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Tumors with TSC mutations are sensitive to CDK7 inhibition through NRF2 and glutathione depletion.

Zarei M, Du H, Nassar AH, Yan RE, Giannikou K, Johnson SH, Lam HC, Henske EP, Wang Y, Zhang T, Asara J, Kwiatkowski DJ.

J Exp Med. 2019 Sep 10. pii: jem.20190251. doi: 10.1084/jem.20190251. [Epub ahead of print]


Using Genomics to Differentiate Multiple Primaries From Metastatic Lung Cancer.

Murphy SJ, Harris FR, Kosari F, Barreto Siqueira Parrilha Terra S, Nasir A, Johnson SH, Serla V, Smadbeck JB, Halling GC, Karagouga G, Sukov WR, Leventakos K, Yang P, Peikert T, Mansfield AS, Wigle DA, Yi ES, Kipp BR, Vasmatzis G, Aubry MC.

J Thorac Oncol. 2019 Sep;14(9):1567-1582. doi: 10.1016/j.jtho.2019.05.008. Epub 2019 May 16.


Conscience and Religious Freedom Division Marks Its First Anniversary with Action.

Johnson SH.

Hastings Cent Rep. 2019 Mar;49(2):4-5. doi: 10.1002/hast.986.


A comparison of adult rhabdomyosarcoma and high-grade neuroendocrine carcinoma of the urinary bladder reveals novel PPP1R12A fusions in rhabdomyosarcoma.

Gupta S, Sosa CP, Kosari F, Folpe A, Bhinge KN, Yang L, Agahi A, Johnson SH, Frank I, Boorjian SA, Hansel DE, Al-Ahmadie HA, Reuter VE, Vasmatzis G, Jimenez RE, Herrera-Hernandez L, Cheville JC.

Hum Pathol. 2019 Jun;88:48-59. doi: 10.1016/j.humpath.2019.03.007. Epub 2019 Apr 1.


Detection of a cryptic NUP214/ABL1 gene fusion by mate-pair sequencing (MPseq) in a newly diagnosed case of pediatric T-lymphoblastic leukemia.

Peterson JF, Pitel BA, Smoley SA, Smadbeck JB, Johnson SH, Vasmatzis G, Koon SJ, Webley MR, McGrath M, Bayerl MG, Baughn LB, Rowsey RA, Ketterling RP, Greipp PT, Hoppman NL.

Cold Spring Harb Mol Case Stud. 2019 Apr 1;5(2). pii: a003533. doi: 10.1101/mcs.a003533. Print 2019 Apr.


Matrix Metalloproteinase-9-Dependent Release of IL-1β by Human Eosinophils.

Esnault S, Kelly EA, Johnson SH, DeLain LP, Haedt MJ, Noll AL, Sandbo N, Jarjour NN.

Mediators Inflamm. 2019 Feb 17;2019:7479107. doi: 10.1155/2019/7479107. eCollection 2019.


Shared and unique genomic structural variants of different histological components within testicular germ cell tumours identified with mate pair sequencing.

Bryce AH, Egan JB, Smadbeck JB, Johnson SH, Murphy SJ, Harris FR, Halling GC, Terra SBSP, Cheville J, Pagliaro L, Leibovich B, Costello BA, Vasmatzis G.

Sci Rep. 2019 Mar 5;9(1):3586. doi: 10.1038/s41598-019-39956-y.


Large Chromosomal Rearrangements Yield Biomarkers to Distinguish Low-Risk From Intermediate- and High-Risk Prostate Cancer.

Vasmatzis G, Kosari F, Murphy SJ, Terra S, Kovtun IV, Harris FR, Zarei S, Smadbeck JB, Johnson SH, Gaitatzes AG, Therneau TM, Rangel LJ, Knudson RA, Greipp P, Sukov WR, Knutson DL, Kloft-Nelson SM, Karnes RJ, Cheville JC.

Mayo Clin Proc. 2019 Jan;94(1):27-36. doi: 10.1016/j.mayocp.2018.06.028.


Identification and Development of a Lung Adenocarcinoma PDX Model With STRN-ALK Fusion.

Ren H, Hou X, Eiken PW, Zhang J, Pierson KE, Nair AA, Davila JI, Kovarikova H, Jang JS, Johnson SH, Molina JR, Marks RS, Yang P, Yi JE, Mansfield AS, Jen J.

