Shannon K. McWeeney, Ph.D. - Publications

Affiliations: 
University of California, Berkeley, Berkeley, CA 
Area:
Diabetes, Population Genetics, HLA

102 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Mooney MA, McWeeney SK, Faraone S, Hinney A, Hebebrand J, Nigg JT, Wilmot B. Pathway analysis in attention deficit hyperactivity disorder: An ensemble approach. American Journal of Medical Genetics. Part B, Neuropsychiatric Genetics : the Official Publication of the International Society of Psychiatric Genetics. PMID 27004716 DOI: 10.1002/ajmg.b.32446  0.64
2016 Bornstein S, Schmidt M, Choonoo G, Levin T, Gray J, Thomas CR, Wong M, McWeeney S. IL-10 and integrin signaling pathways are associated with head and neck cancer progression. Bmc Genomics. 17: 38. PMID 26747525 DOI: 10.1186/s12864-015-2359-6  0.64
2015 Maxson JE, Abel ML, Wang J, Deng X, Reckel S, Luty SB, Sun H, Gorenstein J, Hughes SB, Bottomly D, Wilmot B, McWeeney SK, Radich J, Hantschel O, Middleton RE, et al. Identification and Characterization of Tyrosine Kinase Nonreceptor 2 Mutations in Leukemia through Integration of Kinase Inhibitor Screening and Genomic Analysis. Cancer Research. PMID 26677978 DOI: 10.1158/0008-5472.CAN-15-0817  0.64
2015 Laderas T, Wu G, McWeeney S. Between pathways and networks lies context: implications for precision medicine. Science Progress. 98: 253-63. PMID 26601340 DOI: 10.3184/003685015X14368898634462  0.64
2015 Maxson JE, Davare MA, Luty SB, Eide CA, Chang BH, Loriaux MM, Tognon CE, Bottomly D, Wilmot B, McWeeney SK, Druker BJ, Tyner JW. Therapeutically Targetable ALK Mutations in Leukemia. Cancer Research. 75: 2146-50. PMID 26032424 DOI: 10.1158/0008-5472.CAN-14-1576  0.64
2015 Iancu OD, Colville A, Oberbeck D, Darakjian P, McWeeney SK, Hitzemann R. Cosplicing network analysis of mammalian brain RNA-Seq data utilizing WGCNA and Mantel correlations. Frontiers in Genetics. 6: 174. PMID 26029240 DOI: 10.3389/fgene.2015.00174  0.64
2015 Landais I, Pelton C, Streblow D, DeFilippis V, McWeeney S, Nelson JA. Human Cytomegalovirus miR-UL112-3p Targets TLR2 and Modulates the TLR2/IRAK1/NFκB Signaling Pathway. Plos Pathogens. 11: e1004881. PMID 25955717 DOI: 10.1371/journal.ppat.1004881  0.64
2015 Bottomly D, Wilmot B, McWeeney SK. plethy: management of whole body plethysmography data in R. Bmc Bioinformatics. 16: 134. PMID 25924931 DOI: 10.1186/s12859-015-0547-7  0.64
2015 Kamimae-Lanning AN, Krasnow SM, Goloviznina NA, Zhu X, Roth-Carter QR, Levasseur PR, Jeng S, McWeeney SK, Kurre P, Marks DL. Maternal high-fat diet and obesity compromise fetal hematopoiesis. Molecular Metabolism. 4: 25-38. PMID 25685687 DOI: 10.1016/j.molmet.2014.11.001  0.64
2015 Zheng CL, Wilmot B, Walter NA, Oberbeck D, Kawane S, Searles RP, McWeeney SK, Hitzemann R. Splicing landscape of the eight collaborative cross founder strains. Bmc Genomics. 16: 52. PMID 25652416 DOI: 10.1186/s12864-015-1267-0  0.64
2015 Eriksson J, Evans DS, Nielson CM, Shen J, Srikanth P, Hochberg M, McWeeney S, Cawthon PM, Wilmot B, Zmuda J, Tranah G, Mirel DB, Challa S, Mooney M, Crenshaw A, et al. Limited clinical utility of a genetic risk score for the prediction of fracture risk in elderly subjects. Journal of Bone and Mineral Research : the Official Journal of the American Society For Bone and Mineral Research. 30: 184-94. PMID 25043339 DOI: 10.1002/jbmr.2314  0.64
2015 Arao RF, Rosenberg KD, McWeeney S, Hedberg K. Influenza Vaccination of Pregnant Women: Attitudes and Behaviors of Oregon Physician Prenatal Care Providers Maternal and Child Health Journal. 19: 783-789. PMID 25034358 DOI: 10.1007/s10995-014-1569-x  0.64
