holt RA, Rabkin CS, Cancer Genome Atlas Research Network, Lazar AJ, Serody JS, Demicco EG, Disis ML, Vincent BG, Shmulevich I) Immunity 2018 Apr 17;48(4):812-830.e14 PMID: 29628290 PMCID: PMC5982584 SCOPUS ID: 2-s2.0-85044934017 04/10/2018 4287 Citations

A Comprehensive Pan-Cancer Molecular Study of Gynecologic and Breast Cancers. (Berger AC, Korkut A, Kanchi RS, Hegde AM, Lenoir W, Liu W, Liu Y, Fan H, Shen H, Ravikumar V, Rao A, Schultz A, Li X, Sumazin P, Williams C, Mestdagh P, Gunaratne PH, Yau C, Bowlby R, Robertson AG, Tiezzi DG, Wang C, Cherniack AD, Godwin AK, Kuderer NM, Rader JS, Zuna RE, Sood AK, Lazar AJ, Ojesina AI, Adebamowo C, Adebamowo SN, Baggerly KA, Chen TW, Chiu HS, Lefever S, Liu L, MacKenzie K, Orsulic S, Roszik J, Shelley CS, Song Q, Vellano CP, Wentzensen N, Cancer Genome Atlas Research Network, Weinstein JN, Mills GB, Levine DA, Akbani R) Cancer Cell 2018 Apr 09;33(4):690-705.e9 PMID: 29622464 PMCID: PMC5959730 SCOPUS ID: 2-s2.0-85044909989 04/07/2018 494 Citations

Comparative Molecular Analysis of Gastrointestinal Adenocarcinomas. (Liu Y, Sethi NS, Hinoue T, Schneider BG, Cherniack AD, Sanchez-Vega F, Seoane JA, Farshidfar F, Bowlby R, Islam M, Kim J, Chatila W, Akbani R, Kanchi RS, Rabkin CS, Willis JE, Wang KK, McCall SJ, Mishra L, Ojesina AI, Bullman S, Pedamallu CS, Lazar AJ, Sakai R, Cancer Genome Atlas Research Network, Thorsson V, Bass AJ, Laird PW) Cancer Cell 2018 Apr 09;33(4):721-735.e8 PMID: 29622466 PMCID: PMC5966039 SCOPUS ID: 2-s2.0-85044904369 04/07/2018 457 Citations

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas. (Campbell JD, Yau C, Bowlby R, Liu Y, Brennan K, Fan H, Taylor AM, Wang C, Walter V, Akbani R, Byers LA, Creighton CJ, Coarfa C, Shih J, Cherniack AD, Gevaert O, Prunello M, Shen H, Anur P, Chen J, Cheng H, Hayes DN, Bullman S, Pedamallu CS, Ojesina AI, Sadeghi S, Mungall KL, Robertson AG, Benz C, Schultz A, Kanchi RS, Gay CM, Hegde A, Diao L, Wang J, Ma W, Sumazin P, Chiu HS, Chen TW, Gunaratne P, Donehower L, Rader JS, Zuna R, Al-Ahmadie H, Lazar AJ, Flores ER, Tsai KY, Zhou JH, Rustgi AK, Drill E, Shen R, Wong CK, Cancer Genome Atlas Research Network, Stuart JM, Laird PW, Hoadley KA, Weinstein JN, Peto M, Pickering CR, Chen Z, Van Waes C) Cell Rep 2018 Apr 03;23(1):194-212.e6 PMID: 29617660 PMCID: PMC6002769 SCOPUS ID: 2-s2.0-85044610513 04/05/2018 272 Citations

Comprehensive Molecular Characterization of Muscle-Invasive Bladder Cancer. (Robertson AG, Kim J, Al-Ahmadie H, Bellmunt J, Guo G, Cherniack AD, Hinoue T, Laird PW, Hoadley KA, Akbani R, Castro MAA, Gibb EA, Kanchi RS, Gordenin DA, Shukla SA, Sanchez-Vega F, Hansel DE, Czerniak BA, Reuter VE, Su X, de Sa Carvalho B, Chagas VS, Mungall KL, Sadeghi S, Pedamallu CS, Lu Y, Klimczak LJ, Zhang J, Choo C, Ojesina AI, Bullman S, Leraas KM, Lichtenberg TM, Wu CJ, Schultz N, Getz G, Meyerson M, Mills GB, McConkey DJ, TCGA Research Network, Weinstein JN, Kwiatkowski DJ, Lerner SP) Cell 2017 Oct 19;171(3):540-556.e25 PMID: 28988769 PMCID: PMC5687509 SCOPUS ID: 2-s2.0-85030652738 10/11/2017 1894 Citations

