Oregon Clinical & Translational Research Institute

Research Output

2019

Clinical resistance to crenolanib in acute myeloid leukemia due to diverse molecular mechanisms

Zhang, H., Savage, S., Schultz, A. R., Bottomly, D., White, L., Segerdell, E., Wilmot, B., McWeeney, S. K., Eide, C. A., Nechiporuk, T., Carlos, A., Henson, R., Lin, C., Searles, R., Ho, H., Lam, Y. L., Sweat, R., Follit, C., Jain, V., Lind, E. & 10 others, Borthakur, G., Garcia-Manero, G., Ravandi, F., Kantarjian, H. M., Cortes, J., Collins, R., Buelow, D. R., Baker, S. D., Druker, B. J. & Tyner, J. W., Dec 1 2019, In : Nature communications. 10, 1, 244.

Research output: Contribution to journalArticle

20 Scopus citations

Genomic landscape of neutrophilic leukemias of ambiguous diagnosis

Zhang, H., Wilmot, B., Bottomly, D., Dao, K-H., Stevens, E., Eide, C. A., Khanna, V., Rofelty, A., Savage, S., Schultz, A. R., Long, N., White, L., Carlos, A., Henson, R., Lin, C., Searles, R., Collins, R. H., DeAngelo, D. J., Deininger, M. W., Dunn, T. & 12 others, Hein, T., Luskin, M. R., Medeiros, B. C., Oh, S. T., Pollyea, D. A., Steensma, D. P., Stone, R. M., Druker, B., McWeeney, S., Maxson, J. E., Gotlib, J. R. & Tyner, J., Sep 12 2019, In : Blood. 134, 11, p. 867-879 13 p.

Research output: Contribution to journalArticle

7 Scopus citations

Immunological Molecular Responses of Human Retinal Pigment Epithelial Cells to Infection With Toxoplasma gondii

Lie, S., Rochet, E., Segerdell, E., Ma, Y., Ashander, L. M., Shadforth, A. M. A., Blenkinsop, T. A., Michael, M. Z., Appukuttan, B., Wilmot, B. & Smith, J. R., 2019, In : Frontiers in immunology. 10, 1 p., 708.

Research output: Contribution to journalArticle

Open Access
4 Scopus citations

Oral Vitamin C (500 mg/d) to pregnant smokers improves infant airway function at 3 months (VCSIP) a randomized trial

McEvoy, C. T., Shorey-Kendrick, L. E., Milner, K., Schilling, D., Tiller, C., Vuylsteke, B., Scherman, A., Jackson, K., Haas, D. M., Harris, J., Schuff, R., Park, B. S., Vu, A., Kraemer, D. F., Mitchell, J., Metz, J., Gonzales, D., Bunten, C., Spindel, E. R., Tepper, R. S. & 1 others, Morris, C. D., May 1 2019, In : American journal of respiratory and critical care medicine. 199, 9, p. 1139-1147 9 p.

Research output: Contribution to journalArticle

8 Scopus citations

Polymorphisms in oxidative stress pathway genes and prostate cancer risk

Zhang, Z., Jiang, D., Wang, C., Garzotto, M., Kopp, R., Wilmot, B., Thuillier, P., Dang, A., Palma, A., Farris, P. E. & Shannon, J., Dec 1 2019, In : Cancer Causes and Control. 30, 12, p. 1365-1375 11 p.

Research output: Contribution to journalArticle

What do functional genomics tell us about pathogenesis of AML?

Tyner, J. W., Bottomly, D., Wilmot, B. & McWeeney, S., Dec 2019, In : Best Practice and Research: Clinical Haematology. 32, 4, 101101.

Research output: Contribution to journalReview article

2018

Analysis of shared heritability in common disorders of the brain

The Brainstorm Consortium, Jun 22 2018, In : Science. 360, 6395, 8757.