2015 Zheng CL, Ratnakar V, Gil Y, McWeeney SK. Use of semantic workflows to enhance transparency and reproducibility in clinical omics Genome Medicine. 7. DOI: 10.1186/s13073-015-0202-y  0.64
2014 Aevermann BD, Pickett BE, Kumar S, Klem EB, Agnihothram S, Askovich PS, Bankhead A, Bolles M, Carter V, Chang J, Clauss TR, Dash P, Diercks AH, Eisfeld AJ, Ellis A, ... ... McWeeney S, et al. A comprehensive collection of systems biology data characterizing the host response to viral infection. Scientific Data. 1: 140033. PMID 25977790 DOI: 10.1038/sdata.2014.33  0.64
2014 Metten P, Iancu OD, Spence SE, Walter NA, Oberbeck D, Harrington CA, Colville A, McWeeney S, Phillips TJ, Buck KJ, Crabbe JC, Belknap JK, Hitzemann RJ. Dual-trait selection for ethanol consumption and withdrawal: genetic and transcriptional network effects. Alcoholism, Clinical and Experimental Research. 38: 2915-24. PMID 25581648 DOI: 10.1111/acer.12574  0.64
2014 Mooney MA, Nigg JT, McWeeney SK, Wilmot B. ‘Pitfalls in the application of gene set analysis to genetics studies’: a response. Trends in Genetics : Tig. 30: 514-5. PMID 25459302 DOI: 10.1016/j.tig.2014.10.002  0.64
2014 Agarwal A, Mackenzie RJ, Besson A, Jeng S, Carey A, LaTocha DH, Fleischman AG, Duquesnes N, Eide CA, Vasudevan KB, Loriaux MM, Firpo E, Cortes JE, McWeeney S, O'Hare T, et al. BCR-ABL1 promotes leukemia by converting p27 into a cytoplasmic oncoprotein. Blood. 124: 3260-73. PMID 25293778 DOI: 10.1182/blood-2013-04-497040  0.64
2014 Mooney M, McWeeney S. Data integration and reproducibility for high-throughput transcriptomics International Review of Neurobiology. 116: 55-71. PMID 25172471 DOI: 10.1016/B978-0-12-801105-8.00003-5  0.64
2014 Hitzemann R, Darakjian P, Walter N, Iancu OD, Searles R, McWeeney S. Introduction to sequencing the brain transcriptome. International Review of Neurobiology. 116: 1-19. PMID 25172469 DOI: 10.1016/B978-0-12-801105-8.00001-1  0.64
2014 Mooney MA, Nigg JT, McWeeney SK, Wilmot B. Functional and genomic context in pathway analysis of GWAS data. Trends in Genetics : Tig. 30: 390-400. PMID 25154796 DOI: 10.1016/j.tig.2014.07.004  0.64
2014 Yao H, Goldman DC, Nechiporuk T, Kawane S, McWeeney SK, Tyner JW, Fan G, Kerenyi MA, Orkin SH, Fleming WH, Mandel G. Corepressor Rcor1 is essential for murine erythropoiesis. Blood. 123: 3175-84. PMID 24652990 DOI: 10.1182/blood-2013-11-538678  0.64
2014 Hook LM, Grey F, Grabski R, Tirabassi R, Doyle T, Hancock M, Landais I, Jeng S, McWeeney S, Britt W, Nelson JA. Cytomegalovirus miRNAs target secretory pathway genes to facilitate formation of the virion assembly compartment and reduce cytokine secretion. Cell Host & Microbe. 15: 363-73. PMID 24629342 DOI: 10.1016/j.chom.2014.02.004  0.64
2014 Gibbs DL, Gralinski L, Baric RS, McWeeney SK. Multi-omic network signatures of disease. Frontiers in Genetics. 4: 309. PMID 24432028 DOI: 10.3389/fgene.2013.00309  0.64
2014 Hitzemann R, Bottomly D, Iancu O, Buck K, Wilmot B, Mooney M, Searles R, Zheng C, Belknap J, Crabbe J, McWeeney S. The genetics of gene expression in complex mouse crosses as a tool to study the molecular underpinnings of behavior traits. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 25: 12-22. PMID 24374554 DOI: 10.1007/s00335-013-9495-6  0.64
2014 Blucher AS, McWeeney SK. Challenges in secondary analysis of high throughput screening data. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 114-24. PMID 24297539  0.64
2014 Bottomly D, Wilmot B, McWeeney SK. Oligomask: A framework for assessing and removing the effect of genetic variants on microarray probes R Journal. 6: 159-163.  0.64
