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Reconstruction of Networks with Direct and Indirect Genetic Effects.

Kruijer W, Behrouzi P, Bustos-Korts D, Rodríguez-Álvarez MX, Mahdi Mahmoudi S, Yandell B, Wit E, van Eeuwijk FA.

Genetics. 2020 Feb 3. pii: genetics.302949.2019. doi: 10.1534/genetics.119.302949. [Epub ahead of print]


Genetic determinants of gut microbiota composition and bile acid profiles in mice.

Kemis JH, Linke V, Barrett KL, Boehm FJ, Traeger LL, Keller MP, Rabaglia ME, Schueler KL, Stapleton DS, Gatti DM, Churchill GA, Amador-Noguez D, Russell JD, Yandell BS, Broman KW, Coon JJ, Attie AD, Rey FE.

PLoS Genet. 2019 Aug 29;15(8):e1008073. doi: 10.1371/journal.pgen.1008073. eCollection 2019 Aug.


Gene loci associated with insulin secretion in islets from non-diabetic mice.

Keller MP, Rabaglia ME, Schueler KL, Stapleton DS, Gatti DM, Vincent M, Mitok KA, Wang Z, Ishimura T, Simonett SP, Emfinger CH, Das R, Beck T, Kendziorski C, Broman KW, Yandell BS, Churchill GA, Attie AD.

J Clin Invest. 2019 Jul 25;130:4419-4432. doi: 10.1172/JCI129143.


Testing Pleiotropy vs. Separate QTL in Multiparental Populations.

Boehm FJ, Chesler EJ, Yandell BS, Broman KW.

G3 (Bethesda). 2019 Jul 9;9(7):2317-2324. doi: 10.1534/g3.119.400098.


R/qtl2: Software for Mapping Quantitative Trait Loci with High-Dimensional Data and Multiparent Populations.

Broman KW, Gatti DM, Simecek P, Furlotte NA, Prins P, Sen Ś, Yandell BS, Churchill GA.

Genetics. 2019 Feb;211(2):495-502. doi: 10.1534/genetics.118.301595. Epub 2018 Dec 27.


Genetic Drivers of Pancreatic Islet Function.

Keller MP, Gatti DM, Schueler KL, Rabaglia ME, Stapleton DS, Simecek P, Vincent M, Allen S, Broman AT, Bacher R, Kendziorski C, Broman KW, Yandell BS, Churchill GA, Attie AD.

Genetics. 2018 May;209(1):335-356. doi: 10.1534/genetics.118.300864. Epub 2018 Mar 22.


Dissecting the Genetic Architecture of Shoot Growth in Carrot (Daucus carota L.) Using a Diallel Mating Design.

Turner SD, Maurizio PL, Valdar W, Yandell BS, Simon PW.

G3 (Bethesda). 2018 Feb 2;8(2):411-426. doi: 10.1534/g3.117.300235.


Host Genotype and Gut Microbiome Modulate Insulin Secretion and Diet-Induced Metabolic Phenotypes.

Kreznar JH, Keller MP, Traeger LL, Rabaglia ME, Schueler KL, Stapleton DS, Zhao W, Vivas EI, Yandell BS, Broman AT, Hagenbuch B, Attie AD, Rey FE.

Cell Rep. 2017 Feb 14;18(7):1739-1750. doi: 10.1016/j.celrep.2017.01.062.


The Transcription Factor Nfatc2 Regulates β-Cell Proliferation and Genes Associated with Type 2 Diabetes in Mouse and Human Islets.

Keller MP, Paul PK, Rabaglia ME, Stapleton DS, Schueler KL, Broman AT, Ye SI, Leng N, Brandon CJ, Neto EC, Plaisier CL, Simonett SP, Kebede MA, Sheynkman GM, Klein MA, Baliga NS, Smith LM, Broman KW, Yandell BS, Kendziorski C, Attie AD.

PLoS Genet. 2016 Dec 9;12(12):e1006466. doi: 10.1371/journal.pgen.1006466. eCollection 2016 Dec.


Fine Mapping of a QTL Associated with Kernel Row Number on Chromosome 1 of Maize.

Calderón CI, Yandell BS, Doebley JF.

PLoS One. 2016 Mar 1;11(3):e0150276. doi: 10.1371/journal.pone.0150276. eCollection 2016.


The Dissection of Expression Quantitative Trait Locus Hotspots.

Tian J, Keller MP, Broman AT, Kendziorski C, Yandell BS, Attie AD, Broman KW.

Genetics. 2016 Apr;202(4):1563-74. doi: 10.1534/genetics.115.183624. Epub 2016 Feb 2.


Improving Congestive Heart Failure Care with a Clinical Decision Unit.

