Publications by authors named "Matthew T Weirauch"

100Publications

Super-enhancer switching drives a burst in gene expression at the mitosis-to-meiosis transition.

Nat Struct Mol Biol 2020 Sep 7. Epub 2020 Sep 7.

Division of Reproductive Sciences, Division of Developmental Biology, Perinatal Institute, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41594-020-0488-3DOI Listing
September 2020

Sox17 and β-catenin co-occupy Wnt-responsive enhancers to govern the endoderm gene regulatory network.

Elife 2020 Sep 7;9. Epub 2020 Sep 7.

Center for Stem Cell and Organoid Medicine (CuSTOM), Division of Developmental Biology, Perinatal Institute, Cincinnati Children's Hospital Medical Center, Cincinnati, United States.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.7554/eLife.58029DOI Listing
September 2020

Human Virus Transcriptional Regulators.

Cell 2020 Jul;182(1):24-37

Biology Department, Boston University, Boston, MA 02215, USA; Bioinformatics Program, Boston University, Boston, MA 02215, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.cell.2020.06.023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7346790PMC
July 2020

Type I interferon sensing unlocks dormant adipocyte inflammatory potential.

Nat Commun 2020 06 2;11(1):2745. Epub 2020 Jun 2.

Medical Scientist Training Program, Cincinnati Children's Hospital Medical Center and the University of Cincinnati College of Medicine, Cincinnati, OH, 45220, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41467-020-16571-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7265526PMC
June 2020

Glucocorticoid regulates mesenchymal cell differentiation required for perinatal lung morphogenesis and function.

Am J Physiol Lung Cell Mol Physiol 2020 Aug 27;319(2):L239-L255. Epub 2020 May 27.

Perinatal Institute, Section of Pulmonary Biology, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1152/ajplung.00459.2019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7473939PMC
August 2020

The Promise and Peril of Natural Killer Cell Therapies in Pulmonary Infection.

Immunity 2020 Jun 13;52(6):887-889. Epub 2020 May 13.

Center for Autoimmune Genomics and Etiology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA; Immunology Graduate Program, University of Cincinnati College of Medicine, Cincinnati, OH, USA; Medical Scientist Training Program, University of Cincinnati College of Medicine, Cincinnati, OH, USA; Pathobiology and Molecular Medicine Graduate Program, University of Cincinnati College of Medicine, Cincinnati, OH, USA; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.immuni.2020.04.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7219410PMC
June 2020

Molecular mechanisms underlying milk production and viviparity in the cockroach, Diploptera punctata.

Insect Biochem Mol Biol 2020 05 29;120:103333. Epub 2020 Feb 29.

Department of Biological Sciences, University of Cincinnati, Cincinnati, OH, 45221, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ibmb.2020.103333DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7293887PMC
May 2020

The genetic etiology of eosinophilic esophagitis.

J Allergy Clin Immunol 2020 01;145(1):9-15

Department of Pediatrics, University of Cincinnati, College of Medicine, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio; Division of Human Genetics, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.jaci.2019.11.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6984394PMC
January 2020

Variants in the fetal genome near pro-inflammatory cytokine genes on 2q13 associate with gestational duration.

Nat Commun 2019 09 2;10(1):3927. Epub 2019 Sep 2.

Department of Epidemiology Research, Statens Serum Institut, Copenhagen, Denmark.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41467-019-11881-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6718389PMC
September 2019

Similarity regression predicts evolution of transcription factor sequence specificity.

Nat Genet 2019 06 27;51(6):981-989. Epub 2019 May 27.

Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41588-019-0411-1DOI Listing
June 2019

Molecular evolutionary trends and feeding ecology diversification in the Hemiptera, anchored by the milkweed bug genome.

Genome Biol 2019 04 2;20(1):64. Epub 2019 Apr 2.

Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s13059-019-1660-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6444547PMC
April 2019

Enrichment of Genomic Pathways Based on Differential DNA Methylation Associated With Chronic Postsurgical Pain and Anxiety in Children: A Prospective, Pilot Study.