Integrative Genomic Analysis of Cholangiocarcinoma Identifies Distinct IDH-Mutant Molecular Profiles. (Farshidfar F, Zheng S, Gingras MC, Newton Y, Shih J, Robertson AG, Hinoue T, Hoadley KA, Gibb EA, Roszik J, Covington KR, Wu CC, Shinbrot E, Stransky N, Hegde A, Yang JD, Reznik E, Sadeghi S, Pedamallu CS, Ojesina AI, Hess JM, Auman JT, Rhie SK, Bowlby R, Borad MJ, Cancer Genome Atlas Network, Zhu AX, Stuart JM, Sander C, Akbani R, Cherniack AD, Deshpande V, Mounajjed T, Foo WC, Torbenson MS, Kleiner DE, Laird PW, Wheeler DA, McRee AJ, Bathe OF, Andersen JB, Bardeesy N, Roberts LR, Kwong LN) Cell Rep 2017 Jun 27;19(13):2878-2880 PMID: 28658632 PMCID: PMC6141445 SCOPUS ID: 2-s2.0-85021360691 06/29/2017 157 Citations

Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. (Cancer Genome Atlas Research Network. Electronic address: wheeler@bcm.edu, Cancer Genome Atlas Research Network) Cell 2017 Jun 15;169(7):1327-1341.e23 PMID: 28622513 PMCID: PMC5680778 SCOPUS ID: 2-s2.0-85020833799 06/18/2017 1815 Citations

Clinicopathologic and molecular markers in cervical carcinoma: a prospective cohort study. (Halle MK, Ojesina AI, Engerud H, Woie K, Tangen IL, Holst F, Høivik E, Kusonmano K, Haldorsen IS, Vintermyr OK, Trovik J, Bertelsen BI, Salvesen HB, Krakstad C) Am J Obstet Gynecol 2017 Oct;217(4):432.e1-432.e17 PMID: 28599900 SCOPUS ID: 2-s2.0-85024907854 06/11/2017 47 Citations

Integrative Genomic Analysis of Cholangiocarcinoma Identifies Distinct IDH-Mutant Molecular Profiles. (Farshidfar F, Zheng S, Gingras MC, Newton Y, Shih J, Robertson AG, Hinoue T, Hoadley KA, Gibb EA, Roszik J, Covington KR, Wu CC, Shinbrot E, Stransky N, Hegde A, Yang JD, Reznik E, Sadeghi S, Pedamallu CS, Ojesina AI, Hess JM, Auman JT, Rhie SK, Bowlby R, Borad MJ, Cancer Genome Atlas Network, Zhu AX, Stuart JM, Sander C, Akbani R, Cherniack AD, Deshpande V, Mounajjed T, Foo WC, Torbenson MS, Kleiner DE, Laird PW, Wheeler DA, McRee AJ, Bathe OF, Andersen JB, Bardeesy N, Roberts LR, Kwong LN) Cell Rep 2017 Mar 14;18(11):2780-2794 PMID: 28297679 PMCID: PMC5493145 SCOPUS ID: 2-s2.0-85015247880 03/16/2017 434 Citations

Metagenomic Characterization of Microbial Communities In Situ Within the Deeper Layers of the Ileum in Crohn's Disease. (Pedamallu CS, Bhatt AS, Bullman S, Fowler S, Freeman SS, Durand J, Jung J, Duke F, Manzo V, Cai D, Ananthakrishnan A, Ojesina AI, Ramachandran A, Gevers D, Xavier RJ, Bhan AK, Meyerson M, Yajnik V) Cell Mol Gastroenterol Hepatol 2016 Sep;2(5):563-566.e5 PMID: 28174737 PMCID: PMC5042890 SCOPUS ID: 2-s2.0-84997831786 02/09/2017 27 Citations

