My Bibliography

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Garrison MA, Jang Y, Bae T, Cherskov A, Emery SB, Fasching L, Jones A, Moldovan JB, Molitor C, Pochareddy S, Peters MA, Shin JH, Wang Y, Yang X, Akbarian S, Chess A, Gage FH, Gleeson JG, Kidd JM, McConnell M, Mills RE, Moran JV, Park PJ, Sestan N, Urban AE, Vaccarino FM, Walsh CA, Weinberger DR, Wheelan SJ, Abyzov A. Genomic data resources of the Brain Somatic Mosaicism Network for neuropsychiatric diseases. Sci Data. 2023 Nov 20;10(1):813. doi: 10.1038/s41597-023-02645-7. PubMed PMID: 37985666; PubMed Central PMCID: PMC10662356.

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Teh SSK, Bowland K, Bennett A, Halper-Stromberg E, Skaist A, Tang J, Cai F, Macoretta A, Liang H, Kamiyama H, Wheelan S, Lin MT, Hruban RH, Scharpf RB, Roberts NJ, Eshleman JR. CRISPR-Cas9 for selective targeting of somatic mutations in pancreatic cancers. bioRxiv. 2023 Oct 10;. doi: 10.1101/2023.04.15.537042. PubMed PMID: 37131822; PubMed Central PMCID: PMC10153132.

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Rajeh A, Cornman HL, Gupta A, Szeto MD, Kambala A, Oladipo O, Parthasarathy V, Deng J, Wheelan S, Pritchard T, Kwatra MM, Semenov YR, Gusev A, Yegnasubramanian S, Kwatra SG. Somatic mutations reveal hyperactive Notch signaling and racial disparities in prurigo nodularis. medRxiv. 2023 Sep 26;. doi: 10.1101/2023.09.25.23295810. PubMed PMID: 37808834; PubMed Central PMCID: PMC10557842.

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Skinner NE, Ogega CO, Frumento N, Clark KE, Paul H, Yegnasubramanian S, Schuebel K, Meyers J, Gupta A, Wheelan S, Cox AL, Crowe JE Jr, Ray SC, Bailey JR. Corrigendum: Convergent antibody responses are associated with broad neutralization of hepatitis C virus. Front Immunol. 2023;14:1201033. doi: 10.3389/fimmu.2023.1201033. eCollection 2023. PubMed PMID: 37180140; PubMed Central PMCID: PMC10167485.

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Skinner NE, Ogega CO, Frumento N, Clark KE, Yegnasubramanian S, Schuebel K, Meyers J, Gupta A, Wheelan S, Cox AL, Crowe JE Jr, Ray SC, Bailey JR. Convergent antibody responses are associated with broad neutralization of hepatitis C virus. Front Immunol. 2023;14:1135841. doi: 10.3389/fimmu.2023.1135841. eCollection 2023. PubMed PMID: 37033983; PubMed Central PMCID: PMC10080129.

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Graham MK, Chikarmane R, Wang R, Vaghasia A, Gupta A, Zheng Q, Wodu B, Pan X, Castagna N, Liu J, Meyers J, Skaist A, Wheelan S, Simons BW, Bieberich C, Nelson WG, DeWeese TL, De Marzo AM, Yegnasubramanian S. Single-cell atlas of epithelial and stromal cell heterogeneity by lobe and strain in the mouse prostate. Prostate. 2023 Feb;83(3):286-303. doi: 10.1002/pros.24460. Epub 2022 Nov 13. PubMed PMID: 36373171.

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Pham MT, Gupta A, Gupta H, Vaghasia A, Skaist A, Garrison MA, Coulter JB, Haffner MC, Zheng SL, Xu J, DeStefano Shields C, Isaacs WB, Wheelan SJ, Nelson WG, Yegnasubramanian S. Identifying Phased Mutations and Complex Rearrangements in Human Prostate Cancer Cell Lines through Linked-Read Whole-Genome Sequencing. Mol Cancer Res. 2022 Jul 6;20(7):1013-1020. doi: 10.1158/1541-7786.MCR-21-0683. PubMed PMID: 35452513; PubMed Central PMCID: PMC9262859.