2013 Bottomly D, Ryabinin PA, Tyner JW, Chang BH, Loriaux MM, Druker BJ, McWeeney SK, Wilmot B. Comparison of methods to identify aberrant expression patterns in individual patients: augmenting our toolkit for precision medicine. Genome Medicine. 5: 103. PMID 24286512 DOI: 10.1186/gm509  0.64
2013 Belknap JK, McWeeney S, Reed C, Burkhart-Kasch S, McKinnon CS, Li N, Baba H, Scibelli AC, Hitzemann R, Phillips TJ. Genetic factors involved in risk for methamphetamine intake and sensitization. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 24: 446-58. PMID 24217691 DOI: 10.1007/s00335-013-9484-9  0.64
2013 Gralinski LE, Bankhead A, Jeng S, Menachery VD, Proll S, Belisle SE, Matzke M, Webb-Robertson BJ, Luna ML, Shukla AK, Ferris MT, Bolles M, Chang J, Aicher L, Waters KM, ... ... McWeeney S, et al. Mechanisms of severe acute respiratory syndrome coronavirus-induced acute lung injury. Mbio. 4. PMID 23919993 DOI: 10.1128/mBio.00271-13  0.64
2013 Mooney M, McWeeney S, Sékaly RP. Systems immunogenetics of vaccines Seminars in Immunology. 25: 124-129. PMID 23886894 DOI: 10.1016/j.smim.2013.06.003  0.64
2013 Lewinsohn DM, Swarbrick GM, Cansler ME, Null MD, Rajaraman V, Frieder MM, Sherman DR, McWeeney S, Lewinsohn DA. Human Mycobacterium tuberculosis CD8 T Cell Antigens/Epitopes Identified by a Proteomic Peptide Library. Plos One. 8: e67016. PMID 23805289 DOI: 10.1371/journal.pone.0067016  0.64
2013 Gibbs DL, Baratt A, Baric RS, Kawaoka Y, Smith RD, Orwoll ES, Katze MG, McWeeney SK. Protein co-expression network analysis (ProCoNA). Journal of Clinical Bioinformatics. 3: 11. PMID 23724967 DOI: 10.1186/2043-9113-3-11  0.64
2013 Gao L, Schwartzman J, Gibbs A, Lisac R, Kleinschmidt R, Wilmot B, Bottomly D, Coleman I, Nelson P, McWeeney S, Alumkal J. Androgen receptor promotes ligand-independent prostate cancer progression through c-Myc upregulation. Plos One. 8: e63563. PMID 23704919 DOI: 10.1371/journal.pone.0063563  0.64
2013 Bankhead A, Mancini E, Sims AC, Baric RS, McWeeney S, Sloot PM. A Simulation Framework to Investigate in vitro Viral Infection Dynamics. Journal of Computational Science. 4: 127-134. PMID 23682300 DOI: 10.1016/j.jocs.2011.08.007  0.64
2013 Maxson JE, Gotlib J, Pollyea DA, Fleischman AG, Agarwal A, Eide CA, Bottomly D, Wilmot B, McWeeney SK, Tognon CE, Pond JB, Collins RH, Goueli B, Oh ST, Deininger MW, et al. Oncogenic CSF3R mutations in chronic neutrophilic leukemia and atypical CML. The New England Journal of Medicine. 368: 1781-90. PMID 23656643 DOI: 10.1056/NEJMoa1214514  0.64
2013 Iancu OD, Oberbeck D, Darakjian P, Kawane S, Erk J, McWeeney S, Hitzemann R. Differential network analysis reveals genetic effects on catalepsy modules. Plos One. 8: e58951. PMID 23555609 DOI: 10.1371/journal.pone.0058951  0.64
2013 Iancu OD, Oberbeck D, Darakjian P, Metten P, McWeeney S, Crabbe JC, Hitzemann R. Selection for drinking in the dark alters brain gene coexpression networks. Alcoholism, Clinical and Experimental Research. 37: 1295-303. PMID 23550792 DOI: 10.1111/acer.12100  0.64
2013 Ferris MT, Aylor DL, Bottomly D, Whitmore AC, Aicher LD, Bell TA, Bradel-Tretheway B, Bryan JT, Buus RJ, Gralinski LE, Haagmans BL, McMillan L, Miller DR, Rosenzweig E, Valdar W, ... ... McWeeney SK, et al. Modeling host genetic regulation of influenza pathogenesis in the collaborative cross. Plos Pathogens. 9: e1003196. PMID 23468633 DOI: 10.1371/journal.ppat.1003196  0.64
2013 Sims AC, Tilton SC, Menachery VD, Gralinski LE, Schäfer A, Matzke MM, Webb-Robertson BJ, Chang J, Luna ML, Long CE, Shukla AK, Bankhead AR, Burkett SE, Zornetzer G, Tseng CT, ... ... McWeeney S, et al. Release of severe acute respiratory syndrome coronavirus nuclear import block enhances host transcription in human lung cells. Journal of Virology. 87: 3885-902. PMID 23365422 DOI: 10.1128/JVI.02520-12  0.64