Clin Lung Cancer. 2019 Mar;20(2):e142-e147. doi: 10.1016/j.cllc.2018.11.002. Epub 2018 Nov 20. No abstract available.


Constitutional chromosome rearrangements that mimic the 2017 world health organization "acute myeloid leukemia with recurrent genetic abnormalities": A study of three cases and review of the literature.

Peterson JF, Pitel BA, Smoley SA, Smadbeck JB, Johnson SH, Vasmatzis G, Pearce KE, He R, Kelemen K, Al-Mondhiry HAB, Lamparella NE, Hoppman NL, Kearney HM, Baughn LB, Ketterling RP, Greipp PT.

Cancer Genet. 2019 Jan;230:37-46. doi: 10.1016/j.cancergen.2018.11.005. Epub 2018 Nov 20. Review.


Neoantigenic Potential of Complex Chromosomal Rearrangements in Mesothelioma.

Mansfield AS, Peikert T, Smadbeck JB, Udell JBM, Garcia-Rivera E, Elsbernd L, Erskine CL, Van Keulen VP, Kosari F, Murphy SJ, Ren H, Serla VV, Schaefer Klein JL, Karagouga G, Harris FR, Sosa C, Johnson SH, Nevala W, Markovic SN, Bungum AO, Edell ES, Dong H, Cheville JC, Aubry MC, Jen J, Vasmatzis G.

J Thorac Oncol. 2019 Feb;14(2):276-287. doi: 10.1016/j.jtho.2018.10.001. Epub 2018 Oct 10.


Mate pair sequencing improves detection of genomic abnormalities in acute myeloid leukemia.

Aypar U, Smoley SA, Pitel BA, Pearce KE, Zenka RM, Vasmatzis G, Johnson SH, Smadbeck JB, Peterson JF, Geiersbach KB, Van Dyke DL, Thorland EC, Jenkins RB, Ketterling RP, Greipp PT, Kearney HM, Hoppman NL, Baughn LB.

Eur J Haematol. 2019 Jan;102(1):87-96. doi: 10.1111/ejh.13179. Epub 2018 Nov 22.


Use of mate-pair sequencing to characterize a complex cryptic BCR/ABL1 rearrangement observed in a newly diagnosed case of chronic myeloid leukemia.

Peterson JF, Pitel BA, Smoley SA, Smadbeck JB, Johnson SH, Vasmatzis G, Kearney HM, Greipp PT, Hoppman NL, Baughn LB, Ketterling RP.

Hum Pathol. 2019 Jul;89:109-114. doi: 10.1016/j.humpath.2018.09.010. Epub 2018 Sep 26.


UCH-L1 bypasses mTOR to promote protein biosynthesis and is required for MYC-driven lymphomagenesis in mice.

Hussain S, Bedekovics T, Liu Q, Hu W, Jeon H, Johnson SH, Vasmatzis G, May DG, Roux KJ, Galardy PJ.

Blood. 2018 Dec 13;132(24):2564-2574. doi: 10.1182/blood-2018-05-848515. Epub 2018 Sep 26.


Considering the "Informed" in Informed Consent.

Johnson SH.

Dimens Crit Care Nurs. 2018 Sep/Oct;37(5):237-238. doi: 10.1097/DCC.0000000000000315. No abstract available.


Chromoanasynthesis is a common mechanism that leads to ERBB2 amplifications in a cohort of early stage HER2+ breast cancer samples.

Vasmatzis G, Wang X, Smadbeck JB, Murphy SJ, Geiersbach KB, Johnson SH, Gaitatzes AG, Asmann YW, Kosari F, Borad MJ, Serie DJ, McLaughlin SA, Kachergus JM, Necela BM, Thompson EA.

BMC Cancer. 2018 Jul 13;18(1):738. doi: 10.1186/s12885-018-4594-0.


Copy number variant analysis using genome-wide mate-pair sequencing.

Smadbeck JB, Johnson SH, Smoley SA, Gaitatzes A, Drucker TM, Zenka RM, Kosari F, Murphy SJ, Hoppman N, Aypar U, Sukov WR, Jenkins RB, Kearney HM, Feldman AL, Vasmatzis G.

Genes Chromosomes Cancer. 2018 Sep;57(9):459-470. doi: 10.1002/gcc.5. Epub 2018 Jul 30.


Total integrated performance excellence system (TIPES): A true north direction for a clinical trial support center.