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Sidiropoulos DN, Rafie CI, Jang JK, Castanon S, Baugh AG, Gonzalez E, Christmas BJ, Narumi VH, Davis-Marcisak EF, Sharma G, Bigelow E, Vaghasia A, Gupta A, Skaist A, Considine M, Wheelan SJ, Ganesan SK, Yu M, Yegnasubramanian S, Stearns V, Connolly RM, Gaykalova DA, Kagohara LT, Jaffee EM, Fertig EJ, Roussos Torres ET. Entinostat Decreases Immune Suppression to Promote Antitumor Responses in a HER2+ Breast Tumor Microenvironment. Cancer Immunol Res. 2022 May 3;10(5):656-669. doi: 10.1158/2326-6066.CIR-21-0170. PubMed PMID: 35201318; PubMed Central PMCID: PMC9064912.

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Stupnikov A, Sizykh A, Budkina A, Favorov A, Afsari B, Wheelan S, Marchionni L, Medvedeva Y. Hobotnica: exploring molecular signature quality. F1000Res. 2021;10:1260. doi: 10.12688/f1000research.74846.2. eCollection 2021. PubMed PMID: 36204675; PubMed Central PMCID: PMC9513410.

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Luchetti A, Forni G, Martelossi J, Savojardo C, Martelli PL, Casadio R, Skaist AM, Wheelan SJ, Mantovani B. Comparative genomics of tadpole shrimps (Crustacea, Branchiopoda, Notostraca): Dynamic genome evolution against the backdrop of morphological stasis. Genomics. 2021 Nov;113(6):4163-4172. doi: 10.1016/j.ygeno.2021.11.001. Epub 2021 Nov 5. PubMed PMID: 34748900.

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Haffner MC, Bhamidipati A, Tsai HK, Esopi DM, Vaghasia AM, Low JY, Patel RA, Guner G, Pham MT, Castagna N, Hicks J, Wyhs N, Aebersold R, De Marzo AM, Nelson WG, Guo T, Yegnasubramanian S. Phenotypic characterization of two novel cell line models of castration-resistant prostate cancer. Prostate. 2021 Nov;81(15):1159-1171. doi: 10.1002/pros.24210. Epub 2021 Aug 16. PubMed PMID: 34402095; PubMed Central PMCID: PMC8460612.

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Skinner NE, Vergara C, El-Diwany R, Paul H, Skaist A, Wheelan SJ, Thomas DL, Ray SC, Balagopal A, Bailey JR. Decreased Activated CD4(+) T Cell Repertoire Diversity After Antiretroviral Therapy in HIV-1/HCV Coinfection Correlates with CD4(+) T Cell Recovery. Viral Immunol. 2021 Nov;34(9):622-631. doi: 10.1089/vim.2021.0027. Epub 2021 Oct 21. PubMed PMID: 34672777; PubMed Central PMCID: PMC8917883.

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Caushi JX, Zhang J, Ji Z, Vaghasia A, Zhang B, Hsiue EH, Mog BJ, Hou W, Justesen S, Blosser R, Tam A, Anagnostou V, Cottrell TR, Guo H, Chan HY, Singh D, Thapa S, Dykema AG, Burman P, Choudhury B, Aparicio L, Cheung LS, Lanis M, Belcaid Z, El Asmar M, Illei PB, Wang R, Meyers J, Schuebel K, Gupta A, Skaist A, Wheelan S, Naidoo J, Marrone KA, Brock M, Ha J, Bush EL, Park BJ, Bott M, Jones DR, Reuss JE, Velculescu VE, Chaft JE, Kinzler KW, Zhou S, Vogelstein B, Taube JM, Hellmann MD, Brahmer JR, Merghoub T, Forde PM, Yegnasubramanian S, Ji H, Pardoll DM, Smith KN. Transcriptional programs of neoantigen-specific TIL in anti-PD-1-treated lung cancers. Nature. 2021 Aug;596(7870):126-132. doi: 10.1038/s41586-021-03752-4. Epub 2021 Jul 21. PubMed PMID: 34290408; PubMed Central PMCID: PMC8338555.

