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Items: 30


Spontaneous murine tumors in the development of patient-derived xenografts: a potential pitfall.

Moyer AM, Yu J, Sinnwell JP, Dockter TJ, Suman VJ, Weinshilboum RM, Boughey JC, Goetz MP, Visscher DW, Wang L.

Oncotarget. 2019 Jun 11;10(39):3924-3930. doi: 10.18632/oncotarget.27001. eCollection 2019 Jun 11.


Deep sequencing across germline genome-wide association study signals relating to breast cancer events in women receiving aromatase inhibitors for adjuvant therapy of early breast cancer.

Ingle JN, Kalari KR, Momozawa Y, Kubo M, Furukawa Y, Shepherd LE, Ellis MJ, Goss PE, Barman P, Carlson EE, Sinnwell JP, Tang X, Goetz MP, Chen BE, Cairns J, Weinshilboum RM, Wang L.

Pharmacogenet Genomics. 2019 Oct;29(8):183-191. doi: 10.1097/FPC.0000000000000382.


A Prospective Correlation of Tissue Histopathology With Nucleic Acid Yield in Metastatic Castration-Resistant Prostate Cancer Biopsy Specimens.

Jimenez RE, Atwell TD, Sicotte H, Eckloff B, Wang L, Barman P, Sinnwell JP, Eiken PW, McMenomy BP, Tan W, Wang L, Carlson RE, Kohli M.

Mayo Clin Proc Innov Qual Outcomes. 2019 Feb 26;3(1):14-22. doi: 10.1016/j.mayocpiqo.2018.12.005. eCollection 2019 Mar.


PANOPLY: Omics-Guided Drug Prioritization Method Tailored to an Individual Patient.

Kalari KR, Sinnwell JP, Thompson KJ, Tang X, Carlson EE, Yu J, Vedell PT, Ingle JN, Weinshilboum RM, Boughey JC, Wang L, Goetz MP, Suman V.

JCO Clin Cancer Inform. 2018 Dec;2:1-11. doi: 10.1200/CCI.18.00012.


Identification of missing variants by combining multiple analytic pipelines.

Ren Y, Reddy JS, Pottier C, Sarangi V, Tian S, Sinnwell JP, McDonnell SK, Biernacka JM, Carrasquillo MM, Ross OA, Ertekin-Taner N, Rademakers R, Hudson M, Mainzer LS, Asmann YW.

BMC Bioinformatics. 2018 Apr 16;19(1):139. doi: 10.1186/s12859-018-2151-0.


Discovery of a Glucocorticoid Receptor (GR) Activity Signature Using Selective GR Antagonism in ER-Negative Breast Cancer.

West DC, Kocherginsky M, Tonsing-Carter EY, Dolcen DN, Hosfield DJ, Lastra RR, Sinnwell JP, Thompson KJ, Bowie KR, Harkless RV, Skor MN, Pierce CF, Styke SC, Kim CR, de Wet L, Greene GL, Boughey JC, Goetz MP, Kalari KR, Wang L, Fleming GF, Györffy B, Conzen SD.

Clin Cancer Res. 2018 Jul 15;24(14):3433-3446. doi: 10.1158/1078-0432.CCR-17-2793. Epub 2018 Apr 10.


Multivariate generalized linear model for genetic pleiotropy.

Schaid DJ, Tong X, Batzler A, Sinnwell JP, Qing J, Biernacka JM.

Biostatistics. 2019 Jan 1;20(1):111-128. doi: 10.1093/biostatistics/kxx067.


Establishing and characterizing patient-derived xenografts using pre-chemotherapy percutaneous biopsy and post-chemotherapy surgical samples from a prospective neoadjuvant breast cancer study.

Yu J, Qin B, Moyer AM, Sinnwell JP, Thompson KJ, Copland JA 3rd, Marlow LA, Miller JL, Yin P, Gao B, Minter-Dykhouse K, Tang X, McLaughlin SA, Moreno-Aspitia A, Schweitzer A, Lu Y, Hubbard J, Northfelt DW, Gray RJ, Hunt K, Conners AL, Suman VJ, Kalari KR, Ingle JN, Lou Z, Visscher DW, Weinshilboum R, Boughey JC, Goetz MP, Wang L.