J Pain 2019 07 9;20(7):771-785. Epub 2019 Jan 9.

Department of Environmental Health, University of Cincinnati; Division of Asthma Research, Cincinnati Children's Hospital, Cincinnati, Ohio.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.jpain.2018.12.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6616015PMC
July 2019

Defective transcription elongation in a subset of cancers confers immunotherapy resistance.

Nat Commun 2018 10 23;9(1):4410. Epub 2018 Oct 23.

Division of Experimental Hematology and Cancer Biology, Cancer and Blood Diseases Institute, Cincinnati Children's Hospital Medical Center (CCHMC), Cincinnati, 45229, OH, USA.

View Article

Download full-text PDF

Source
http://www.nature.com/articles/s41467-018-06810-0
Publisher Site
http://dx.doi.org/10.1038/s41467-018-06810-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6199328PMC
October 2018

Genetic variants with gene regulatory effects are associated with diisocyanate-induced asthma.

J Allergy Clin Immunol 2018 09 30;142(3):959-969. Epub 2018 Jun 30.

Center for Autoimmune Genomics and Etiology, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, Ohio; Cincinnati VA Medical Center, Cincinnati, Ohio.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.jaci.2018.06.022DOI Listing
September 2018

A plausibly causal functional lupus-associated risk variant in the STAT1-STAT4 locus.

Hum Mol Genet 2018 07;27(13):2392-2404

Center for Autoimmune Genomics and Etiology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/hmg/ddy140DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6005081PMC
July 2018

Neurospora crassa developmental control mediated by the FLB-3 transcription factor.

Fungal Biol 2018 06 1;122(6):570-582. Epub 2018 Mar 1.

Departamento de Bioquímica e Tecnologia Química, Instituto de Química, UNESP, Universidade Estadual Paulista, 14800-060, Araraquara, SP, Brazil. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.funbio.2018.01.004DOI Listing
June 2018

Nasal DNA methylation is associated with childhood asthma.

Epigenomics 2018 05 25;10(5):629-641. Epub 2018 Apr 25.

Pyrosequencing Lab for Genomic & Epigenomic Research, Cincinnati, Children's Hospital Medical Center, Cincinnati, OH 45229, USA.

View Article

Download full-text PDF

Source
https://www.futuremedicine.com/doi/10.2217/epi-2017-0127
Publisher Site
http://dx.doi.org/10.2217/epi-2017-0127DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5992571PMC
May 2018

Degenerate Pax2 and Senseless binding motifs improve detection of low-affinity sites required for enhancer specificity.

PLoS Genet 2018 04 4;14(4):e1007289. Epub 2018 Apr 4.

Division of Developmental Biology, Cincinnati Children's Hospital, MLC, Cincinnati, OH, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pgen.1007289DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5902045PMC
April 2018

The Human Transcription Factors.

Cell 2018 02;172(4):650-665

Center for Autoimmune Genomics and Etiology (CAGE), Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, USA; Divisions of Biomedical Informatics and Developmental Biology, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, USA; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, Ohio, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.cell.2018.01.029DOI Listing
February 2018

The Epstein-Barr Virus B-ZIP Protein Zta Recognizes Specific DNA Sequences Containing 5-Methylcytosine and 5-Hydroxymethylcytosine.

Biochemistry 2017 11 10;56(47):6200-6210. Epub 2017 Nov 10.

Center for Autoimmune Genomics and Etiology and Division of Biomedical Informatics, Cincinnati Children's Hospital Medical Center, and Department of Pediatrics, University of Cincinnati College of Medicine , Cincinnati, Ohio 45229, United States.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1021/acs.biochem.7b00741DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5907473PMC
November 2017

Nasal DNA methylation differentiates corticosteroid treatment response in pediatric asthma: A pilot study.

PLoS One 2017 13;12(10):e0186150. Epub 2017 Oct 13.

Pyrosequencing lab for genomic and epigenomic research, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, United States of America.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0186150PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5640236PMC
October 2017

Analysis of chromatin accessibility in human epidermis identifies putative barrier dysfunction-sensing enhancers.