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Xu Z, Green B, Benoit N, Sobel JD, Schatz MC, Wheelan S, Cormack BP. Cell wall protein variation, break-induced replication, and subtelomere dynamics in Candida glabrata. Mol Microbiol. 2021 Jul;116(1):260-276. doi: 10.1111/mmi.14707. Epub 2021 Mar 17. PubMed PMID: 33713372.

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DiBiase RM, Beach MC, Carrese JA, Haythornthwaite JA, Wheelan SJ, Atkinson MA, Geller G, Gebo KA, Greene JA, Sozio SM. A medical student scholarly concentrations program: scholarly self-efficacy and impact on future research activities. Med Educ Online. 2020 Dec;25(1):1786210. doi: 10.1080/10872981.2020.1786210. PubMed PMID: 32589550; PubMed Central PMCID: PMC7482758.

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Esopi D, Graham MK, Brosnan-Cashman JA, Meyers J, Vaghasia A, Gupta A, Kumar B, Haffner MC, Heaphy CM, De Marzo AM, Meeker AK, Nelson WG, Wheelan SJ, Yegnasubramanian S. Pervasive promoter hypermethylation of silenced TERT alleles in human cancers. Cell Oncol (Dordr). 2020 Oct;43(5):847-861. doi: 10.1007/s13402-020-00531-7. Epub 2020 May 28. PubMed PMID: 32468444; PubMed Central PMCID: PMC7581602.

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Xu Z, Green B, Benoit N, Schatz M, Wheelan S, Cormack B. De novo genome assembly of Candida glabrata reveals cell wall protein complement and structure of dispersed tandem repeat arrays. Mol Microbiol. 2020 Jun;113(6):1209-1224. doi: 10.1111/mmi.14488. Epub 2020 Mar 17. PubMed PMID: 32068314.

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Freeman ZT, Nirschl TR, Hovelson DH, Johnston RJ, Engelhardt JJ, Selby MJ, Kochel CM, Lan RY, Zhai J, Ghasemzadeh A, Gupta A, Skaist AM, Wheelan SJ, Jiang H, Pearson AT, Snyder LA, Korman AJ, Tomlins SA, Yegnasubramanian S, Drake CG. A conserved intratumoral regulatory T cell signature identifies 4-1BB as a pan-cancer target. J Clin Invest. 2020 Mar 2;130(3):1405-1416. doi: 10.1172/JCI128672. PubMed PMID: 32015231; PubMed Central PMCID: PMC7269585.

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Schubert AD, Channah Broner E, Agrawal N, London N, Pearson A, Gupta A, Wali N, Seiwert TY, Wheelan S, Lingen M, Macleod K, Allen H, Chatterjee A, Vassiliki S, Gaykalova D, Hoque MO, Sidransky D, Suresh K, Izumchenko E. Somatic mitochondrial mutation discovery using ultra-deep sequencing of the mitochondrial genome reveals spatial tumor heterogeneity in head and neck squamous cell carcinoma. Cancer Lett. 2020 Feb 28;471:49-60. doi: 10.1016/j.canlet.2019.12.006. Epub 2019 Dec 10. PubMed PMID: 31830557; PubMed Central PMCID: PMC6980748.

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Resar LM, Jaffee EM, Armanios M, Jackson S, Azad NS, Horton MR, Kaplan MJ, Laiho M, Maus MV, Sumner CJ, Wheelan SJ, Wills-Karp M. Equity and diversity in academic medicine: a perspective from the JCI editors. J Clin Invest. 2019 Oct 1;129(10):3974-3977. doi: 10.1172/JCI130902. PubMed PMID: 31524636; PubMed Central PMCID: PMC6763240.

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Luchetti A, Forni G, Skaist AM, Wheelan SJ, Mantovani B. Mitochondrial genome diversity and evolution in Branchiopoda (Crustacea). Zoological Lett. 2019;5:15. doi: 10.1186/s40851-019-0131-5. eCollection 2019. PubMed PMID: 31149346; PubMed Central PMCID: PMC6537178.