Research output: Contribution to journalArticle

372 Scopus citations

Functional genomic landscape of acute myeloid leukaemia

Tyner, J. W., Tognon, C. E., Bottomly, D., Wilmot, B., Kurtz, S. E., Savage, S. L., Long, N., Schultz, A. R., Traer, E., Abel, M., Agarwal, A., Blucher, A., Borate, U., Bryant, J., Burke, R., Carlos, A., Carpenter, R., Carroll, J., Chang, B. H., Coblentz, C. & 68 others, d’Almeida, A., Cook, R., Danilov, A., Dao, K. H. T., Degnin, M., Devine, D., Dibb, J., Edwards, D. K., Eide, C. A., English, I., Glover, J., Henson, R., Ho, H., Jemal, A., Johnson, K., Johnson, R., Junio, B., Kaempf, A., Leonard, J., Lin, C., Liu, S. Q., Lo, P., Loriaux, M. M., Luty, S., Macey, T., MacManiman, J., Martinez, J., Mori, M., Nelson, D., Nichols, C., Peters, J., Ramsdill, J., Rofelty, A., Schuff, R., Searles, R., Segerdell, E., Smith, R. L., Spurgeon, S. E., Sweeney, T., Thapa, A., Visser, C., Wagner, J., Watanabe-Smith, K., Werth, K., Wolf, J., White, L., Yates, A., Zhang, H., Cogle, C. R., Collins, R. H., Connolly, D. C., Deininger, M. W., Drusbosky, L., Hourigan, C. S., Jordan, C. T., Kropf, P., Lin, T. L., Martinez, M. E., Medeiros, B. C., Pallapati, R. R., Pollyea, D. A., Swords, R. T., Watts, J. M., Weir, S. J., Wiest, D. L., Winters, R. M., McWeeney, S. K. & Druker, B. J., Oct 25 2018, In : Nature. 562, 7728, p. 526-531 6 p.

Research output: Contribution to journalArticle

122 Scopus citations

Gender-Specific Effects of Selection for Drinking in the Dark on the Network Roles of Coding and Noncoding RNAs

Iancu, O., Colville, A. M., Wilmot, B., Searles, R., Darakjian, P., Zheng, C., McWeeney, S., Kawane, S., Crabbe, J. J., Metten, P., Oberbeck, D. & Hitzemann, R., Aug 1 2018, In : Alcoholism: Clinical and Experimental Research. 42, 8, p. 1454-1465 12 p.

Research output: Contribution to journalArticle

3 Scopus citations

Synthetic lethality of TNK2 inhibition in PTPN11-mutant leukemia

Jenkins, C., Luty, S. B., Maxson, J., Eide, C. A., Abel, M. L., Togiai, C., Nemecek, E., Bottomly, D., McWeeney, S., Wilmot, B., Loriaux, M., Chang, B. & Tyner, J., Jul 17 2018, In : Science Signaling. 11, 539, eaao5617.

Research output: Contribution to journalArticle

1 Scopus citations
20 Scopus citations
2017

Characterization of the leukemogenic potential of distal cytoplasmic CSF3R truncation and missense mutations

Zhang, H., Reister Schultz, A., Luty, S., Rofelty, A., Su, Y., Means, S., Bottomly, D., Wilmot, B., McWeeney, S. & Tyner, J., Dec 1 2017, In : Leukemia. 31, 12, p. 2752-2760 9 p.

Research output: Contribution to journalArticle

9 Scopus citations

Identification of Hip BMD Loss and Fracture Risk Markers Through Population-Based Serum Proteomics

for the Osteoporotic Fractures in Men (MrOS) Study Research Group, Jul 2017, In : Journal of Bone and Mineral Research. 32, 7, p. 1559-1567 9 p.