Sather MR, Parsons S, Boardman KD, Warren SR, Davis-Karim A, Griffin K, Betterton JA, Jones MS, Johnson SH, Vertrees JE, Hickey JH, Salazar TP, Huang GD.

Contemp Clin Trials Commun. 2017 Dec 24;9:81-92. doi: 10.1016/j.conctc.2017.12.005. eCollection 2018 Mar.


SVAtools for junction detection of genome-wide chromosomal rearrangements by mate-pair sequencing (MPseq).

Johnson SH, Smadbeck JB, Smoley SA, Gaitatzes A, Murphy SJ, Harris FR, Drucker TM, Zenka RM, Pitel BA, Rowsey RA, Hoppman NL, Aypar U, Sukov WR, Jenkins RB, Feldman AL, Kearney HM, Vasmatzis G.

Cancer Genet. 2018 Feb;221:1-18. doi: 10.1016/j.cancergen.2017.11.009. Epub 2017 Dec 2.


Genome U-Plot: a whole genome visualization.

Gaitatzes A, Johnson SH, Smadbeck JB, Vasmatzis G.

Bioinformatics. 2018 May 15;34(10):1629-1634. doi: 10.1093/bioinformatics/btx829.


Retention of Interstitial Genes between TMPRSS2 and ERG Is Associated with Low-Risk Prostate Cancer.

Murphy SJ, Kosari F, Karnes RJ, Nasir A, Johnson SH, Gaitatzes AG, Smadbeck JB, Rangel LJ, Vasmatzis G, Cheville JC.

Cancer Res. 2017 Nov 15;77(22):6157-6167. doi: 10.1158/0008-5472.CAN-17-0529. Epub 2017 Nov 10.


Genomic rearrangements in sporadic lymphangioleiomyomatosis: an evolving genetic story.

Murphy SJ, Terra SB, Harris FR, Nasir A, Voss JS, Smadbeck JB, Johnson SH, Serla V, Ryu JH, Yi ES, Kipp BR, Vasmatzis G, Carmona EM.

Mod Pathol. 2017 Sep;30(9):1223-1233. doi: 10.1038/modpathol.2017.52. Epub 2017 Jun 23.


A novel cytogenetic and molecular characterization of renal metanephric adenoma: Identification of partner genes involved in translocation t(9;15)(p24;q24).

Catic A, Kurtovic-Kozaric A, Johnson SH, Vasmatzis G, Pins MR, Kogan J.

Cancer Genet. 2017 Aug;214-215:9-15. doi: 10.1016/j.cancergen.2017.03.001. Epub 2017 Mar 16.


TFEB-VEGFA (6p21.1) co-amplified renal cell carcinoma: a distinct entity with potential implications for clinical management.

Gupta S, Johnson SH, Vasmatzis G, Porath B, Rustin JG, Rao P, Costello BA, Leibovich BC, Thompson RH, Cheville JC, Sukov WR.

Mod Pathol. 2017 Jul;30(7):998-1012. doi: 10.1038/modpathol.2017.24. Epub 2017 Mar 24.


Common fragile sites (CFS) and extremely large CFS genes are targets for human papillomavirus integrations and chromosome rearrangements in oropharyngeal squamous cell carcinoma.

Gao G, Johnson SH, Vasmatzis G, Pauley CE, Tombers NM, Kasperbauer JL, Smith DI.

Genes Chromosomes Cancer. 2017 Jan;56(1):59-74. doi: 10.1002/gcc.22415. Epub 2016 Nov 1.


Chromoplectic TPM3-ALK rearrangement in a patient with inflammatory myofibroblastic tumor who responded to ceritinib after progression on crizotinib.

Mansfield AS, Murphy SJ, Harris FR, Robinson SI, Marks RS, Johnson SH, Smadbeck JB, Halling GC, Yi ES, Wigle D, Vasmatzis G, Jen J.

Ann Oncol. 2016 Nov;27(11):2111-2117. Epub 2016 Oct 14.


Custom Gene Capture and Next-Generation Sequencing to Resolve Discordant ALK Status by FISH and IHC in Lung Adenocarcinoma.

Jang JS, Wang X, Vedell PT, Wen J, Zhang J, Ellison DW, Evans JM, Johnson SH, Yang P, Sukov WR, Oliveira AM, Vasmatzis G, Sun Z, Jen J, Yi ES.

J Thorac Oncol. 2016 Nov;11(11):1891-1900. doi: 10.1016/j.jtho.2016.06.001. Epub 2016 Jun 22.


