Department of Translational and Applied Genomics (TAG)

Our Publications


RNA-seq from archival FFPE breast cancer samples: molecular pathway fidelity and novel discovery. 

Pennock ND, Jindal S, Horton W, Sun D, Narasimhan J, Carbone L, Fei SS, Searles R, Harrington CA, Burchard J, Weinmann S, Schedin P, Xia Z. 
BMC Med Genomics 2019 Dec 19;12(1):195. 

Recommended care and care adherence following a diagnosis of Lynch syndrome: A mixed-methods study. 

Mittendorf KF, Hunter JE, Schneider JL, Shuster E, Rope AF, Zepp J, Gilmore MJ, Muessig KR, Davis JV, Kauffman TL, Bergen KM, Wiesner GL, Acheson LS, Peterson SK, Syngal S, Reiss JA, Goddard KAB.
Hereditary Cancer in Clinical Practice 2019 Dec 16;17:31. PMCID: PMC6915941 

Expert and lay perspectives on burden, risk, tolerability, and acceptability of clinical interventions for genetic disorders.

Paquin RS, Mittendorf KF, Lewis MA, Hunter JE, Lee K, Berg JS, Williams MS, Goddard KAB.
Genet Med. 2019 Nov. 21(11):2561-2568.

Transcriptomic Heterogeneity of Androgen Receptor Activity Defines a de novo low AR-Active Subclass in Treatment Naïve Primary Prostate Cancer. 

Spratt DE, Alshalalfa M, Fishbane N, Weiner AB, Mehra R, Mahal BA, Lehrer J, Liu Y, Zhao SG, Speers C, Morgan TM, Dicker AP, Freedland SJ, Karnes RJ, Weinmann S, Davicioni E, Ross AE, Den RB, Nguyen PL, Feng FY, Lotan TL, Chinnaiyan AM, Schaeffer EM. 
Clin Cancer Res. 2019 Nov 15;25(22):6721-6730. [Epub 2019 Sep 12] 

Involution of Breast Lobules, Mammographic Breast Density and Prognosis Among Tamoxifen-Treated Estrogen Receptor-Positive Breast Cancer Patients. 

Mullooly M, Nyante SJ, Pfeiffer RM, Cora R, Butcher D, Sternberg L, Aiello Bowles EJ, Fan S, Figueroa JD, Weinmann S, Hoover RN, Brinton LA, Berrington de Gonzalez A, Glass A, Sherman ME, Gierach GL. 
J Clin Med. 2019 Nov 4;8(11). pii: E1868. 

Response to: Comment on "Bariatric Surgery is Associated with Reduced Risk of Breast Cancer in Both Premenopausal and Postmenopausal Women".

Feigelson HS, Caan B, Weinmann S, Leonard AC, Powers JD, Yenumula PR, Arterburn DE, Koebnick C, Altaye M, Schauer DP.
Ann Surg. 2019 Oct 1. PMCID: PMC6730961 [Epub 2019 Aug 19]

Trends in Use of Medical Imaging in US Health Care Systems and in Ontario, Canada, 2000-2016. 

Smith-Bindman R, Kwan ML, Marlow EC, Theis MK, Bolch W, Cheng SY, Bowles EJA, Duncan JR, Greenlee RT, Kushi LH, Pole JD, Rahm AK, Stout NK, Weinmann S, Miglioretti DL. 
JAMA. 2019 Sep 3;322(9):843-856. PMCID: PMC6724186 [Available on 2020-03-03] 

Clinical Molecular Marker Testing Data Capture to Promote Precision Medicine Research Within the Cancer Research Network.

Burnett-Hartman AN, Udaltsova N, Kushi LH, Neslund-Dudas C, Rahm AK, Pawloski PA, Corley DA, Knerr S, Feigelson HS, Hunter JE, Tabano DC, Epstein MM, Honda SA, Ter-Minassian M, Lynch JA, Lu CY.
JCO Clin Cancer Inform. 2019 Sep;3:1-10. doi: 10.1200/CCI.19.00026. PMID: 31487201; PMCID: PMC6874000.