PLoS One 2017 27;12(9):e0184500. Epub 2017 Sep 27.

Division of Developmental Biology, Department of Pediatrics, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, United States of America.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0184500PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5617145PMC
October 2017

Non-base-contacting residues enable kaleidoscopic evolution of metazoan C2H2 zinc finger DNA binding.

Genome Biol 2017 09 6;18(1):167. Epub 2017 Sep 6.

Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, ON, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s13059-017-1287-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5588721PMC
September 2017

Genetic Associations with Gestational Duration and Spontaneous Preterm Birth.

N Engl J Med 2017 09 6;377(12):1156-1167. Epub 2017 Sep 6.

From the Division of Human Genetics (G.Z., L.J.M.), Center for Autoimmune Genomics and Etiology (M.T.W., D.E.M., X.C., C.R.F., L.C.K.) and the Divisions of Biomedical Informatics and Developmental Biology (M.T.W.), Cincinnati Children's Hospital Medical Center, and the Center for Prevention of Preterm Birth, Perinatal Institute, Cincinnati Children's Hospital Medical Center and March of Dimes Prematurity Research Center Ohio Collaborative (G.Z., L.M.M., M.P., J.M.H., L.J.M.), Cincinnati; the Department of Epidemiology Research, Statens Serum Institut (B.F., X.L., F.G., H.A.B., M.M.), and the Department of Clinical Medicine, University of Copenhagen (M.M.), Copenhagen, and the Research Unit of Gynecology and Obstetrics, Institute of Clinical Research, University of Southern Denmark, Odense (E.A.N.) - all in Denmark; the Department of Obstetrics and Gynecology, Sahlgrenska University Hospital Östra (J.B., V.S.), the Department of Obstetrics and Gynecology, Institute of Clinical Sciences (J.J.), and the Department of Obstetrics and Gynecology (B.J.), Sahlgrenska Academy, University of Gothenburg, Gothenburg, Sweden; 23andMe, Mountain View (N.L., P.-P.J., L.R., D.A.H., Y.H.), and the Department of Medicine, Stanford University School of Medicine, Stanford (M.M.) - both in California; the Department of Ecology and Evolutionary Biology, Yale University (A.R.C., G.P.W., M.C.N., J.M.), and the Department of Obstetrics, Gynecology, and Reproductive Sciences, Yale Medical School (G.P.W.), New Haven, and the Yale Systems Biology Institute, West Haven (A.R.C., G.P.W., M.C.N., J.M.) - all in Connecticut; the Department of Obstetrics and Gynecology, Wayne State University, Detroit (G.P.W.); the PEDEGO Research Unit and Medical Research Center Oulu, University of Oulu, and the Department of Children and Adolescents, Oulu University Hospital, Oulu (M.K.K., M.R., J.M.H., M.H.), and the Institute for Molecular Medicine Finland, University of Helsinki (A.P.), and Obstetrics and Gynecology, University of Helsinki and Helsinki University Hospital (K.T.), Helsinki - all in Finland; the Analytic and Translational Genetics Unit, Department of Medicine, the Psychiatric and Neurodevelopmental Genetics Unit, Department of Psychiatry, and the Department of Neurology, Massachusetts General Hospital, Boston (A.P.), and the Program in Medical and Population Genetics and the Stanley Center for Psychiatric Research, Broad Institute of the Massachusetts Institute of Technology and Harvard, Cambridge (A.P.) - both in Massachusetts; the Departments of Pediatrics (A.M., B.B.) and Epidemiology (K.K.R.), College of Public Health, and the Department of Pediatrics (K.K.R.), Carver College of Medicine, University of Iowa, Iowa City; the Medical Research Council Integrative Epidemiology Unit at the University of Bristol, School of Social and Community Medicine, University of Bristol, Bristol, United Kingdom (G.D.S.); and the Department of Genetics and Bioinformatics, Area of Health Data and Digitalization, Norwegian Institute of Public Health, Oslo (B.J.).