2013 Bottomly D, Wilmot B, Tyner JW, Eide CA, Loriaux MM, Druker BJ, McWeeney SK. HitWalker: variant prioritization for personalized functional cancer genomics. Bioinformatics (Oxford, England). 29: 509-10. PMID 23303510 DOI: 10.1093/bioinformatics/btt003  0.64
2013 Hitzemann R, Bottomly D, Darakjian P, Walter N, Iancu O, Searles R, Wilmot B, McWeeney S. Genes, behavior and next-generation RNA sequencing. Genes, Brain, and Behavior. 12: 1-12. PMID 23194347 DOI: 10.1111/gbb.12007  0.64
2013 Siegel DH, Shieh JT, Kwon EK, Baselga E, Blei F, Cordisco M, Dobyns WB, Duffy KJ, Garzon MC, Gibbs DL, Grimmer JF, Hayflick SJ, Krol AL, Kwok PY, Lorier R, ... ... McWeeney S, et al. Copy number variation analysis in 98 individuals with PHACE syndrome. The Journal of Investigative Dermatology. 133: 677-84. PMID 23096700 DOI: 10.1038/jid.2012.367  0.64
2013 Mooney M, McWeeney S, Canderan G, Sékaly RP. A systems framework for vaccine design Current Opinion in Immunology. DOI: 10.1016/j.coi.2013.09.014  0.64
2013 Gil Y, McWeeney S, Mason CE. Using semantic workflows to disseminate best practices and accelerate discoveries in multi-omic data analysis Aaai Workshop - Technical Report. 25-30.  0.64
2012 Iancu OD, Darakjian P, Kawane S, Bottomly D, Hitzemann R, McWeeney S. Detection of expression quantitative trait Loci in complex mouse crosses: impact and alleviation of data quality and complex population substructure. Frontiers in Genetics. 3: 157. PMID 22969789 DOI: 10.3389/fgene.2012.00157  0.64
2012 Iancu OD, Kawane S, Bottomly D, Searles R, Hitzemann R, McWeeney S. Utilizing RNA-Seq data for de novo coexpression network inference. Bioinformatics (Oxford, England). 28: 1592-7. PMID 22556371 DOI: 10.1093/bioinformatics/bts245  0.64
2012 O'Tierney PF, Lewis RM, McWeeney SK, Hanson MA, Inskip HM, Morgan TK, Barker DJ, Bagby G, Cooper C, Godfrey KM, Thornburg KL. Immune response gene profiles in the term placenta depend upon maternal muscle mass. Reproductive Sciences (Thousand Oaks, Calif.). 19: 1041-56. PMID 22534332 DOI: 10.1177/1933719112440051  0.64
2012 Bottomly D, Ferris MT, Aicher LD, Rosenzweig E, Whitmore A, Aylor DL, Haagmans BL, Gralinski LE, Bradel-Tretheway BG, Bryan JT, Threadgill DW, de Villena FP, Baric RS, Katze MG, Heise M, ... McWeeney SK, et al. Expression quantitative trait Loci for extreme host response to influenza a in pre-collaborative cross mice. G3 (Bethesda, Md.). 2: 213-21. PMID 22384400 DOI: 10.1534/g3.111.001800  0.64
2012 Iraqi FA, Mahajne M, Salaymah Y, Sandovski H, Tayem H, Vered K, Balmer L, Hall M, Manship G, Morahan G, Pettit K, Scholten J, Tweedie K, Wallace A, Weerasekera L, ... ... Mcweeney SK, et al. The genome architecture of the collaborative cross mouse genetic reference population Genetics. 190: 389-401. PMID 22345608 DOI: 10.1534/genetics.111.132639  0.64
2012 Wilmot B, Voruganti VS, Chang YP, Fu Y, Chen Z, Taylor HA, Wilson JG, Gipson T, Shah VO, Umans JG, Flessner MF, Hitzemann R, Shuldiner AR, Comuzzie AG, McWeeney S, et al. Heritability of serum sodium concentration: evidence for sex- and ethnic-specific effects. Physiological Genomics. 44: 220-8. PMID 22186255 DOI: 10.1152/physiolgenomics.00153.2011  0.64
2012 Mooney M, Wilmot B, McWeeney S. The GA and the GWAS: Using genetic algorithms to search for multilocus associations Ieee/Acm Transactions On Computational Biology and Bioinformatics. 9: 899-910. PMID 22025762 DOI: 10.1109/TCBB.2011.145  0.64
2012 Iancu OD, Darakjian P, Malmanger B, Walter NA, McWeeney S, Hitzemann R. Gene networks and haloperidol-induced catalepsy. Genes, Brain, and Behavior. 11: 29-37. PMID 21967164 DOI: 10.1111/j.1601-183X.2011.00736.x  0.64