Validation of the Decipher Test for Predicting Distant Metastatic Recurrence in Men with High-risk Nonmetastatic Prostate Cancer 10 Years After Surgery.

Van den Broeck T, Moris L, Gevaert T, Tosco L, Smeets E, Fishbane N, Liu Y, Helsen C, Margrave J, Buerki C, Davicioni E, Van Poppel H, Everaerts W, Weinmann S, Den R, Davis J, Schaeffer E, Karnes RJ, Claessens F, Joniau S. 
Eur Urol Oncol. 2019 Sep;2(5):589-596. [Epub 2019 Jan 11] 

Implementation of a systematic tumor screening program for Lynch Syndrome in an integrated health care setting. 

Clarke EV, Muessig KR, Zepp JM, Hunter JE, Syngal S, Acheson LS, Wiesner GL, Peterson SK, Bergen KM, Shuster E, Davis JV, Schneider JL, Kauffman TL, Gilmore MJ, Reiss JA, Rope AF, Cook JE, Goddard KAB.
Familial Cancer 2019 Jul;18(3):317-325. PMCID: PMC6685685  

Clinical Sequencing Exploratory Research (CSER) Consortium Informed Consent and Governance Working Group. Consent for clinical genome sequencing: considerations from the Clinical Sequencing Exploratory Research Consortium. 

Yu JH, Appelbaum PS, Brothers KB, Joffe S, Kauffman TL, Koenig BA, Prince AE, Scollon S, Wolf SM, Bernhardt BA, Wilfond BS.
Per Med. 2019 Jul;16(4):325-333. 

Incidence of Herpes Zoster Among Children: 2003-2014. 

Weinmann S, Naleway AL, Koppolu P, Baxter R, Belongia EA, Hambidge SJ, Irving SA, Jackson ML, Klein NP, Lewin B, Liles E, Marin M, Smith N, Weintraub E, Chun C. 
Pediatrics. 2019 Jul;144(1). pii: e20182917. [Epub 2019 Jun 10] 

Declines in HPV vaccine type prevalence in women screened for cervical cancer in the United States: Evidence of direct and herd effects of vaccination. 

Markowitz LE, Naleway AL, Lewis RM, Crane B, Querec TD, Weinmann S, Steinau M, Unger ER.
Vaccine. 2019 Jun 27;37(29):3918-3924. [Epub 2019 May 31] 

Radiation-Induced Cancers Study Team. Trends in Medical Imaging During Pregnancy in the United States and Ontario, Canada, 1996 to 2016. 

Kwan ML, Miglioretti DL, Marlow EC, Aiello Bowles EJ, Weinmann S, Cheng SY, Deosaransingh KA, Chavan P, Moy LM, Bolch WE, Duncan JR, Greenlee RT, Kushi LH, Pole JD, Rahm AK, Stout NK, Smith-Bindman R.
JAMA Netw Open. 2019 Jul 3;2(7):e197249. PMCID: PMC6659354 

The genomic medicine integrative research framework: A conceptual framework for conducting genomic medicine research.

Horowitz CR, Orlando LA, Slavotinek AM, Peterson J, Angelo F, Biesecker B, Bonham VL, Cameron LD, Fullerton SM, Gelb BD, Goddard KAB, Hailu B, Hart R, Hindorff LA, Jarvik GP, Kaufman D, Kenny EE, Knight SJ, Koenig BA, Korf BR, Madden E, McGuire AL, Ou J, Wasserstein MP, Robinson M, Leventhal H, Sanderson SC.
Am J Hum Genet 2019 June 6;104(6):1088-1096. [Epub 2019 May 16]

Bariatric Surgery is Associated With Reduced Risk of Breast Cancer in Both Premenopausal and Postmenopausal Women.

Feigelson HS, Caan B, Weinmann S, Leonard AC, Powers JD, Yenumula PR, Arterburn DE, Koebnick C, Altaye M, Schauer DP.
Ann Surg. 2019 Apr 13. [Epub ahead of print]

A miRNA Expression Signature in Breast Tumor Tissue Is Associated with Risk of Distant Metastasis. 