Research output: Contribution to journalArticle

7 Scopus citations

NFAT5 and SLC4A10 loci associate with plasma osmolality

Böger, C. A., Gorski, M., McMahon, G. M., Xu, H., Chang, Y. P. C., Van Der Most, P. J., Navis, G., Nolte, I. M., De Borst, M. H., Zhang, W., Lehne, B., Loh, M., Tan, S. T., Boerwinkle, E., Grams, M. E., Sekula, P., Li, M., Wilmot, B., Moon, J. G., Scheet, P. & 86 others, Cucca, F., Xiao, X., Lyytikäinen, L. P., Delgado, G., Grammer, T. B., Kleber, M. E., Sedaghat, S., Rivadeneira, F., Corre, T., Kutalik, Z., Bergmann, S., Nielson, C. M., Srikanth, P., Teumer, A., Müller-Nurasyid, M., Brockhaus, A. C., Pfeufer, A., Rathmann, W., Peters, A., Matsumoto, M., De Andrade, M., Atkinson, E. J., Robinson-Cohen, C., De Boer, I. H., Hwang, S. J., Heid, I. M., Gögele, M., Concas, M. P., Tanaka, T., Bandinelli, S., Nalls, M. A., Singleton, A., Tajuddin, S. M., Adeyemo, A., Zhou, J., Doumatey, A., McWeeney, S., Murabito, J., Franceschini, N., Flessner, M., Shlipak, M., Wilson, J. G., Chen, G., Rotimi, C. N., Zonderman, A. B., Evans, M. K., Ferrucci, L., Devuyst, O., Pirastu, M., Shuldiner, A., Hicks, A. A., Pramstaller, P. P., Kestenbaum, B., Kardia, S. L. R., Turner, S. T., Study, L. C., Briske, T. E., Gieger, C., Strauch, K., Meisinger, C., Meitinger, T., Völker, U., Nauck, M., Völzke, H., Vollenweider, P., Bochud, M., Waeber, G., Kähönen, M., Lehtimäki, T., März, W., Dehghan, A., Franco, O. H., Uitterlinden, A. G., Hofman, A., Taylor, H. A., Chambers, J. C., Kooner, J. S., Fox, C. S., Hitzemann, R., Orwoll, E. S., Pattaro, C., Schlessinger, D., Köttgen, A., Snieder, H., Parsa, A. & Cohen, D. M., Aug 2017, In : Journal of the American Society of Nephrology. 28, 8, p. 2311-2321 11 p.

Research output: Contribution to journalArticle

8 Scopus citations

Recurrent cyclin D2 mutations in myeloid neoplasms

Khanna, V., Eide, C. A., Tognon, C. E., Maxson, J., Wilmot, B., Bottomly, D., McWeeney, S., Edwards, V. D. K., Druker, B. & Tyner, J., Sep 1 2017, In : Leukemia. 31, 9, p. 2005-2008 4 p.

Research output: Contribution to journalLetter

3 Scopus citations
17 Scopus citations

Unpaired extracellular cysteine mutations of CSF3R mediate gain or loss of function

Zhang, H., Means, S., Schultz, A. R., Watanabe-Smith, K., Medeiros, B. C., Bottomly, D., Wilmot, B., McWeeney, S., Kükenshöner, T., Hantschel, O. & Tyner, J., Aug 15 2017, In : Cancer Research. 77, 16, p. 4258-4267 10 p.

Research output: Contribution to journalArticle

6 Scopus citations

Vitamin C to Decrease the Effects of Smoking in Pregnancy on Infant Lung Function (VCSIP): Rationale, design, and methods of a randomized, controlled trial of vitamin C supplementation in pregnancy for the primary prevention of effects of in utero tobacco smoke exposure on infant lung function and respiratory health

McEvoy, C. T., Milner, K. F., Scherman, A. J., Schilling, D. G., Tiller, C. J., Vuylsteke, B., Shorey-Kendrick, L. E., Spindel, E. R., Schuff, R., Mitchell, J., Peters, D., Metz, J., Haas, D., Jackson, K., Tepper, R. S. & Morris, C. D., Jul 1 2017, In : Contemporary Clinical Trials. 58, p. 66-77 12 p.

Research output: Contribution to journalArticle

7 Scopus citations
2016

Cover Image, Volume 171B, Number 6, September 2016

IMAGE2 Consortium & German ADHD GWAS Group, Sep 1 2016, In : American Journal of Medical Genetics, Part B: Neuropsychiatric Genetics. 171, 6, 1 p.