View Article

Download full-text PDF

Source
http://www.nejm.org/doi/10.1056/NEJMoa1612665
Publisher Site
http://dx.doi.org/10.1056/NEJMoa1612665DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5561422PMC
September 2017

A FOXO1-induced oncogenic network defines the AML1-ETO preleukemic program.

Blood 2017 09 14;130(10):1213-1222. Epub 2017 Jul 14.

Division of Experimental Hematology and Cancer Biology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1182/blood-2016-11-750976DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5606002PMC
September 2017

Temporal, spatial, and phenotypical changes of PDGFRα expressing fibroblasts during late lung development.

Dev Biol 2017 05 11;425(2):161-175. Epub 2017 Apr 11.

Perinatal Institute, Division of Pulmonary Biology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229-3039, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ydbio.2017.03.020DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5492510PMC
May 2017

Paternally Inherited DLK1 Deletion Associated With Familial Central Precocious Puberty.

J Clin Endocrinol Metab 2017 05;102(5):1557-1567

Unidade de Endocrinologia do Desenvolvimento, Laboratório de Hormônios e Genética Molecular/LIM42, Hospital das Clínicas, Disciplina de Endocrinologia, Faculdade de Medicina da Universidade de São Paulo, São Paulo 01246-093, Brazil.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1210/jc.2016-3677DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5443333PMC
May 2017

Requirement for Dicer in Maintenance of Monosynaptic Sensory-Motor Circuits in the Spinal Cord.

Cell Rep 2016 11;17(9):2163-2172

Division of Developmental Biology, Cincinnati Children's Hospital Medical Center, 3333 Burnet Avenue, Cincinnati, OH 45229, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.celrep.2016.10.083DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5152923PMC
November 2016

5-Hydroxymethylcytosine in E-box motifs ACAT|GTG and ACAC|GTG increases DNA-binding of the B-HLH transcription factor TCF4.

Integr Biol (Camb) 2016 09 3;8(9):936-45. Epub 2016 Aug 3.

Laboratory of Metabolism, National Cancer Institute, National Institutes of Health, Room 3128, Building 37, Bethesda, MD 20892, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1039/c6ib00079gDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6289052PMC
September 2016

Multiple layers of transcriptional regulation by PLZF in NKT-cell development.

Proc Natl Acad Sci U S A 2016 07 20;113(27):7602-7. Epub 2016 Jun 20.

Committee on Immunology, University of Chicago, Chicago, IL 60637; Department of Pathology, University of Chicago, Chicago, IL 60637;

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1073/pnas.1601504113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4941452PMC
July 2016

: a user-friendly web resource for genome-scale exploration of gene regulation in .

Curr Plant Biol 2015 Sep-Dec;3-4:48-55

Center for Autoimmune Genomics and Etiology, Cincinnati Children's Hospital Medical Center, Department of Pediatrics, College of Medicine, University of Cincinnati, Cincinnati, OH 45229; Division of Biomedical Informatics and Division of Developmental Biology, Cincinnati Children's Hospital Medical Center, Department of Pediatrics, College of Medicine, University of Cincinnati, Cincinnati, OH 45229.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.cpb.2015.09.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4740912PMC
February 2016

Unique features of a global human ectoparasite identified through sequencing of the bed bug genome.

Nat Commun 2016 Feb 2;7:10165. Epub 2016 Feb 2.

Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/ncomms10165DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4740739PMC
February 2016

Affinity regression predicts the recognition code of nucleic acid-binding proteins.

Nat Biotechnol 2015 Dec 16;33(12):1242-1249. Epub 2015 Nov 16.

Computational Biology Program, Memorial Sloan Kettering Cancer Center, New York, New York, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nbt.3343DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4871164PMC
December 2015

Transcription Factor Repertoire of Homeostatic Eosinophilopoiesis.

J Immunol 2015 Sep 12;195(6):2683-95. Epub 2015 Aug 12.

Division of Allergy and Immunology, Department of Pediatrics, Cincinnati Children's Hospital Medical Center, University of Cincinnati College of Medicine, Cincinnati, OH 45229;

View Article

Download full-text PDF

Source
http://dx.doi.org/10.4049/jimmunol.1500510DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4561201PMC
September 2015

Predicting the sequence specificities of DNA- and RNA-binding proteins by deep learning.