2012 Demir E, Cary MP, Paley S, Fukuda K, Lemer C, Vastrik I, Wu G, D'Eustachio P, Schaefer C, Luciano J, Schacherer F, Martinez-Flores I, Hu Z, Jimenez-Jacinto V, Joshi-Tope G, ... ... McWeeney S, et al. The BioPAX community standard for pathway data sharing (Nature Biotechnology (2010) 28, (935-942)) Nature Biotechnology. 30: 365. DOI: 10.1038/nbt0412-365c  0.64
2011 McDermott JE, Shankaran H, Eisfeld AJ, Belisle SE, Neuman G, Li C, McWeeney S, Sabourin C, Kawaoka Y, Katze MG, Waters KM. Conserved host response to highly pathogenic avian influenza virus infection in human cell culture, mouse and macaque model systems. Bmc Systems Biology. 5: 190. PMID 22074594 DOI: 10.1186/1752-0509-5-190  0.64
2011 Wright H, Cohen A, Sönmez K, Yochum G, McWeeney S. Occupancy classification of position weight matrix-inferred Transcription Factor Binding Sites Plos One. 6. PMID 22073148 DOI: 10.1371/journal.pone.0026160  0.64
2011 Schwartzman J, Mongoue-Tchokote S, Gibbs A, Gao L, Corless CL, Jin J, Zarour L, Higano C, True LD, Vessella RL, Wilmot B, Bottomly D, McWeeney SK, Bova GS, Partin AW, et al. A DNA methylation microarray-based study identifies ERG as a gene commonly methylated in prostate cancer. Epigenetics. 6: 1248-56. PMID 21946329 DOI: 10.4161/epi.6.10.17727  0.64
2011 Li C, Bankhead A, Eisfeld AJ, Hatta Y, Jeng S, Chang JH, Aicher LD, Proll S, Ellis AL, Law GL, Waters KM, Neumann G, Katze MG, McWeeney S, Kawaoka Y. Host regulatory network response to infection with highly pathogenic H5N1 avian influenza virus. Journal of Virology. 85: 10955-67. PMID 21865398 DOI: 10.1128/JVI.05792-11  0.64
2011 Laderas TG, Walter NA, Mooney M, Vartanian K, Darakjian P, Buck K, Harrington CA, Belknap J, Hitzemann R, McWeeney SK. Computational detection of alternative exon usage. Frontiers in Neuroscience. 5: 69. PMID 21625610 DOI: 10.3389/fnins.2011.00069  0.64
2011 Fei SS, Wilmarth PA, Hitzemann RJ, McWeeney SK, Belknap JK, David LL. Protein database and quantitative analysis considerations when integrating genetics and proteomics to compare mouse strains. Journal of Proteome Research. 10: 2905-12. PMID 21553863 DOI: 10.1021/pr200133p  0.64
2011 Bottomly D, Walter NA, Hunter JE, Darakjian P, Kawane S, Buck KJ, Searles RP, Mooney M, McWeeney SK, Hitzemann R. Evaluating gene expression in C57BL/6J and DBA/2J mouse striatum using RNA-Seq and microarrays. Plos One. 6: e17820. PMID 21455293 DOI: 10.1371/journal.pone.0017820  0.64
2011 Erten-Lyons D, Wilmot B, Anur P, McWeeney S, Westaway SK, Silbert L, Kramer P, Kaye J. Microcephaly genes and risk of late-onset Alzheimer disease. Alzheimer Disease and Associated Disorders. 25: 276-82. PMID 21297427 DOI: 10.1097/WAD.0b013e31820a1d32  0.64
2010 Iancu OD, Darakjian P, Walter NA, Malmanger B, Oberbeck D, Belknap J, McWeeney S, Hitzemann R. Genetic diversity and striatal gene networks: focus on the heterogeneous stock-collaborative cross (HS-CC) mouse. Bmc Genomics. 11: 585. PMID 20959017 DOI: 10.1186/1471-2164-11-585  0.64
2010 Demir E, Cary MP, Paley S, Fukuda K, Lemer C, Vastrik I, Wu G, D'Eustachio P, Schaefer C, Luciano J, Schacherer F, Martinez-Flores I, Hu Z, Jimenez-Jacinto V, Joshi-Tope G, ... ... McWeeney S, et al. The BioPAX community standard for pathway data sharing. Nature Biotechnology. 28: 935-42. PMID 20829833 DOI: 10.1038/nbt.1666  0.64
2010 Grey F, Tirabassi R, Meyers H, Wu G, McWeeney S, Hook L, Nelson JA. A viral microRNA down-regulates multiple cell cycle genes through mRNA 5'UTRs. Plos Pathogens. 6: e1000967. PMID 20585629 DOI: 10.1371/journal.ppat.1000967  0.64