Research output: Contribution to journalComment/debate

2 Scopus citations

HitWalker2: Visual analytics for precision medicine and beyond

Bottomly, D., McWeeney, S. K. & Wilmot, B., Apr 15 2016, In : Bioinformatics. 32, 8, p. 1253-1255 3 p.

Research output: Contribution to journalArticle

8 Scopus citations

Identification and characterization of tyrosine kinase nonreceptor 2 mutations in leukemia through integration of kinase inhibitor screening and genomic analysis

Maxson, J. E., Abel, M. L., Wang, J., Deng, X., Reckel, S., Luty, S. B., Sun, H., Gorenstein, J., Hughes, S. B., Bottomly, D., Wilmot, B., McWeeney, S. K., Radich, J., Hantschel, O., Middleton, R. E., Gray, N. S., Druker, B. J. & Tyner, J. W., Jan 1 2016, In : Cancer Research. 76, 1, p. 127-138 12 p.

Research output: Contribution to journalArticle

15 Scopus citations

Methylomic analysis of salivary DNA in childhood ADHD identifies altered DNA methylation in VIPR2

Wilmot, B., Fry, R., Smeester, L., Musser, E. D., Mill, J. & Nigg, J. T., Feb 1 2016, In : Journal of Child Psychology and Psychiatry and Allied Disciplines. 57, 2, p. 152-160 9 p.

Research output: Contribution to journalArticle

40 Scopus citations

Pathway analysis in attention deficit hyperactivity disorder: An ensemble approach

IMAGE2 Consortium & German ADHD GWAS Group, Sep 1 2016, In : American Journal of Medical Genetics, Part B: Neuropsychiatric Genetics. 171, 6, p. 815-826 12 p.

Research output: Contribution to journalArticle

20 Scopus citations
2015

Data like this: Ranked search of genomic data vision paper

Megler, V. M., Maier, D., Bottomly, D., White, L., McWeeney, S. & Wilmot, B., May 31 2015, 2nd International Workshop on Exploratory Search in Databases and the Web, Explore DB 2015 - Proceedings. Association for Computing Machinery, Inc, p. 3-5 3 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Scopus citations

Gene set analysis: A step-by-step guide

Mooney, M. A. & Wilmot, B., Oct 1 2015, In : American Journal of Medical Genetics, Part B: Neuropsychiatric Genetics. 168, 7, p. 517-527 11 p.

Research output: Contribution to journalArticle

26 Scopus citations

Limited clinical utility of a genetic risk score for the prediction of fracture risk in elderly subjects

Eriksson, J., Evans, D. S., Nielson, C. M., Shen, J., Srikanth, P., Hochberg, M., McWeeney, S., Cawthon, P. M., Wilmot, B., Zmuda, J., Tranah, G., Mirel, D. B., Challa, S., Mooney, M., Crenshaw, A., Karlsson, M., Mellström, D., Vandenput, L., Orwoll, E. & Ohlsson, C., Jan 1 2015, In : Journal of Bone and Mineral Research. 30, 1, p. 184-194 11 p.

Research output: Contribution to journalArticle

19 Scopus citations

Lipid and sterol gene sequence variation in autism and correlates with neurodevelopmental status: A pilot study

Hall, T. A., Steiner, R. D., Wright, H., Wilmot, B., Roullet, J. B., Peters, M. & Harris, M., Sep 1 2015, In : New Horizons in Translational Medicine. 2, 6-7, p. 137-146 10 p.

Research output: Contribution to journalArticle

plethy: Management of whole body plethysmography data in R

Bottomly, D., Wilmot, B. & McWeeney, S. K., Dec 12 2015, In : BMC bioinformatics. 16, 1, 134.

Research output: Contribution to journalArticle

Splicing landscape of the eight collaborative cross founder strains

Zheng, C. L., Wilmot, B., Walter, N. A. R., Oberbeck, D., Kawane, S., Searles, R. P., McWeeney, S. K. & Hitzemann, R., Feb 5 2015, In : BMC Genomics. 16, 1, 52.