The ACA's Provision on Nondiscrimination Takes Shape.

Johnson SH.

Hastings Cent Rep. 2016 Sep;46(5):5-6. doi: 10.1002/hast.608.


Quantification of Somatic Chromosomal Rearrangements in Circulating Cell-Free DNA from Ovarian Cancers.

Harris FR, Kovtun IV, Smadbeck J, Multinu F, Jatoi A, Kosari F, Kalli KR, Murphy SJ, Halling GC, Johnson SH, Liu MC, Mariani A, Vasmatzis G.

Sci Rep. 2016 Jul 20;6:29831. doi: 10.1038/srep29831.


Integrated mate-pair and RNA sequencing identifies novel, targetable gene fusions in peripheral T-cell lymphoma.

Boddicker RL, Razidlo GL, Dasari S, Zeng Y, Hu G, Knudson RA, Greipp PT, Davila JI, Johnson SH, Porcher JC, Smadbeck JB, Eckloff BW, Billadeau DD, Kurtin PJ, McNiven MA, Link BK, Ansell SM, Cerhan JR, Asmann YW, Vasmatzis G, Feldman AL.

Blood. 2016 Sep 1;128(9):1234-45. doi: 10.1182/blood-2016-03-707141. Epub 2016 Jun 13.


Human eosinophil activin A synthesis and mRNA stabilization are induced by the combination of IL-3 plus TNF.

Kelly EA, Esnault S, Johnson SH, Liu LY, Malter JS, Burnham ME, Jarjour NN.

Immunol Cell Biol. 2016 Aug;94(7):701-8. doi: 10.1038/icb.2016.30. Epub 2016 Mar 22.


Integrated Genomic Analysis of Pancreatic Ductal Adenocarcinomas Reveals Genomic Rearrangement Events as Significant Drivers of Disease.

Murphy SJ, Hart SN, Halling GC, Johnson SH, Smadbeck JB, Drucker T, Lima JF, Rohakhtar FR, Harris FR, Kosari F, Subramanian S, Petersen GM, Wiltshire TD, Kipp BR, Truty MJ, McWilliams RR, Couch FJ, Vasmatzis G.

Cancer Res. 2016 Feb 1;76(3):749-61. doi: 10.1158/0008-5472.CAN-15-2198. Epub 2015 Dec 16.


Integrated analysis of the genomic instability of PTEN in clinically insignificant and significant prostate cancer.

Murphy SJ, Karnes RJ, Kosari F, Castellar BE, Kipp BR, Johnson SH, Terra S, Harris FR, Halling GC, Klein JL, Nasir A, Bergstrahl E, Rangel LJ, Sukov WR, Vasmatzis G, Cheville JC.

Mod Pathol. 2016 Feb;29(2):143-56. doi: 10.1038/modpathol.2015.136. Epub 2015 Nov 27.


Topoisomerase 2 Alpha Cooperates with Androgen Receptor to Contribute to Prostate Cancer Progression.

Schaefer-Klein JL, Murphy SJ, Johnson SH, Vasmatzis G, Kovtun IV.

PLoS One. 2015 Nov 11;10(11):e0142327. doi: 10.1371/journal.pone.0142327. eCollection 2015.


A Buyer's Market? Fixing the Price for Human Ova for Assisted Reproduction.

Johnson SH.

Hastings Cent Rep. 2015 Nov-Dec;45(6):9-10. doi: 10.1002/hast.511. No abstract available.


Chromosomal catastrophe is a frequent event in clinically insignificant prostate cancer.

Kovtun IV, Murphy SJ, Johnson SH, Cheville JC, Vasmatzis G.

Oncotarget. 2015 Oct 6;6(30):29087-96. doi: 10.18632/oncotarget.4900.


Identification of independent primary tumors and intrapulmonary metastases using DNA rearrangements in non-small-cell lung cancer.

Murphy SJ, Aubry MC, Harris FR, Halling GC, Johnson SH, Terra S, Drucker TM, Asiedu MK, Kipp BR, Yi ES, Peikert T, Yang P, Vasmatzis G, Wigle DA.

J Clin Oncol. 2014 Dec 20;32(36):4050-8. doi: 10.1200/JCO.2014.56.7644. Epub 2014 Nov 10.


Metal-on-metal hip resurfacing compared with total hip arthroplasty: two to five year outcomes in men younger than sixty five years.