Carpenter JE, Short N, Williams TE, Yandell B, Bowers MT.

Nurs Econ. 2015 Sep-Oct;33(5):255-62.


Identification of the Bile Acid Transporter Slco1a6 as a Candidate Gene That Broadly Affects Gene Expression in Mouse Pancreatic Islets.

Tian J, Keller MP, Oler AT, Rabaglia ME, Schueler KL, Stapleton DS, Broman AT, Zhao W, Kendziorski C, Yandell BS, Hagenbuch B, Broman KW, Attie AD.

Genetics. 2015 Nov;201(3):1253-62. doi: 10.1534/genetics.115.179432. Epub 2015 Sep 18.


Genetic control of obesity, glucose homeostasis, dyslipidemia and fatty liver in a mouse model of diet-induced metabolic syndrome.

Sinasac DS, Riordan JD, Spiezio SH, Yandell BS, Croniger CM, Nadeau JH.

Int J Obes (Lond). 2016 Feb;40(2):346-55. doi: 10.1038/ijo.2015.184. Epub 2015 Sep 18.


Identification and Correction of Sample Mix-Ups in Expression Genetic Data: A Case Study.

Broman KW, Keller MP, Broman AT, Kendziorski C, Yandell BS, Sen Ś, Attie AD.

G3 (Bethesda). 2015 Aug 19;5(10):2177-86. doi: 10.1534/g3.115.019778.


Spink2 modulates apoptotic susceptibility and is a candidate gene in the Rgcs1 QTL that affects retinal ganglion cell death after optic nerve damage.

Dietz JA, Maes ME, Huang S, Yandell BS, Schlamp CL, Montgomery AD, Allingham RR, Hauser MA, Nickells RW.

PLoS One. 2014 Apr 3;9(4):e93564. doi: 10.1371/journal.pone.0093564. eCollection 2014.


QTL mapping of powdery mildew resistance in WI 2757 cucumber (Cucumis sativus L.).

He X, Li Y, Pandey S, Yandell BS, Pathak M, Weng Y.

Theor Appl Genet. 2013 Aug;126(8):2149-61. doi: 10.1007/s00122-013-2125-6. Epub 2013 May 21.


Modeling causality for pairs of phenotypes in system genetics.

Neto EC, Broman AT, Keller MP, Attie AD, Zhang B, Zhu J, Yandell BS.

Genetics. 2013 Mar;193(3):1003-13. doi: 10.1534/genetics.112.147124. Epub 2013 Jan 3.


Integrative analysis of a cross-loci regulation network identifies App as a gene regulating insulin secretion from pancreatic islets.

Tu Z, Keller MP, Zhang C, Rabaglia ME, Greenawalt DM, Yang X, Wang IM, Dai H, Bruss MD, Lum PY, Zhou YP, Kemp DM, Kendziorski C, Yandell BS, Attie AD, Schadt EE, Zhu J.

PLoS Genet. 2012;8(12):e1003107. doi: 10.1371/journal.pgen.1003107. Epub 2012 Dec 6.


A quantitative map of the liver mitochondrial phosphoproteome reveals posttranslational control of ketogenesis.

Grimsrud PA, Carson JJ, Hebert AS, Hubler SL, Niemi NM, Bailey DJ, Jochem A, Stapleton DS, Keller MP, Westphall MS, Yandell BS, Attie AD, Coon JJ, Pagliarini DJ.

Cell Metab. 2012 Nov 7;16(5):672-83. doi: 10.1016/j.cmet.2012.10.004.


Quantile-based permutation thresholds for quantitative trait loci hotspots.

Neto EC, Keller MP, Broman AF, Attie AD, Jansen RC, Broman KW, Yandell BS.

Genetics. 2012 Aug;191(4):1355-65. doi: 10.1534/genetics.112.139451. Epub 2012 Jun 1.


Tsc2, a positional candidate gene underlying a quantitative trait locus for hepatic steatosis.

Wang CY, Stapleton DS, Schueler KL, Rabaglia ME, Oler AT, Keller MP, Kendziorski CM, Broman KW, Yandell BS, Schadt EE, Attie AD.

J Lipid Res. 2012 Aug;53(8):1493-501. doi: 10.1194/jlr.M025239. Epub 2012 May 23.


Genome scans for transmission ratio distortion regions in mice.

Casellas J, Gularte RJ, Farber CR, Varona L, Mehrabian M, Schadt EE, Lusis AJ, Attie AD, Yandell BS, Medrano JF.

Genetics. 2012 May;191(1):247-59. doi: 10.1534/genetics.111.135988. Epub 2012 Feb 23.


Genetic mapping of paternal sorting of mitochondria in cucumber.