Research output: Contribution to journalArticle

6 Scopus citations

Src and STAT3 inhibitors synergize to promote tumor inhibition in renal cell carcinoma

Lue, H. W., Cole, B., Rao, S. A. M., Podolak, J., Van Gaest, A., King, C., Eide, C. A., Wilmot, B., Xue, C., Spellman, P. T., Heiser, L. M., Tyner, J. W. & Thomas, G. V., 2015, In : Oncotarget. 6, 42, p. 44675-44687 13 p.

Research output: Contribution to journalArticle

16 Scopus citations

Therapeutically targetable ALK mutations in leukemia

Maxson, J. E., Davare, M. A., Luty, S. B., Eide, C. A., Chang, B. H., Loriaux, M. M., Tognon, C. E., Bottomly, D., Wilmot, B., McWeeney, S. K., Druker, B. J. & Tyner, J. W., Jun 1 2015, In : Cancer Research. 75, 11, p. 2146-2150 5 p.

Research output: Contribution to journalArticle

8 Scopus citations
2014

Analysis Considerations for Utilizing RNA-Seq to Characterize the Brain Transcriptome

Zheng, C. L., Kawane, S., Bottomly, D. & Wilmot, B., Jan 1 2014, International Review of Neurobiology. Academic Press Inc., p. 21-54 34 p. (International Review of Neurobiology; vol. 116).

Research output: Chapter in Book/Report/Conference proceedingChapter

1 Scopus citations

Functional and genomic context in pathway analysis of GWAS data

Mooney, M. A., Nigg, J. T., McWeeney, S. K. & Wilmot, B., Sep 2014, In : Trends in Genetics. 30, 9, p. 390-400 11 p.

Research output: Contribution to journalReview article

59 Scopus citations

Genetic susceptibility to chronic otitis media with effusion: Candidate gene single nucleotide polymorphisms

MacArthur, C. J., Wilmot, B., Wang, L., Schuller, M., Lighthall, J. & Trune, D., May 2014, In : Laryngoscope. 124, 5, p. 1229-1235 7 p.

Research output: Contribution to journalArticle

16 Scopus citations

Oligomask: A framework for assessing and removing the effect of genetic variants on microarray probes

Bottomly, D., Wilmot, B. & McWeeney, S. K., 2014, In : R Journal. 6, 1, p. 159-163 5 p.

Research output: Contribution to journalArticle

2 Scopus citations

'Pitfalls in the application of gene set analysis to genetics studies': A response

Mooney, M. A., Nigg, J. T., McWeeney, S. K. & Wilmot, B., Dec 1 2014, In : Trends in Genetics. 30, 12, p. 514-515 2 p.

Research output: Contribution to journalLetter

1 Scopus citations
7 Scopus citations
2013

Change in postprandial substrate oxidation after a high-fructose meal is related to body mass index in healthy men

Smeraglio, A. C., Kennedy, E. K., Horgan, A., Purnell, J. Q. & Gillingham, M. B., Jun 1 2013, In : Nutrition Research. 33, 6, p. 435-441 7 p.

Research output: Contribution to journalArticle

3 Scopus citations
4 Scopus citations

Effects of a high-protein diet on regulation of phosphorus homeostasis

Kremsdorf, R. A., Hoofnagle, A. N., Kratz, M., Weigle, D. S., Callahan, H. S., Purnell, J. Q., Horgan, A. M., De Boer, I. H. & Kestenbaum, B. R., Mar 2013, In : Journal of Clinical Endocrinology and Metabolism. 98, 3, p. 1207-1213 7 p.

Research output: Contribution to journalArticle

12 Scopus citations

Genes, behavior and next-generation RNA sequencing

Hitzemann, R., Bottomly, D., Darakjian, P., Walter, N., Iancu, O., Searles, R., Wilmot, B. & Mcweeney, S., Feb 1 2013, In : Genes, Brain and Behavior. 12, 1, p. 1-12 12 p.