Integrated genomic and molecular characterization of cervical cancer. (Cancer Genome Atlas Research Network, Albert Einstein College of Medicine, Analytical Biological Services, Barretos Cancer Hospital, Baylor College of Medicine, Beckman Research Institute of City of Hope, Buck Institute for Research on Aging, Canada's Michael Smith Genome Sciences Centre, Harvard Medical School, Helen F. Graham Cancer Center &Research Institute at Christiana Care Health Services, HudsonAlpha Institute for Biotechnology, ILSbio, LLC, Indiana University School of Medicine, Institute of Human Virology, Institute for Systems Biology, International Genomics Consortium, Leidos Biomedical, Massachusetts General Hospital, McDonnell Genome Institute at Washington University, Medical College of Wisconsin, Medical University of South Carolina, Memorial Sloan Kettering Cancer Center, Montefiore Medical Center, NantOmics, National Cancer Institute, National Hospital, Abuja, Nigeria, National Human Genome Research Institute, National Institute of Environmental Health Sciences, National Institute on Deafness &Other Communication Disorders, Ontario Tumour Bank, London Health Sciences Centre, Ontario Tumour Bank, Ontario Institute for Cancer Research, Ontario Tumour Bank, The Ottawa Hospital, Oregon Health &Science University, Samuel Oschin Comprehensive Cancer Institute, Cedars-Sinai Medical Center, SRA International, St Joseph's Candler Health System, Eli &Edythe L. Broad Institute of Massachusetts Institute of Technology &Harvard University, Research Institute at Nationwide Children's Hospital, Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins University, University of Bergen, University of Texas MD Anderson Cancer Center, University of Abuja Teaching Hospital, University of Alabama at Birmingham, University of California, Irvine, University of California Santa Cruz, University of Kansas Medical Center, University of Lausanne, University of New Mexico Health Sciences Center, University of North Carolina at Chapel Hill, University of Oklahoma Health Sciences Center, University of Pittsburgh, University of São Paulo, Ribeir ão Preto Medical School, University of Southern California, University of Washington, University of Wisconsin School of Medicine &Public Health, Van Andel Research Institute, Washington University in St Louis) Nature 2017 Mar 16;543(7645):378-384 PMID: 28112728 PMCID: PMC5354998 SCOPUS ID: 2-s2.0-85016138846 01/24/2017 1249 Citations

Pathway-Structured Predictive Model for Cancer Survival Prediction: A Two-Stage Approach. (Zhang X, Li Y, Akinyemiju T, Ojesina AI, Buckhaults P, Liu N, Xu B, Yi N) Genetics 2017 Jan;205(1):89-100 PMID: 28049703 PMCID: PMC5223526 SCOPUS ID: 2-s2.0-85008477467 01/05/2017 35 Citations

Integrated genomic characterization of oesophageal carcinoma. (Cancer Genome Atlas Research Network, Analysis Working Group: Asan University, BC Cancer Agency, Brigham and Women’s Hospital, Broad Institute, Brown University, Case Western Reserve University, Dana-Farber Cancer Institute, Duke University, Greater Poland Cancer Centre, Harvard Medical School, Institute for Systems Biology, KU Leuven, Mayo Clinic, Memorial Sloan Kettering Cancer Center, National Cancer Institute, Nationwide Children’s Hospital, Stanford University, University of Alabama, University of Michigan, University of North Carolina, University of Pittsburgh, University of Rochester, University of Southern California, University of Texas MD Anderson Cancer Center, University of Washington, Van Andel Research Institute, Vanderbilt University, Washington University, Genome Sequencing Center: Broad Institute, Washington University in St. Louis, Genome Characterization Centers: BC Cancer Agency, Broad Institute, Harvard Medical School, Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins University, University of North Carolina, University of Southern California Epigenome Center, University of Texas MD Anderson Cancer Center, Van Andel Research Institute, Genome Data Analysis Centers: Broad Institute, Brown University:, Harvard Medical School, Institute for Systems Biology, Memorial Sloan Kettering Cancer Center, University of California Santa Cruz, University of Texas MD Anderson Cancer Center, Biospecimen Core Resource: International Genomics Consortium, Research Institute at Nationwide Children’s Hospital, Tissue Source Sites: Analytic Biologic Services, Asan Medical Center, Asterand Bioscience, Barretos Cancer Hospital, BioreclamationIVT, Botkin Municipal Clinic, Chonnam National University Medical School, Christiana Care Health System, Cureline, Duke University, Emory University, Erasmus University, Indiana University School of Medicine, Institute of Oncology of Moldova, International Genomics Consortium, Invidumed, Israelitisches Krankenhaus Hamburg, Keimyung University School of Medicine, Memorial Sloan Kettering Cancer Center, National Cancer Center Goyang, Ontario Tumour Bank, Peter MacCallum Cancer Centre, Pusan National University Medical School, Ribeirão Preto Medical School, St. Joseph’s Hospital &Medical Center, St. Petersburg Academic University, Tayside Tissue Bank, University of Dundee, University of Kansas Medical Center, University of Michigan, University of North Carolina at Chapel Hill, University of Pittsburgh School of Medicine, University of Texas MD Anderson Cancer Center, Disease Working Group: Duke University, Memorial Sloan Kettering Cancer Center, National Cancer Institute, University of Texas MD Anderson Cancer Center, Yonsei University College of Medicine, Data Coordination Center: CSRA Inc., Project Team: National Institutes of Health) Nature 2017 Jan 12;541(7636):169-175 PMID: 28052061 PMCID: PMC5651175 SCOPUS ID: 2-s2.0-85016278868 01/05/2017 1449 Citations