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Wilton R, Wheelan SJ, Szalay AS, Salzberg SL. The Terabase Search Engine: a large-scale relational database of short-read sequences. Bioinformatics. 2019 Feb 15;35(4):665-670. doi: 10.1093/bioinformatics/bty657. PubMed PMID: 30052772; PubMed Central PMCID: PMC6379032.

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Pereira GC, Sanchez L, Schaughency PM, Rubio-Roldán A, Choi JA, Planet E, Batra R, Turelli P, Trono D, Ostrow LW, Ravits J, Kazazian HH, Wheelan SJ, Heras SR, Mayer J, García-Pérez JL, Goodier JL. Properties of LINE-1 proteins and repeat element expression in the context of amyotrophic lateral sclerosis. Mob DNA. 2018;9:35. doi: 10.1186/s13100-018-0138-z. eCollection 2018. PubMed PMID: 30564290; PubMed Central PMCID: PMC6295051.

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Gerrick KY, Gerrick ER, Gupta A, Wheelan SJ, Yegnasubramanian S, Jaffee EM. Transcriptional profiling identifies novel regulators of macrophage polarization. PLoS One. 2018;13(12):e0208602. doi: 10.1371/journal.pone.0208602. eCollection 2018. PubMed PMID: 30532146; PubMed Central PMCID: PMC6286176.

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Kelley DZ, Flam EL, Guo T, Danilova LV, Zamuner FT, Bohrson C, Considine M, Windsor EJ, Bishop JA, Zhang C, Koch WM, Sidransky D, Westra WH, Chung CH, Califano JA, Wheelan S, Favorov AV, Florea L, Fertig EJ, Gaykalova DA. Functional characterization of alternatively spliced GSN in head and neck squamous cell carcinoma. Transl Res. 2018 Dec;202:109-119. doi: 10.1016/j.trsl.2018.07.007. Epub 2018 Jul 26. PubMed PMID: 30118659; PubMed Central PMCID: PMC6218276.

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Torres A, Alshalalfa M, Davicioni E, Gupta A, Yegnasubramanian S, Wheelan SJ, Epstein JI, De Marzo AM, Lotan TL. ETS2 is a prostate basal cell marker and is highly expressed in prostate cancers aberrantly expressing p63. Prostate. 2018 Sep;78(12):896-904. doi: 10.1002/pros.23646. Epub 2018 May 15. PubMed PMID: 29761525; PubMed Central PMCID: PMC6818503.

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Markowski MC, Hubbard GK, Hicks JL, Zheng Q, King A, Esopi D, Rege A, Yegnasubramanian S, Bieberich CJ, De Marzo AM. Characterization of novel cell lines derived from a MYC-driven murine model of lethal metastatic adenocarcinoma of the prostate. Prostate. 2018 Sep;78(13):992-1000. doi: 10.1002/pros.23657. Epub 2018 May 30. PubMed PMID: 29851094; PubMed Central PMCID: PMC9844589.

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Baena-Del Valle JA, Zheng Q, Esopi DM, Rubenstein M, Hubbard GK, Moncaliano MC, Hruszkewycz A, Vaghasia A, Yegnasubramanian S, Wheelan SJ, Meeker AK, Heaphy CM, Graham MK, De Marzo AM. MYC drives overexpression of telomerase RNA (hTR/TERC) in prostate cancer. J Pathol. 2018 Jan;244(1):11-24. doi: 10.1002/path.4980. Epub 2017 Nov 14. PubMed PMID: 28888037; PubMed Central PMCID: PMC5801764.

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Avigdor BE, Cimino-Mathews A, DeMarzo AM, Hicks JL, Shin J, Sukumar S, Fetting J, Argani P, Park BH, Wheelan SJ. Mutational profiles of breast cancer metastases from a rapid autopsy series reveal multiple evolutionary trajectories. JCI Insight. 2017 Dec 21;2(24). doi: 10.1172/jci.insight.96896. PubMed PMID: 29263308; PubMed Central PMCID: PMC5752302.