Rohan TE, Wang T, Weinmann S, Wang Y, Lin J, Ginsberg M, Loudig O. 
Cancer Res. 2019 Apr 1;79(7):1705-1713. [Epub 2019 Feb 13] 

Feasibility of an app-based mindfulness intervention among women with an FMR1 premutation experiencing maternal stress.

Hunter JEJenkins CL, Grim V, Leung S, Charen KH, Hamilton DR, Allen EG, Sherman SL.
Res Dev Disabil. 2019 Jun;89:76-82. doi: 10.1016/j.ridd.2019.03.008. Epub 2019 Apr 5. PMID: 30959430. 

The evolving landscape of expanded carrier screening: Challenges and opportunities.

Kraft SA, Duenas D, Wilfond BS, Goddard KAB.
Genetics in Medicine 2019 May 21: 790-797.  

Factors associated with recruitment, surveillance participation, and retention in an observational study of pregnant women and influenza. 

Thompson MG, Li DK, Naleway AL, Ferber JR, Henninger ML, Shifflett P, Sokolow LZ, Odouli R, Kauffman TL, Fink RV, Bulkley J, Cragan JD, Bozeman S. 
BMC Pregnancy Childbirth. 2019 May 8;19(1):161. 

Secondary findings from clinical genomic sequencing: Prevalence, patient perspectives, family history assessment, and healthcare costs from a multi-site study.

Hart MR, Biesecker BB, Amendola LM, Bergstrom KL, Biswas S, Blout CL, Bowling KM, Brothers KB, Christensen KD, Conlin LK, Cooper GM, Dulik MC, East KM, Everett JN, Ghazani AA, Gilmore M, Goddard KAB, Jarvik GP, Kauffman TL, Kaufman D, Kelley WV,  Krier JB, Lewis KL, McGuire AL, McMullen C, Ou J, Plon S, Rehm H, Richards CS, Romasko EJ, Sagardia AM, Spinner NB, Thompson ML, Turbitt E, Vassy JL, Wilfond BS, Biesecker LG, Green RC, Veenstra DL, Berg JS, Hindorff LA.
Genetics in Medicine 2019 May;21(5):1100-1110. PMCID: PMC6450774

The Healthcare Systems Research Network (HCSRN) as an Environment for Dissemination and Implementation Research: A Case Study of Developing a Multi-Site Research Study in Precision Medicine.

Rahm AK, Ladd I, Burnett-Hartman AN, Epstein MM, Lowery JT, Lu CY, Pawloski PA, Sharaf RN, Liang SY, Hunter JE.
EGEMS (Wash DC). 2019 Apr 12;7(1):16. doi: 10.5334/egems.283. PMID: 30984796; PMCID: PMC6460496.

Factors That Influence Selectionof Urinary Diversion Among Bladder Cancer Patients in 3 Community-based Integrated Health Care Systems. 

Kwan ML, Leo MC, Danforth KN, Weinmann S, Lee VS, Munneke JR, Bulkley JE, Rosetti MO, Yi DK, Banegas MP, Wagner MD, Williams SG, Aaronson DS, Grant M, Krouse RS, Gilbert SM, McMullen CK. 
Urology. 2019 Mar;125:222-229. [Epub 2018 Nov 22] 

Bariatric Surgery and the Risk of Cancer in a Large Multisite Cohort. 

Schauer DP, Feigelson HS, Koebnick C, Caan B, Weinmann S, Leonard AC, Powers JD, Yenumula PR, Arterburn DE.
Ann Surg. 2019 Jan;269(1):95-101. 

Clinical Use Cases for a Tool to Assess Risk in Superficial Bladder Cancer. 

McMullen CK, Rosetti MO, Weinmann S, Leo MC, Nielsen ME. 
Perm J. 2019;23. [Epub 2019 Aug 19] 

Publications by year


Kaiser Permanente Research