Research output: Contribution to journalArticle

50 Scopus citations

HitWalker: Variant prioritization for personalized functional cancer genomics

Bottomly, D., Wilmot, B., Tyner, J. W., Eide, C. A., Loriaux, M. M., Druker, B. J. & McWeeney, S. K., Feb 15 2013, In : Bioinformatics. 29, 4, p. 509-510 2 p.

Research output: Contribution to journalArticle

7 Scopus citations

Protein co-expression network analysis (ProCoNA)

Gibbs, D. L., Baratt, A., Baric, R. S., Kawaoka, Y., Smith, R. D., Orwoll, E. S., Katze, M. G. & McWeeney, S. K., Jun 1 2013, In : Journal of Clinical Bioinformatics. 3, 1, 11.

Research output: Contribution to journalArticle

18 Scopus citations
2012

A single-nucleotide polymorphism in the EAP1 gene is associated with amenorrhea/oligomenorrhea in nonhuman primates

Lomniczi, A., Garcia-Rudaz, C., Ramakrishnan, R., Wilmot, B., Khouangsathiene, S., Ferguson, B., Dissen, G. A. & Ojeda, S. R., Jan 1 2012, In : Endocrinology. 153, 1, p. 339-349 11 p.

Research output: Contribution to journalArticle

20 Scopus citations

Children with severe early childhood caries: Pilot study examining mutans streptococci genotypic strains after full-mouth caries restorative therapy

Palmer, E. A., Nielsen, T., Peirano, P., Nguyen, A. T., Vo, A., Nguyen, A., Jackson, S., Finlayson, T., Sauerwein, R., Marsh, K., Edwards, I., Wilmot, B., Engle, J., Peterson, J., Maier, T. & Machida, C. A., Mar 1 2012, In : Pediatric dentistry. 34, 2, p. E1-E10

Research output: Contribution to journalArticle

6 Scopus citations

Heritability of serum sodium concentration: Evidence for sex- and ethnic-specific effects

Wilmot, B., Saroja Voruganti, V., Chang, Y. P. C., Fu, Y., Chen, Z., Taylor, H. A., Wilson, J. G., Gipson, T., Shah, V. O., Umans, J. G., Flessner, M. F., Hitzemann, R., Shuldiner, A. R., Comuzzie, A. G., Mcweeney, S., Zager, P. G., Maccluer, J. W., Cole, S. A. & Cohen, D. M., Feb 2012, In : Physiological genomics. 44, 3, p. 220-228 9 p.

Research output: Contribution to journalArticle

13 Scopus citations

Practices and perspectives on building integrated data repositories: Results from a 2010 CTSA survey

MacKenzie, S. L., Wyatt, M. C., Schuff, R., Tenenbaum, J. D. & Anderson, N., Jun 2012, In : Journal of the American Medical Informatics Association. 19, E1, p. e119-e124

Research output: Contribution to journalArticle

34 Scopus citations
15 Scopus citations
2011

A DNA methylation microarray-based study identifies ERG as a gene commonly methylated in prostate cancer

Schwartzman, J., Mongoue-Tchokote, S., Gibbs, A., Gao, L., Corless, C. L., Jin, J., Zarour, L., Higano, C., True, L. D., Vessella, R. L., Wilmot, B., Bottomly, D., McWeeney, S. K., Bova, S. G., Partin, A. W., Mori, M. & Alumkal, J. J., Oct 2011, In : Epigenetics. 6, 10, p. 1248-1256 9 p.

Research output: Contribution to journalArticle

13 Scopus citations

Microcephaly genes and risk of late-onset Alzheimer disease

Erten-Lyons, D., Wilmot, B., Anur, P., Mcweeney, S., Westaway, S. K., Silbert, L., Kramer, P. & Kaye, J., Jul 1 2011, In : Alzheimer Disease and Associated Disorders. 25, 3, p. 276-282 7 p.

Research output: Contribution to journalArticle

5 Scopus citations