Breast Cancer Res. 2017 Dec 6;19(1):130. doi: 10.1186/s13058-017-0920-8.


Tumor Sequencing and Patient-Derived Xenografts in the Neoadjuvant Treatment of Breast Cancer.

Goetz MP, Kalari KR, Suman VJ, Moyer AM, Yu J, Visscher DW, Dockter TJ, Vedell PT, Sinnwell JP, Tang X, Thompson KJ, McLaughlin SA, Moreno-Aspitia A, Copland JA, Northfelt DW, Gray RJ, Hunt K, Conners A, Sicotte H, Eckel-Passow JE, Kocher JP, Ingle JN, Ellingson MS, McDonough M, Wieben ED, Weinshilboum R, Wang L, Boughey JC.

J Natl Cancer Inst. 2017 Jul 1;109(7). doi: 10.1093/jnci/djw306.


Statistical Methods for Testing Genetic Pleiotropy.

Schaid DJ, Tong X, Larrabee B, Kennedy RB, Poland GA, Sinnwell JP.

Genetics. 2016 Oct;204(2):483-497. Epub 2016 Aug 15.


Multiplex matrix network analysis of protein complexes in the human TCR signalosome.

Smith SE, Neier SC, Reed BK, Davis TR, Sinnwell JP, Eckel-Passow JE, Sciallis GF, Wieland CN, Torgerson RR, Gil D, Neuhauser C, Schrum AG.

Sci Signal. 2016 Aug 2;9(439):rs7. doi: 10.1126/scisignal.aad7279.


Determining the frequency of pathogenic germline variants from exome sequencing in patients with castrate-resistant prostate cancer.

Hart SN, Ellingson MS, Schahl K, Vedell PT, Carlson RE, Sinnwell JP, Barman P, Sicotte H, Eckel-Passow JE, Wang L, Kalari KR, Qin R, Kruisselbrink TM, Jimenez RE, Bryce AH, Tan W, Weinshilboum R, Wang L, Kohli M.

BMJ Open. 2016 Apr 15;6(4):e010332. doi: 10.1136/bmjopen-2015-010332.


Exome sequencing reveals frequent deleterious germline variants in cancer susceptibility genes in women with invasive breast cancer undergoing neoadjuvant chemotherapy.

Ellingson MS, Hart SN, Kalari KR, Suman V, Schahl KA, Dockter TJ, Felten SJ, Sinnwell JP, Thompson KJ, Tang X, Vedell PT, Barman P, Sicotte H, Eckel-Passow JE, Northfelt DW, Gray RJ, McLaughlin SA, Moreno-Aspitia A, Ingle JN, Moyer AM, Visscher DW, Jones K, Conners A, McDonough M, Wieben ED, Wang L, Weinshilboum R, Boughey JC, Goetz MP.

Breast Cancer Res Treat. 2015 Sep;153(2):435-43. doi: 10.1007/s10549-015-3545-6. Epub 2015 Aug 22.


The kinship2 R package for pedigree data.

Sinnwell JP, Therneau TM, Schaid DJ.

Hum Hered. 2014;78(2):91-3. doi: 10.1159/000363105. Epub 2014 Jul 29.


Detecting genomic clustering of risk variants from sequence data: cases versus controls.

Schaid DJ, Sinnwell JP, McDonnell SK, Thibodeau SN.

Hum Genet. 2013 Nov;132(11):1301-9. doi: 10.1007/s00439-013-1335-y. Epub 2013 Jul 11.


Multiple genetic variant association testing by collapsing and kernel methods with pedigree or population structured data.

Schaid DJ, McDonnell SK, Sinnwell JP, Thibodeau SN.

Genet Epidemiol. 2013 Jul;37(5):409-18. doi: 10.1002/gepi.21727. Epub 2013 May 5.


Regression modeling of allele frequencies and testing Hardy Weinberg Equilibrium.

Schaid DJ, Sinnwell JP, Jenkins GD.

Hum Hered. 2012;74(2):71-82. doi: 10.1159/000345846. Epub 2013 Jan 11.


Dopamine receptors D1 and D2 are related to observed maternal behavior.

Mileva-Seitz V, Fleming AS, Meaney MJ, Mastroianni A, Sinnwell JP, Steiner M, Atkinson L, Levitan RD, Matthews SG, Kennedy JL, Sokolowski MB.