2010 Bottomly D, Kyler SL, McWeeney SK, Yochum GS. Identification of {beta}-catenin binding regions in colon cancer cells using ChIP-Seq. Nucleic Acids Research. 38: 5735-45. PMID 20460455 DOI: 10.1093/nar/gkq363  0.64
2010 Sottoriva A, Verhoeff JJ, Borovski T, McWeeney SK, Naumov L, Medema JP, Sloot PM, Vermeulen L. Cancer stem cell tumor model reveals invasive morphology and increased phenotypical heterogeneity. Cancer Research. 70: 46-56. PMID 20048071 DOI: 10.1158/0008-5472.CAN-09-3663  0.64
2010 McWeeney SK, Pemberton LC, Loriaux MM, Vartanian K, Willis SG, Yochum G, Wilmot B, Turpaz Y, Pillai R, Druker BJ, Snead JL, MacPartlin M, O'Brien SG, Melo JV, Lange T, et al. A gene expression signature of CD34+ cells to predict major cytogenetic response in chronic-phase chronic myeloid leukemia patients treated with imatinib. Blood. 115: 315-25. PMID 19837975 DOI: 10.1182/blood-2009-03-210732  0.64
2009 Walter NA, Bottomly D, Laderas T, Mooney MA, Darakjian P, Searles RP, Harrington CA, McWeeney SK, Hitzemann R, Buck KJ. High throughput sequencing in mice: a platform comparison identifies a preponderance of cryptic SNPs. Bmc Genomics. 10: 379. PMID 19686600 DOI: 10.1186/1471-2164-10-379  0.64
2009 Tian W, Fu Y, Garcia-Elias A, Fernández-Fernández JM, Vicente R, Kramer PL, Klein RF, Hitzemann R, Orwoll ES, Wilmot B, McWeeney S, Valverde MA, Cohen DM. A loss-of-function nonsynonymous polymorphism in the osmoregulatory TRPV4 gene is associated with human hyponatremia. Proceedings of the National Academy of Sciences of the United States of America. 106: 14034-9. PMID 19666518 DOI: 10.1073/pnas.0904084106  0.64
2009 Ju W, Eichinger F, Bitzer M, Oh J, McWeeney S, Berthier CC, Shedden K, Cohen CD, Henger A, Krick S, Kopp JB, Stoeckert CJ, Dikman S, Schröppel B, Thomas DB, et al. Renal gene and protein expression signatures for prediction of kidney disease progression. The American Journal of Pathology. 174: 2073-85. PMID 19465643 DOI: 10.2353/ajpath.2009.080888  0.64
2009 Hitzemann R, Edmunds S, Wu W, Malmanger B, Walter N, Belknap J, Darakjian P, McWeeney S. Detection of reciprocal quantitative trait loci for acute ethanol withdrawal and ethanol consumption in heterogeneous stock mice. Psychopharmacology. 203: 713-22. PMID 19052728 DOI: 10.1007/s00213-008-1418-y  0.64
2008 Walter NA, McWeeney SK, Peters ST, Belknap JK, Hitzemann R, Buck KJ. Single-nucleotide polymorphism masking. Alcohol Research & Health : the Journal of the National Institute On Alcohol Abuse and Alcoholism. 31: 270-1. PMID 23584875  0.64
2008 Hitzemann R, Belknap JK, McWeeney SK. Quantitative trait locus analysis: multiple cross and heterogeneous stock mapping. Alcohol Research & Health : the Journal of the National Institute On Alcohol Abuse and Alcoholism. 31: 261-5. PMID 23584873  0.64
2008 Lee JA, Spidlen J, Boyce K, Cai J, Crosbie N, Dalphin M, Furlong J, Gasparetto M, Goldberg M, Goralczyk EM, Hyun B, Jansen K, Kollmann T, Kong M, Leif R, ... McWeeney S, et al. MIFlowCyt: the minimum information about a Flow Cytometry Experiment. Cytometry. Part a : the Journal of the International Society For Analytical Cytology. 73: 926-30. PMID 18752282 DOI: 10.1002/cyto.a.20623  0.64
2008 Hitzemann R, Malmanger B, Belknap J, Darakjian P, McWeeney S. Short-term selective breeding for high and low prepulse inhibition of the acoustic startle response; pharmacological characterization and QTL mapping in the selected lines. Pharmacology, Biochemistry, and Behavior. 90: 525-33. PMID 18513787 DOI: 10.1016/j.pbb.2008.04.004  0.64
2008 Hofstetter JR, Hitzemann RJ, Belknap JK, Walter NA, McWeeney SK, Mayeda AR. Characterization of the quantitative trait locus for haloperidol-induced catalepsy on distal mouse chromosome 1. Genes, Brain, and Behavior. 7: 214-23. PMID 17696997 DOI: 10.1111/j.1601-183X.2007.00340.x  0.64