Calderon CI, Yandell BS, Havey MJ.

Theor Appl Genet. 2012 Jun;125(1):11-8. doi: 10.1007/s00122-012-1812-z. Epub 2012 Feb 21.


Positional cloning of a type 2 diabetes quantitative trait locus; tomosyn-2, a negative regulator of insulin secretion.

Bhatnagar S, Oler AT, Rabaglia ME, Stapleton DS, Schueler KL, Truchan NA, Worzella SL, Stoehr JP, Clee SM, Yandell BS, Keller MP, Thurmond DC, Attie AD.

PLoS Genet. 2011 Oct;7(10):e1002323. doi: 10.1371/journal.pgen.1002323. Epub 2011 Oct 6.


A model selection approach for expression quantitative trait loci (eQTL) mapping.

Wang P, Dawson JA, Keller MP, Yandell BS, Thornberry NA, Zhang BB, Wang IM, Schadt EE, Attie AD, Kendziorski C.

Genetics. 2011 Feb;187(2):611-21. doi: 10.1534/genetics.110.122796. Epub 2010 Nov 29.


FoxM1 is up-regulated by obesity and stimulates beta-cell proliferation.

Davis DB, Lavine JA, Suhonen JI, Krautkramer KA, Rabaglia ME, Sperger JM, Fernandez LA, Yandell BS, Keller MP, Wang IM, Schadt EE, Attie AD.

Mol Endocrinol. 2010 Sep;24(9):1822-34. doi: 10.1210/me.2010-0082. Epub 2010 Jul 21.


Cholecystokinin is up-regulated in obese mouse islets and expands beta-cell mass by increasing beta-cell survival.

Lavine JA, Raess PW, Stapleton DS, Rabaglia ME, Suhonen JI, Schueler KL, Koltes JE, Dawson JA, Yandell BS, Samuelson LC, Beinfeld MC, Davis DB, Hellerstein MK, Keller MP, Attie AD.

Endocrinology. 2010 Aug;151(8):3577-88. doi: 10.1210/en.2010-0233. Epub 2010 Jun 9.


Evaluation of different computed tomography techniques and myelography for the diagnosis of acute canine myelopathy.

Dennison SE, Drees R, Rylander H, Yandell BS, Milovancev M, Pettigrew R, Schwarz T.

Vet Radiol Ultrasound. 2010 May-Jun;51(3):254-8.


Liver and adipose expression associated SNPs are enriched for association to type 2 diabetes.

Zhong H, Beaulaurier J, Lum PY, Molony C, Yang X, Macneil DJ, Weingarth DT, Zhang B, Greenawalt D, Dobrin R, Hao K, Woo S, Fabre-Suver C, Qian S, Tota MR, Keller MP, Kendziorski CM, Yandell BS, Castro V, Attie AD, Kaplan LM, Schadt EE.

PLoS Genet. 2010 May 6;6(5):e1000932. doi: 10.1371/journal.pgen.1000932.


Effect of anesthesia, positioning, time, and feeding on the proventriculus: keel ratio of clinically healthy parrots.

Dennison SE, Paul-Murphy JR, Yandell BS, Adams WM.

Vet Radiol Ultrasound. 2010 Mar-Apr;51(2):141-4.


Transcriptomic profiling of bovine IVF embryos revealed candidate genes and pathways involved in early embryonic development.

Huang W, Yandell BS, Khatib H.

BMC Genomics. 2010 Jan 11;11:23. doi: 10.1186/1471-2164-11-23.


Prognostic accuracy of the proventriculus: keel ratio for short-term survival in psittacines with proventricular disease.

Dennison SE, Adams WM, Johnson PJ, Yandell BS, Paul-Murphy JR.

Vet Radiol Ultrasound. 2009 Sep-Oct;50(5):483-6.


Obesity and genetics regulate microRNAs in islets, liver, and adipose of diabetic mice.

Zhao E, Keller MP, Rabaglia ME, Oler AT, Stapleton DS, Schueler KL, Neto EC, Moon JY, Wang P, Wang IM, Lum PY, Ivanovska I, Cleary M, Greenawalt D, Tsang J, Choi YJ, Kleinhanz R, Shang J, Zhou YP, Howard AD, Zhang BB, Kendziorski C, Thornberry NA, Yandell BS, Schadt EE, Attie AD.

Mamm Genome. 2009 Aug;20(8):476-85. doi: 10.1007/s00335-009-9217-2.


Major QTL for carrot color are positionally associated with carotenoid biosynthetic genes and interact epistatically in a domesticated x wild carrot cross.

Just BJ, Santos CA, Yandell BS, Simon PW.