Genes Brain Behav. 2012 Aug;11(6):684-94. doi: 10.1111/j.1601-183X.2012.00804.x. Epub 2012 Jun 4.


Using the gene ontology to scan multilevel gene sets for associations in genome wide association studies.

Schaid DJ, Sinnwell JP, Jenkins GD, McDonnell SK, Ingle JN, Kubo M, Goss PE, Costantino JP, Wickerham DL, Weinshilboum RM.

Genet Epidemiol. 2012 Jan;36(1):3-16. doi: 10.1002/gepi.20632. Epub 2011 Dec 7.


Application of thrombolytic drugs on clotted blood and bone marrow specimens to generate usable cells for cytogenetic analyses.

St Antoine A, Ketterling MN, Sukov WR, Lowman J, Knudson RA, Sinnwell JP, Wiktor AE, Ketterling RP.

Arch Pathol Lab Med. 2011 Jul;135(7):915-9. doi: 10.1043/2010-0085-OAR1.1.


Development of five dual-color, double-fusion fluorescence in situ hybridization assays for the detection of common MLL translocation partners.

Keefe JG, Sukov WR, Knudson RA, Nguyen LP, Williamson C, Sinnwell JP, Ketterling RP.

J Mol Diagn. 2010 Jul;12(4):441-52. doi: 10.2353/jmoldx.2010.090214. Epub 2010 Jun 10.


Two-stage case-control designs for rare genetic variants.

Schaid DJ, Sinnwell JP.

Hum Genet. 2010 Jun;127(6):659-68. doi: 10.1007/s00439-010-0811-x. Epub 2010 Mar 30.


Single versus multiple imputation for genotypic data.

Fridley BL, McDonnell SK, Rabe KG, Tang R, Biernacka JM, Sinnwell JP, Rider DN, Goode EL.

BMC Proc. 2009 Dec 15;3 Suppl 7:S7.


Identification of genes and haplotypes that predict rheumatoid arthritis using random forests.

Tang R, Sinnwell JP, Li J, Rider DN, de Andrade M, Biernacka JM.

BMC Proc. 2009 Dec 15;3 Suppl 7:S68.


Assessment of genotype imputation methods.

Biernacka JM, Tang R, Li J, McDonnell SK, Rabe KG, Sinnwell JP, Rider DN, de Andrade M, Goode EL, Fridley BL.

BMC Proc. 2009 Dec 15;3 Suppl 7:S5.


Isochromosome 12p and polysomy 12 in primary central nervous system germ cell tumors: frequency and association with clinicopathologic features.

Sukov WR, Cheville JC, Giannini C, Carlson AW, Shearer BM, Sinnwell JP, Ketterling RP.

Hum Pathol. 2010 Feb;41(2):232-8. doi: 10.1016/j.humpath.2009.07.017. Epub 2009 Oct 3.


CCND1 rearrangements and cyclin D1 overexpression in renal oncocytomas: frequency, clinicopathologic features, and utility in differentiation from chromophobe renal cell carcinoma.

Sukov WR, Ketterling RP, Lager DJ, Carlson AW, Sinnwell JP, Chow GK, Jenkins RB, Cheville JC.

Hum Pathol. 2009 Sep;40(9):1296-303. doi: 10.1016/j.humpath.2009.01.016. Epub 2009 Apr 22.


Testing genetic linkage with relative pairs and covariates by quasi-likelihood score statistics.

Schaid DJ, Sinnwell JP, Thibodeau SN.

Hum Hered. 2007;64(4):220-33. Epub 2007 Jun 12.


Utility of ALK-1 protein expression and ALK rearrangements in distinguishing inflammatory myofibroblastic tumor from malignant spindle cell lesions of the urinary bladder.

Sukov WR, Cheville JC, Carlson AW, Shearer BM, Piatigorsky EJ, Grogg KL, Sebo TJ, Sinnwell JP, Ketterling RP.

Mod Pathol. 2007 May;20(5):592-603. Epub 2007 Mar 30.


Robust multipoint identical-by-descent mapping for affected relative pairs.

Schaid DJ, Sinnwell JP, Thibodeau SN.

Am J Hum Genet. 2005 Jan;76(1):128-38. Epub 2004 Nov 30.

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