2008 Wilmot B, McWeeney SK, Nixon RR, Montine TJ, Laut J, Harrington CA, Kaye JA, Kramer PL. Translational gene mapping of cognitive decline. Neurobiology of Aging. 29: 524-41. PMID 17174450 DOI: 10.1016/j.neurobiolaging.2006.11.008  0.64
2007 Yochum GS, Rajaraman V, Cleland R, McWeeney S. Localization of TFIIB binding regions using serial analysis of chromatin occupancy Bmc Molecular Biology. 8. PMID 17997859 DOI: 10.1186/1471-2199-8-102  0.64
2007 Laderas T, Bystrom C, Mcmillen D, Fan G, Mcweeney S. TandTRAQ: An open-source tool for integrated protein identification and quantitation Bioinformatics. 23: 3394-3396. PMID 17895273 DOI: 10.1093/bioinformatics/btm467  0.64
2007 Walter NA, McWeeney SK, Peters ST, Belknap JK, Hitzemann R, Buck KJ. SNPs matter: impact on detection of differential expression. Nature Methods. 4: 679-80. PMID 17762873 DOI: 10.1038/nmeth0907-679  0.64
2007 Keller DM, McWeeney S, Arsenlis A, Drouin J, Wright CV, Wang H, Wollheim CB, White P, Kaestner KH, Goodman RH. Characterization of pancreatic transcription factor Pdx-1 binding sites using promoter microarray and serial analysis of chromatin occupancy. The Journal of Biological Chemistry. 282: 32084-92. PMID 17761679 DOI: 10.1074/jbc.M700899200  0.64
2007 Laderas T, Mcweeney S. Consensus framework for exploring microarray data using multiple clustering methods Omics a Journal of Integrative Biology. 11: 116-128. PMID 17411399 DOI: 10.1089/omi.2006.0008  0.64
2007 Yochum GS, McWeeney S, Rajaraman V, Cleland R, Peters S, Goodman RH. Serial analysis of chromatin occupancy identifies beta-catenin target genes in colorectal carcinoma cells. Proceedings of the National Academy of Sciences of the United States of America. 104: 3324-9. PMID 17360646 DOI: 10.1073/pnas.0611576104  0.64
2007 Agarwal SK, Impey S, McWeeney S, Scacheri PC, Collins FS, Goodman RH, Spiegel AM, Marx SJ. Distribution of menin-occupied regions in chromatin specifies a broad role of menin in transcriptional regulation. Neoplasia (New York, N.Y.). 9: 101-7. PMID 17356705 DOI: 10.1593/neo.06706  0.64
2007 Yochum GS, Cleland R, McWeeney S, Goodman RH. An antisense transcript induced by Wnt/beta-catenin signaling decreases E2F4. The Journal of Biological Chemistry. 282: 871-8. PMID 17121828 DOI: 10.1074/jbc.M609391200  0.64
2006 Sikela JM, Maclaren EJ, Kim Y, Karimpour-Fard A, Cai WW, Pollack J, Hitzemann R, Belknap J, McWeeney S, Kerns RT, Downing C, Johnson TE, Grant KJ, Tabakoff B, Hoffman P, et al. DNA microarray and proteomic strategies for understanding alcohol action. Alcoholism, Clinical and Experimental Research. 30: 700-8. PMID 16573589 DOI: 10.1111/j.1530-0277.2006.00081.x  0.64
2006 Legube G, McWeeney SK, Lercher MJ, Akhtar A. X-chromosome-wide profiling of MSL-1 distribution and dosage compensation in Drosophila. Genes & Development. 20: 871-83. PMID 16547175 DOI: 10.1101/gad.377506  0.64
2006 Yanai I, Korbel JO, Boue S, McWeeney SK, Bork P, Lercher MJ. Similar gene expression profiles do not imply similar tissue functions. Trends in Genetics : Tig. 22: 132-8. PMID 16480787 DOI: 10.1016/j.tig.2006.01.006  0.64
2006 Reddy PH, McWeeney S. Mapping cellular transcriptosomes in autopsied Alzheimer's disease subjects and relevant animal models Neurobiology of Aging. 27: 1060-1077. PMID 16157420 DOI: 10.1016/j.neurobiolaging.2005.04.014  0.64
2005 Matthews DB, Bhave SV, Belknap JK, Brittingham C, Chesler EJ, Hitzemann RJ, Hoffmann PL, Lu L, McWeeney S, Miles MF, Tabakoff B, Williams RW. Complex genetics of interactions of alcohol and CNS function and behavior. Alcoholism, Clinical and Experimental Research. 29: 1706-19. PMID 16205371 DOI: 10.1097/01.alc.0000179209.44407.df  0.64