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Kelley DZ, Flam EL, Izumchenko E, Danilova LV, Wulf HA, Guo T, Singman DA, Afsari B, Skaist AM, Considine M, Welch JA, Stavrovskaya E, Bishop JA, Westra WH, Khan Z, Koch WM, Sidransky D, Wheelan SJ, Califano JA, Favorov AV, Fertig EJ, Gaykalova DA. Integrated Analysis of Whole-Genome ChIP-Seq and RNA-Seq Data of Primary Head and Neck Tumor Samples Associates HPV Integration Sites with Open Chromatin Marks. Cancer Res. 2017 Dec 1;77(23):6538-6550. doi: 10.1158/0008-5472.CAN-17-0833. Epub 2017 Sep 25. PubMed PMID: 28947419; PubMed Central PMCID: PMC6029614.

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Stavrovskaya ED, Niranjan T, Fertig EJ, Wheelan SJ, Favorov AV, Mironov AA. StereoGene: rapid estimation of genome-wide correlation of continuous or interval feature data. Bioinformatics. 2017 Oct 15;33(20):3158-3165. doi: 10.1093/bioinformatics/btx379. PubMed PMID: 29028265; PubMed Central PMCID: PMC5860031.

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Guo T, Sakai A, Afsari B, Considine M, Danilova L, Favorov AV, Yegnasubramanian S, Kelley DZ, Flam E, Ha PK, Khan Z, Wheelan SJ, Gutkind JS, Fertig EJ, Gaykalova DA, Califano J. A Novel Functional Splice Variant of AKT3 Defined by Analysis of Alternative Splice Expression in HPV-Positive Oropharyngeal Cancers. Cancer Res. 2017 Oct 1;77(19):5248-5258. doi: 10.1158/0008-5472.CAN-16-3106. Epub 2017 Jul 21. PubMed PMID: 28733453; PubMed Central PMCID: PMC6042297.

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Avigdor BE, Beierl K, Gocke CD, Zabransky DJ, Cravero K, Kyker-Snowman K, Button B, Chu D, Croessmann S, Cochran RL, Connolly RM, Park BH, Wheelan SJ, Cimino-Mathews A. Whole-Exome Sequencing of Metaplastic Breast Carcinoma Indicates Monoclonality with Associated Ductal Carcinoma Component. Clin Cancer Res. 2017 Aug 15;23(16):4875-4884. doi: 10.1158/1078-0432.CCR-17-0108. Epub 2017 Apr 19. PubMed PMID: 28424200; PubMed Central PMCID: PMC5559334.

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El-Diwany R, Breitwieser FP, Soliman M, Skaist AM, Srikrishna G, Blankson JN, Ray SC, Wheelan SJ, Thomas DL, Balagopal A. Intracellular HIV-1 RNA and CD4+ T-cell activation in patients starting antiretrovirals. AIDS. 2017 Jun 19;31(10):1405-1414. doi: 10.1097/QAD.0000000000001480. PubMed PMID: 28358734; PubMed Central PMCID: PMC5572749.

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Ling JP, Chhabra R, Merran JD, Schaughency PM, Wheelan SJ, Corden JL, Wong PC. PTBP1 and PTBP2 Repress Nonconserved Cryptic Exons. Cell Rep. 2016 Sep 27;17(1):104-113. doi: 10.1016/j.celrep.2016.08.071. PubMed PMID: 27681424; PubMed Central PMCID: PMC5082185.

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Guo T, Gaykalova DA, Considine M, Wheelan S, Pallavajjala A, Bishop JA, Westra WH, Ideker T, Koch WM, Khan Z, Fertig EJ, Califano JA. Characterization of functionally active gene fusions in human papillomavirus related oropharyngeal squamous cell carcinoma. Int J Cancer. 2016 Jul 15;139(2):373-82. doi: 10.1002/ijc.30081. Epub 2016 Mar 30. PubMed PMID: 26949921; PubMed Central PMCID: PMC5579720.