A two-stage approach for combining gene expression and mutation with clinical data improves survival prediction in myelodysplastic syndromes and ovarian cancer. (Li Y, Zhang X, Akinyemiju T, Ojesina AI, Szychowski JM, Liu N, Xu B, Yi N) J Bioinform Genom 2016 Sep;1(1) PMID: 34377946 PMCID: PMC8351588 09/01/2016

Notch Signaling Activation Is Associated with Patient Mortality and Increased FGF1-Mediated Invasion in Squamous Cell Carcinoma of the Oral Cavity. (Weaver AN, Burch MB, Cooper TS, Della Manna DL, Wei S, Ojesina AI, Rosenthal EL, Yang ES) Mol Cancer Res 2016 Sep;14(9):883-91 PMID: 27353029 SCOPUS ID: 2-s2.0-84987904917 06/30/2016 35 Citations

Racial disparities in individual breast cancer outcomes by hormone-receptor subtype, area-level socio-economic status and healthcare resources. (Akinyemiju T, Moore JX, Ojesina AI, Waterbor JW, Altekruse SF) Breast Cancer Res Treat 2016 Jun;157(3):575-86 PMID: 27255533 PMCID: PMC4912843 SCOPUS ID: 2-s2.0-84973118016 06/04/2016 74 Citations

The tumor virus landscape of AIDS-related lymphomas. (Arvey A, Ojesina AI, Pedamallu CS, Ballon G, Jung J, Duke F, Leoncini L, De Falco G, Bressman E, Tam W, Chadburn A, Meyerson M, Cesarman E) Blood 2015 May 14;125(20):e14-22 PMID: 25827832 PMCID: PMC4432014 SCOPUS ID: 2-s2.0-84945466762 04/02/2015 69 Citations

Genomic aberrations in cervical adenocarcinomas in Hong Kong Chinese women. (Chung TK, Van Hummelen P, Chan PK, Cheung TH, Yim SF, Yu MY, Ducar MD, Thorner AR, MacConaill LE, Doran G, Pedamallu CS, Ojesina AI, Wong RR, Wang VW, Freeman SS, Lau TS, Kwong J, Chan LK, Fromer M, May T, Worley MJ Jr, Esselen KM, Elias KM, Lawrence M, Getz G, Smith DI, Crum CP, Meyerson M, Berkowitz RS, Wong YF) Int J Cancer 2015 Aug 15;137(4):776-83 PMID: 25626421 SCOPUS ID: 2-s2.0-84931562257 01/30/2015 45 Citations

Comprehensive genomic characterization of head and neck squamous cell carcinomas. (Cancer Genome Atlas Network) Nature 2015 Jan 29;517(7536):576-82 PMID: 25631445 PMCID: PMC4311405 SCOPUS ID: 2-s2.0-84923197605 01/30/2015 3427 Citations

Integrated genomic characterization of papillary thyroid carcinoma. (Cancer Genome Atlas Research Network) Cell 2014 Oct 23;159(3):676-90 PMID: 25417114 PMCID: PMC4243044 SCOPUS ID: 2-s2.0-84908335908 11/25/2014 2677 Citations

Characterization of HPV and host genome interactions in primary head and neck cancers. (Parfenov M, Pedamallu CS, Gehlenborg N, Freeman SS, Danilova L, Bristow CA, Lee S, Hadjipanayis AG, Ivanova EV, Wilkerson MD, Protopopov A, Yang L, Seth S, Song X, Tang J, Ren X, Zhang J, Pantazi A, Santoso N, Xu AW, Mahadeshwar H, Wheeler DA, Haddad RI, Jung J, Ojesina AI, Issaeva N, Yarbrough WG, Hayes DN, Grandis JR, El-Naggar AK, Meyerson M, Park PJ, Chin L, Seidman JG, Hammerman PS, Kucherlapati R, Cancer Genome Atlas Network) Proc Natl Acad Sci U S A 2014 Oct 28;111(43):15544-9 PMID: 25313082 PMCID: PMC4217452 SCOPUS ID: 2-s2.0-84908261808 10/15/2014 334 Citations