2005 Xiao XQ, Grove KL, Lau SY, McWeeney S, Smith MS. Deoxyribonucleic acid microarray analysis of gene expression pattern in the arcuate nucleus/ventromedial nucleus of hypothalamus during lactation. Endocrinology. 146: 4391-8. PMID 16002521 DOI: 10.1210/en.2005-0561  0.64
2005 Willis SG, Lange T, Demehri S, Otto S, Crossman L, Niederwieser D, Stoffregen EP, McWeeney S, Kovacs I, Park B, Druker BJ, Deininger MW. High-sensitivity detection of BCR-ABL kinase domain mutations in imatinib-naive patients: correlation with clonal cytogenetic evolution but not response to therapy. Blood. 106: 2128-37. PMID 15914554 DOI: 10.1182/blood-2005-03-1036  0.64
2004 Impey S, McCorkle SR, Cha-Molstad H, Dwyer JM, Yochum GS, Boss JM, McWeeney S, Dunn JJ, Mandel G, Goodman RH. Defining the CREB regulon: a genome-wide analysis of transcription factor regulatory regions. Cell. 119: 1041-54. PMID 15620361 DOI: 10.1016/j.cell.2004.10.032  0.64
2004 Hitzemann R, Reed C, Malmanger B, Lawler M, Hitzemann B, Cunningham B, McWeeney S, Belknap J, Harrington C, Buck K, Phillips T, Crabbe J. On the integration of alcohol-related quantitative trait loci and gene expression analyses. Alcoholism, Clinical and Experimental Research. 28: 1437-48. PMID 15597075 DOI: 10.1097/01.ALC.0000139827.86749.DA  0.64
2004 Reddy PH, McWeeney S, Park BS, Manczak M, Gutala RV, Partovi D, Jung Y, Yau V, Searles R, Mori M, Quinn J. Gene expression profiles of transcripts in amyloid precursor protein transgenic mice: Up-regulation of mitochondrial metabolism and apoptotic genes is an early cellular change in Alzheimer's disease Human Molecular Genetics. 13: 1225-1240. PMID 15115763 DOI: 10.1093/hmg/ddh140  0.64
2002 Kissinger JC, Brunk BP, Crabtree J, Fraunholz MJ, Gajria B, Milgram AJ, Pearson DS, Schug J, Bahl A, Diskin SJ, Ginsburg H, Grant GR, Gupta D, Labo P, Li L, ... ... McWeeney SK, et al. The Plasmodium genome database. Nature. 419: 490-2. PMID 12368860 DOI: 10.1038/419490a  0.64
2002 Scearce LM, Brestelli JE, McWeeney SK, Lee CS, Mazzarelli J, Pinney DF, Pizarro A, Stoeckert CJ, Clifton SW, Permutt MA, Brown J, Melton DA, Kaestner KH. Functional genomics of the endocrine pancreas: the pancreas clone set and PancChip, new resources for diabetes research. Diabetes. 51: 1997-2004. PMID 12086925  0.64
2002 Bahl A, Brunk B, Coppel RL, Crabtree J, Diskin SJ, Fraunholz MJ, Grant GR, Gupta D, Huestis RL, Kissinger JC, Labo P, Li L, McWeeney SK, Milgram AJ, Roos DS, et al. PlasmoDB: the Plasmodium genome resource. An integrated database providing tools for accessing, analyzing and mapping expression and sequence data (both finished and unfinished). Nucleic Acids Research. 30: 87-90. PMID 11752262  0.64
1999 Valdes AM, McWeeney SK, Meyer D, Nelson MP, Thomson G. Locus and population specific evolution in HLA class II genes. Annals of Human Genetics. 63: 27-43. PMID 10738519 DOI: 10.1017/S0003480099007289  0.64
1999 Valdes AM, McWeeney SK, Thomson G. Evidence for linkage and association to alcohol dependence on chromosome 19. Genetic Epidemiology. 17: S367-72. PMID 10597464  0.64
1999 Salamon H, Klitz W, Easteal S, Gao X, Erlich HA, Fernandez-Viña M, Trachtenberg EA, McWeeney SK, Nelson MP, Thomson G. Evolution of HLA class II molecules: Allelic and amino acid site variability across populations. Genetics. 152: 393-400. PMID 10224269  0.64
1999 McWeeney SK, Valdes AM. Codon usage bias and base composition in MHC genes in humans and common chimpanzees. Immunogenetics. 49: 272-9. PMID 10079290 DOI: 10.1007/s002510050493  0.64
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