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Ho H, Skaist AM, Pallavajjala A, Yonescu R, Batista D, Wheelan SJ, Ning Y. NUP98-PHF23 fusion is recurrent in acute myeloid leukemia and shares gene expression signature of leukemic stem cells. Leuk Res. 2016 Jun;45:1-7. doi: 10.1016/j.leukres.2016.03.006. Epub 2016 Mar 30. PubMed PMID: 27060678.

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Rettig EM, Talbot CC Jr, Sausen M, Jones S, Bishop JA, Wood LD, Tokheim C, Niknafs N, Karchin R, Fertig EJ, Wheelan SJ, Marchionni L, Considine M, Ling S, Fakhry C, Papadopoulos N, Kinzler KW, Vogelstein B, Ha PK, Agrawal N. Whole-Genome Sequencing of Salivary Gland Adenoid Cystic Carcinoma. Cancer Prev Res (Phila). 2016 Apr;9(4):265-74. doi: 10.1158/1940-6207.CAPR-15-0316. Epub 2016 Feb 9. PubMed PMID: 26862087; PubMed Central PMCID: PMC4818686.

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Lee SS, Bohrson C, Pike AM, Wheelan SJ, Greider CW. ATM Kinase Is Required for Telomere Elongation in Mouse and Human Cells. Cell Rep. 2015 Nov 24;13(8):1623-32. doi: 10.1016/j.celrep.2015.10.035. Epub 2015 Nov 12. PubMed PMID: 26586427; PubMed Central PMCID: PMC4663052.

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Delaspre F, Beer RL, Rovira M, Huang W, Wang G, Gee S, Vitery Mdel C, Wheelan SJ, Parsons MJ. Centroacinar Cells Are Progenitors That Contribute to Endocrine Pancreas Regeneration. Diabetes. 2015 Oct;64(10):3499-509. doi: 10.2337/db15-0153. Epub 2015 Jul 7. PubMed PMID: 26153247; PubMed Central PMCID: PMC4587647.

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Norris AL, Kamiyama H, Makohon-Moore A, Pallavajjala A, Morsberger LA, Lee K, Batista D, Iacobuzio-Donahue CA, Lin MT, Klein AP, Hruban RH, Wheelan SJ, Eshleman JR. Transflip mutations produce deletions in pancreatic cancer. Genes Chromosomes Cancer. 2015 Aug;54(8):472-481. doi: 10.1002/gcc.22258. Epub 2015 May 29. PubMed PMID: 26031834; PubMed Central PMCID: PMC4833645.

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Wilton R, Budavari T, Langmead B, Wheelan SJ, Salzberg SL, Szalay AS. Arioc: high-throughput read alignment with GPU-accelerated exploration of the seed-and-extend search space. PeerJ. 2015;3:e808. doi: 10.7717/peerj.808. eCollection 2015. PubMed PMID: 25780763; PubMed Central PMCID: PMC4358639.

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Norris AL, Roberts NJ, Jones S, Wheelan SJ, Papadopoulos N, Vogelstein B, Kinzler KW, Hruban RH, Klein AP, Eshleman JR. Familial and sporadic pancreatic cancer share the same molecular pathogenesis. Fam Cancer. 2015 Mar;14(1):95-103. doi: 10.1007/s10689-014-9755-y. PubMed PMID: 25240578; PubMed Central PMCID: PMC4357548.

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Harr JC, Luperchio TR, Wong X, Cohen E, Wheelan SJ, Reddy KL. Directed targeting of chromatin to the nuclear lamina is mediated by chromatin state and A-type lamins. J Cell Biol. 2015 Jan 5;208(1):33-52. doi: 10.1083/jcb.201405110. PubMed PMID: 25559185; PubMed Central PMCID: PMC4284222.