Comprehensive molecular characterization of gastric adenocarcinoma. (Cancer Genome Atlas Research Network) Nature 2014 Sep 11;513(7517):202-9 PMID: 25079317 PMCID: PMC4170219 SCOPUS ID: 2-s2.0-84907270779 08/01/2014 5531 Citations

Landscape of genomic alterations in cervical carcinomas. (Ojesina AI, Lichtenstein L, Freeman SS, Pedamallu CS, Imaz-Rosshandler I, Pugh TJ, Cherniack AD, Ambrogio L, Cibulskis K, Bertelsen B, Romero-Cordoba S, Treviño V, Vazquez-Santillan K, Guadarrama AS, Wright AA, Rosenberg MW, Duke F, Kaplan B, Wang R, Nickerson E, Walline HM, Lawrence MS, Stewart C, Carter SL, McKenna A, Rodriguez-Sanchez IP, Espinosa-Castilla M, Woie K, Bjorge L, Wik E, Halle MK, Hoivik EA, Krakstad C, Gabiño NB, Gómez-Macías GS, Valdez-Chapa LD, Garza-Rodríguez ML, Maytorena G, Vazquez J, Rodea C, Cravioto A, Cortes ML, Greulich H, Crum CP, Neuberg DS, Hidalgo-Miranda A, Escareno CR, Akslen LA, Carey TE, Vintermyr OK, Gabriel SB, Barrera-Saldaña HA, Melendez-Zajgla J, Getz G, Salvesen HB, Meyerson M) Nature 2014 Feb 20;506(7488):371-5 PMID: 24390348 PMCID: PMC4161954 SCOPUS ID: 2-s2.0-84894231823 01/07/2014 755 Citations

Somatic mutation of CDKN1B in small intestine neuroendocrine tumors. (Francis JM, Kiezun A, Ramos AH, Serra S, Pedamallu CS, Qian ZR, Banck MS, Kanwar R, Kulkarni AA, Karpathakis A, Manzo V, Contractor T, Philips J, Nickerson E, Pho N, Hooshmand SM, Brais LK, Lawrence MS, Pugh T, McKenna A, Sivachenko A, Cibulskis K, Carter SL, Ojesina AI, Freeman S, Jones RT, Voet D, Saksena G, Auclair D, Onofrio R, Shefler E, Sougnez C, Grimsby J, Green L, Lennon N, Meyer T, Caplin M, Chung DC, Beutler AS, Ogino S, Thirlwell C, Shivdasani R, Asa SL, Harris CR, Getz G, Kulke M, Meyerson M) Nat Genet 2013 Dec;45(12):1483-6 PMID: 24185511 PMCID: PMC4239432 SCOPUS ID: 2-s2.0-84888369188 11/05/2013 290 Citations

The Cancer Genome Atlas Pan-Cancer analysis project. (Cancer Genome Atlas Research Network, Weinstein JN, Collisson EA, Mills GB, Shaw KR, Ozenberger BA, Ellrott K, Shmulevich I, Sander C, Stuart JM) Nat Genet 2013 Oct;45(10):1113-20 PMID: 24071849 PMCID: PMC3919969 SCOPUS ID: 2-s2.0-84884994218 09/28/2013 6880 Citations

Sequence-based discovery of Bradyrhizobium enterica in cord colitis syndrome. (Bhatt AS, Freeman SS, Herrera AF, Pedamallu CS, Gevers D, Duke F, Jung J, Michaud M, Walker BJ, Young S, Earl AM, Kostic AD, Ojesina AI, Hasserjian R, Ballen KK, Chen YB, Hobbs G, Antin JH, Soiffer RJ, Baden LR, Garrett WS, Hornick JL, Marty FM, Meyerson M) N Engl J Med 2013 Aug 08;369(6):517-28 PMID: 23924002 PMCID: PMC3889161 08/09/2013