Fink Barnes LA, Johnson SH, Patrick DA Jr, Macaulay W.

Int Orthop. 2014 Dec;38(12):2435-40. doi: 10.1007/s00264-014-2506-8. Epub 2014 Sep 25.


Chromosomal rearrangements and copy number abnormalities of TP63 correlate with p63 protein expression in lung adenocarcinoma.

Aubry MC, Roden A, Murphy SJ, Vasmatzis G, Johnson SH, Harris FR, Halling G, Knudson RA, Ketterling RP, Feldman AL.

Mod Pathol. 2015 Mar;28(3):359-66. doi: 10.1038/modpathol.2014.118. Epub 2014 Sep 5.


Death, state by state.

Johnson SH.

Hastings Cent Rep. 2014 Jul-Aug;44(4):9-10. doi: 10.1002/hast.323. No abstract available.


Genomic rearrangements define lineage relationships between adjacent lepidic and invasive components in lung adenocarcinoma.

Murphy SJ, Wigle DA, Lima JF, Harris FR, Johnson SH, Halling G, Asiedu MK, Seto CT, Terra S, Kosari F, Peikert T, Yang P, Aubry MC, Vasmatzis G.

Cancer Res. 2014 Jun 1;74(11):3157-67. doi: 10.1158/0008-5472.CAN-13-1727.


Activation of TAK1 by MYD88 L265P drives malignant B-cell Growth in non-Hodgkin lymphoma.

Ansell SM, Hodge LS, Secreto FJ, Manske M, Braggio E, Price-Troska T, Ziesmer S, Li Y, Johnson SH, Hart SN, Kocher JP, Vasmatzis G, Chanan-Kahn A, Gertz M, Fonseca R, Dogan A, Cerhan JR, Novak AJ.

Blood Cancer J. 2014 Feb 14;4:e183. doi: 10.1038/bcj.2014.4.


BIMA V3: an aligner customized for mate pair library sequencing.

Drucker TM, Johnson SH, Murphy SJ, Cradic KW, Therneau TM, Vasmatzis G.

Bioinformatics. 2014 Jun 1;30(11):1627-9. doi: 10.1093/bioinformatics/btu078. Epub 2014 Feb 12.


Mate pair sequencing of oropharyngeal squamous cell carcinomas reveals that HPV integration occurs much less frequently than in cervical cancer.

Gao G, Johnson SH, Kasperbauer JL, Eckloff BW, Tombers NM, Vasmatzis G, Smith DI.

J Clin Virol. 2014 Mar;59(3):195-200. doi: 10.1016/j.jcv.2013.12.006. Epub 2013 Dec 28.


Customary standard of care: a challenge for regulation and practice.

Johnson SH.

Hastings Cent Rep. 2013 Nov-Dec;43(6):9-10. doi: 10.1002/hast.225. No abstract available.


Novel TRAF1-ALK fusion identified by deep RNA sequencing of anaplastic large cell lymphoma.

Feldman AL, Vasmatzis G, Asmann YW, Davila J, Middha S, Eckloff BW, Johnson SH, Porcher JC, Ansell SM, Caride A.

Genes Chromosomes Cancer. 2013 Nov;52(11):1097-102. doi: 10.1002/gcc.22104. Epub 2013 Sep 2.


Identification of submicroscopic genetic changes and precise breakpoint mapping in myelofibrosis using high resolution mate-pair sequencing.

Lasho T, Johnson SH, Smith DI, Crispino JD, Pardanani A, Vasmatzis G, Tefferi A.

Am J Hematol. 2013 Sep;88(9):741-6. doi: 10.1002/ajh.23495. Epub 2013 Aug 1.


Lineage relationship of Gleason patterns in Gleason score 7 prostate cancer.

Kovtun IV, Cheville JC, Murphy SJ, Johnson SH, Zarei S, Kosari F, Sukov WR, Karnes RJ, Vasmatzis G.

Cancer Res. 2013 Jun 1;73(11):3275-84. doi: 10.1158/0008-5472.CAN-12-2803. Epub 2013 May 21.


MedChi survey reveals physician concerns with the Board of Physicians.

Johnson SH.

Md Med. 2012;13(2):26-7, 30. No abstract available.


Innovative technology offers virtual visitation for families.

Johnson SH.

J Contin Educ Nurs. 2012 Dec;43(12):532. doi: 10.3928/00220124-20121120-91. No abstract available.


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