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Carbone L, Harris RA, Gnerre S, Veeramah KR, Lorente-Galdos B, Huddleston J, Meyer TJ, Herrero J, Roos C, Aken B, Anaclerio F, Archidiacono N, Baker C, Barrell D, Batzer MA, Beal K, Blancher A, Bohrson CL, Brameier M, Campbell MS, Capozzi O, Casola C, Chiatante G, Cree A, Damert A, de Jong PJ, Dumas L, Fernandez-Callejo M, Flicek P, Fuchs NV, Gut I, Gut M, Hahn MW, Hernandez-Rodriguez J, Hillier LW, Hubley R, Ianc B, Izsvák Z, Jablonski NG, Johnstone LM, Karimpour-Fard A, Konkel MK, Kostka D, Lazar NH, Lee SL, Lewis LR, Liu Y, Locke DP, Mallick S, Mendez FL, Muffato M, Nazareth LV, Nevonen KA, O'Bleness M, Ochis C, Odom DT, Pollard KS, Quilez J, Reich D, Rocchi M, Schumann GG, Searle S, Sikela JM, Skollar G, Smit A, Sonmez K, ten Hallers B, Terhune E, Thomas GW, Ullmer B, Ventura M, Walker JA, Wall JD, Walter L, Ward MC, Wheelan SJ, Whelan CW, White S, Wilhelm LJ, Woerner AE, Yandell M, Zhu B, Hammer MF, Marques-Bonet T, Eichler EE, Fulton L, Fronick C, Muzny DM, Warren WC, Worley KC, Rogers J, Wilson RK, Gibbs RA. Gibbon genome and the fast karyotype evolution of small apes. Nature. 2014 Sep 11;513(7517):195-201. doi: 10.1038/nature13679. PubMed PMID: 25209798; PubMed Central PMCID: PMC4249732.

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Bai B, Yegnasubramanian S, Wheelan SJ, Laiho M. RNA-Seq of the nucleolus reveals abundant SNORD44-derived small RNAs. PLoS One. 2014;9(9):e107519. doi: 10.1371/journal.pone.0107519. eCollection 2014. PubMed PMID: 25203660; PubMed Central PMCID: PMC4159348.

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Debeljak M, Freed DN, Welch JA, Haley L, Beierl K, Iglehart BS, Pallavajjala A, Gocke CD, Leffell MS, Lin MT, Pevsner J, Wheelan SJ, Eshleman JR. Haplotype counting by next-generation sequencing for ultrasensitive human DNA detection. J Mol Diagn. 2014 Sep;16(5):495-503. doi: 10.1016/j.jmoldx.2014.04.003. PubMed PMID: 25132481; PubMed Central PMCID: PMC5691345.

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Cochran RL, Cravero K, Chu D, Erlanger B, Toro PV, Beaver JA, Zabransky DJ, Wong HY, Cidado J, Croessmann S, Parsons H, Kim M, Wheelan SJ, Argani P, Ho Park B. Analysis of BRCA2 loss of heterozygosity in tumor tissue using droplet digital polymerase chain reaction. Hum Pathol. 2014 Jul;45(7):1546-1550. doi: 10.1016/j.humpath.2014.03.013. Epub 2014 Apr 13. PubMed PMID: 24824029; PubMed Central PMCID: PMC4065621.

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Lin MT, Mosier SL, Thiess M, Beierl KF, Debeljak M, Tseng LH, Chen G, Yegnasubramanian S, Ho H, Cope L, Wheelan SJ, Gocke CD, Eshleman JR. Clinical validation of KRAS, BRAF, and EGFR mutation detection using next-generation sequencing. Am J Clin Pathol. 2014 Jun;141(6):856-66. doi: 10.1309/AJCPMWGWGO34EGOD. PubMed PMID: 24838331; PubMed Central PMCID: PMC4332779.

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Wu H, Luo J, Yu H, Rattner A, Mo A, Wang Y, Smallwood PM, Erlanger B, Wheelan SJ, Nathans J. Cellular resolution maps of X chromosome inactivation: implications for neural development, function, and disease. Neuron. 2014 Jan 8;81(1):103-19. doi: 10.1016/j.neuron.2013.10.051. PubMed PMID: 24411735; PubMed Central PMCID: PMC3950970.