Discovery and prioritization of somatic mutations in diffuse large B-cell lymphoma (DLBCL) by whole-exome sequencing. (Lohr JG, Stojanov P, Lawrence MS, Auclair D, Chapuy B, Sougnez C, Cruz-Gordillo P, Knoechel B, Asmann YW, Slager SL, Novak AJ, Dogan A, Ansell SM, Link BK, Zou L, Gould J, Saksena G, Stransky N, Rangel-Escareño C, Fernandez-Lopez JC, Hidalgo-Miranda A, Melendez-Zajgla J, Hernández-Lemus E, Schwarz-Cruz y Celis A, Imaz-Rosshandler I, Ojesina AI, Jung J, Pedamallu CS, Lander ES, Habermann TM, Cerhan JR, Shipp MA, Getz G, Golub TR) Proc Natl Acad Sci U S A 2012 Mar 06;109(10):3879-84 PMID: 22343534 PMCID: PMC3309757 SCOPUS ID: 2-s2.0-84857942952 02/22/2012 855 Citations

Genomic analysis identifies association of Fusobacterium with colorectal carcinoma. (Kostic AD, Gevers D, Pedamallu CS, Michaud M, Duke F, Earl AM, Ojesina AI, Jung J, Bass AJ, Tabernero J, Baselga J, Liu C, Shivdasani RA, Ogino S, Birren BW, Huttenhower C, Garrett WS, Meyerson M) Genome Res 2012 Feb;22(2):292-8 PMID: 22009990 PMCID: PMC3266036 SCOPUS ID: 2-s2.0-84863022950 10/20/2011 1705 Citations

PathSeq: software to identify or discover microbes by deep sequencing of human tissue. (Kostic AD, Ojesina AI, Pedamallu CS, Jung J, Verhaak RG, Getz G, Meyerson M) Nat Biotechnol 2011 May;29(5):393-6 PMID: 21552235 PMCID: PMC3523678 SCOPUS ID: 2-s2.0-79955778143 05/10/2011 268 Citations

Interplay of reverse transcriptase inhibitor therapy and gag p6 diversity in HIV type 1 subtype G and CRF02_AG. (Ojesina AI, Chaplin B, Sankalé JL, Murphy R, Idigbe E, Adewole I, Ekong E, Idoko J, Kanki PJ) AIDS Res Hum Retroviruses 2008 Sep;24(9):1167-74 PMID: 18729771 PMCID: PMC2928033 SCOPUS ID: 2-s2.0-51849135719 08/30/2008 7 Citations

Characterization of HIV type 1 reverse transcriptase mutations in infants infected by mothers who received peripartum nevirapine prophylaxis in Jos, Nigeria. (Ojesina AI, Mullins C, Imade G, Samuels J, Sankalé JL, Pam S, Sagay S, Idoko J, Kanki PJ) AIDS Res Hum Retroviruses 2007 Dec;23(12):1587-92 PMID: 18160018 SCOPUS ID: 2-s2.0-37549068576 12/28/2007 7 Citations

The complexity of circulating HIV type 1 strains in Oyo state, Nigeria. (Sankalé JL, Langevin S, Odaibo G, Meloni ST, Ojesina AI, Olaleye D, Kanki P) AIDS Res Hum Retroviruses 2007 Aug;23(8):1020-5 PMID: 17725419 SCOPUS ID: 2-s2.0-34848864225 08/30/2007 25 Citations

HIV-1 subtype and reverse transcriptase genotype: role for geographical location and founder effects. (Ojesina AI, Kanki PJ) PLoS Med 2006 Dec;3(12):e540 PMID: 17194205 PMCID: PMC1762043 SCOPUS ID: 2-s2.0-33845884028 12/30/2006 4 Citations

Subtype-specific patterns in HIV Type 1 reverse transcriptase and protease in Oyo State, Nigeria: implications for drug resistance and host response. (Ojesina AI, Sankalé JL, Odaibo G, Langevin S, Meloni ST, Sarr AD, Olaleye D, Kanki PJ) AIDS Res Hum Retroviruses 2006 Aug;22(8):770-9 PMID: 16910833 SCOPUS ID: 2-s2.0-33748750913 08/17/2006 34 Citations

The role of beta-catenin in regulating angiogenesis in Wilms tumor. (Ojesina AI) J Pediatr Surg 2004 Sep;39(9):1446-7; author reply 1447 PMID: 15359413 SCOPUS ID: 2-s2.0-21644445337 09/11/2004 7 Citations

Decline in the frequency of Burkitt's lymphoma relative to other childhood malignancies in Ibadan, Nigeria. (Ojesina AI, Akang EE, Ojemakinde KO) Ann Trop Paediatr 2002 Jun;22(2):159-63 PMID: 12070951 SCOPUS ID: 2-s2.0-0036261885 06/20/2002 30 Citations

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Profiles for MCW, MU, MSOE, UWM, BCW, CW, Froedtert, and VA Faculty

Akinyemi Ojesina MBBS

Assistant Professor

Publications (88)