Theor Appl Genet. 2009 Nov;119(7):1155-69. doi: 10.1007/s00122-009-1117-z. Epub 2009 Aug 6.


Single gene and gene interaction effects on fertilization and embryonic survival rates in cattle.

Khatib H, Huang W, Wang X, Tran AH, Bindrim AB, Schutzkus V, Monson RL, Yandell BS.

J Dairy Sci. 2009 May;92(5):2238-47. doi: 10.3168/jds.2008-1767.


A model selection approach for the identification of quantitative trait loci in experimental crosses, allowing epistasis.

Manichaikul A, Moon JY, Sen S, Yandell BS, Broman KW.

Genetics. 2009 Mar;181(3):1077-86. doi: 10.1534/genetics.108.094565. Epub 2008 Dec 22. Erratum in: Genetics. 2010 Feb;184(2):607.


Bayesian quantitative trait loci mapping for multiple traits.

Banerjee S, Yandell BS, Yi N.

Genetics. 2008 Aug;179(4):2275-89. doi: 10.1534/genetics.108.088427. Epub 2008 Aug 9.


Rgcs1, a dominant QTL that affects retinal ganglion cell death after optic nerve crush in mice.

Dietz JA, Li Y, Chung LM, Yandell BS, Schlamp CL, Nickells RW.

BMC Neurosci. 2008 Jul 31;9:74. doi: 10.1186/1471-2202-9-74.


Inferring causal phenotype networks from segregating populations.

Chaibub Neto E, Ferrara CT, Attie AD, Yandell BS.

Genetics. 2008 Jun;179(2):1089-100. doi: 10.1534/genetics.107.085167. Epub 2008 May 27.


Genetic networks of liver metabolism revealed by integration of metabolic and transcriptional profiling.

Ferrara CT, Wang P, Neto EC, Stevens RD, Bain JR, Wenner BR, Ilkayeva OR, Keller MP, Blasiole DA, Kendziorski C, Yandell BS, Newgard CB, Attie AD.

PLoS Genet. 2008 Mar 14;4(3):e1000034. doi: 10.1371/journal.pgen.1000034. Erratum in: PLoS Genet. 2008 Jul;4(7). doi: 10.1371/annotation/7989839d-0677-4f59-a218-f4ebb6fd0b66.


A gene expression network model of type 2 diabetes links cell cycle regulation in islets with diabetes susceptibility.

Keller MP, Choi Y, Wang P, Davis DB, Rabaglia ME, Oler AT, Stapleton DS, Argmann C, Schueler KL, Edwards S, Steinberg HA, Chaibub Neto E, Kleinhanz R, Turner S, Hellerstein MK, Schadt EE, Yandell BS, Kendziorski C, Attie AD.

Genome Res. 2008 May;18(5):706-16. doi: 10.1101/gr.074914.107. Epub 2008 Mar 17.


Major regulatory genes in maize contribute to standing variation in teosinte (Zea mays ssp. parviglumis).

Weber A, Clark RM, Vaughn L, Sánchez-Gonzalez Jde J, Yu J, Yandell BS, Bradbury P, Doebley J.

Genetics. 2007 Dec;177(4):2349-59. Epub 2007 Oct 18.


Phenotypic and transcriptomic changes associated with potato autopolyploidization.

Stupar RM, Bhaskar PB, Yandell BS, Rensink WA, Hart AL, Ouyang S, Veilleux RE, Busse JS, Erhardt RJ, Buell CR, Jiang J.

Genetics. 2007 Aug;176(4):2055-67. Epub 2007 Jun 11.


Saccharomyces cerevisiae vacuole in zinc storage and intracellular zinc distribution.

Simm C, Lahner B, Salt D, LeFurgey A, Ingram P, Yandell B, Eide DJ.

Eukaryot Cell. 2007 Jul;6(7):1166-77. Epub 2007 May 25.


Bayesian mapping of genomewide interacting quantitative trait loci for ordinal traits.

Yi N, Banerjee S, Pomp D, Yandell BS.

Genetics. 2007 Jul;176(3):1855-64. Epub 2007 May 16.


An efficient Bayesian model selection approach for interacting quantitative trait loci models with many effects.

Yi N, Shriner D, Banerjee S, Mehta T, Pomp D, Yandell BS.

Genetics. 2007 Jul;176(3):1865-77. Epub 2007 May 4.


SORCS1: a novel human type 2 diabetes susceptibility gene suggested by the mouse.

Goodarzi MO, Lehman DM, Taylor KD, Guo X, Cui J, Quiñones MJ, Clee SM, Yandell BS, Blangero J, Hsueh WA, Attie AD, Stern MP, Rotter JI.

Diabetes. 2007 Jul;56(7):1922-9. Epub 2007 Apr 10.

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