Nat Biotechnol 2015 Aug 27;33(8):831-8. Epub 2015 Jul 27.

1] Department of Electrical and Computer Engineering, University of Toronto, Toronto, Ontario, Canada. [2] Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada. [3] Canadian Institute for Advanced Research, Programs on Genetic Networks and Neural Computation, Toronto, Ontario, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nbt.3300DOI Listing
August 2015

GABPα Binding to Overlapping ETS and CRE DNA Motifs Is Enhanced by CREB1: Custom DNA Microarrays.

G3 (Bethesda) 2015 Jul 16;5(9):1909-18. Epub 2015 Jul 16.

Laboratory of Metabolism, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892

View Article

Download full-text PDF

Source
http://g3journal.org/lookup/doi/10.1534/g3.115.020248
Publisher Site
http://dx.doi.org/10.1534/g3.115.020248DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4555227PMC
July 2015

Divergence of transcriptional landscape occurs early in B cell activation.

Epigenetics Chromatin 2015 14;8:20. Epub 2015 May 14.

Department of Developmental, Chemical and Molecular Biology, Sackler School of Biomedical Science, Tufts University School of Medicine, 150 Harrison Avenue, Boston, MA 02111 USA.

View Article

Download full-text PDF

Source
http://www.epigeneticsandchromatin.com/content/8/1/20
Publisher Site
http://dx.doi.org/10.1186/s13072-015-0012-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4434543PMC
May 2015

MiR-125a targets effector programs to stabilize Treg-mediated immune homeostasis.

Nat Commun 2015 May 12;6:7096. Epub 2015 May 12.

1] State Key Laboratory of Oncogenes and Related Genes, Shanghai Cancer Institute, Renji Hospital, Shanghai Jiaotong University School of Medicine, Shanghai 200032, China [2] Joint Molecular Rheumatology Laboratory of the Institute of Health Sciences and Shanghai Renji Hospital, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, and Shanghai Jiaotong University School of Medicine, Shanghai 200025, China [3] Center for Autoimmune Genomics and Etiology (CAGE) and Divisions of Rheumatology, Cincinnati Children's Hospital Medical Center, Cincinnati Ohio 45229, USA [4] Collaborative Innovation Center of Systems Biomedicine, Shanghai Jiaotong University, Shanghai 200240, China.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/ncomms8096DOI Listing
May 2015

C2H2 zinc finger proteins greatly expand the human regulatory lexicon.

Nat Biotechnol 2015 May 18;33(5):555-62. Epub 2015 Feb 18.

1] Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada. [2] Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada. [3] Canadian Institutes for Advanced Research, Toronto, Ontario, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nbt.3128DOI Listing
May 2015

Meta-analysis of differential gene co-expression: application to lupus.

Pac Symp Biocomput 2015 :443-54

Lindner College of Business, University of Cincinnati, 2925 Campus Green Dr., Cincinnati, OH 45221, USA.

View Article

Download full-text PDF

Source
April 2016

Making it big in allergy.

J Allergy Clin Immunol 2015 Jan;135(1):43-5

Division of Allergy and Immunology, Cincinnati Children's Hospital Medical Center, University of Cincinnati College of Medicine, Cincinnati, Ohio. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.jaci.2014.10.041DOI Listing
January 2015

DREAMTools: a Python package for scoring collaborative challenges.

F1000Res 2015 9;4:1030. Epub 2015 Oct 9.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI),Wellcome Trust Genome Campus, Cambridge, UK; RWTH Aachen University Medical Hospital, Joint Research Centre for Computational Biomedicine (JRCCOMBINE), Aachen, Germany.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.12688/f1000research.7118.2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4837986PMC
May 2016

The IRF5-TNPO3 association with systemic lupus erythematosus has two components that other autoimmune disorders variably share.

Hum Mol Genet 2015 Jan 8;24(2):582-96. Epub 2014 Sep 8.

Division of Rheumatology, Center for Autoimmune Genomics and Etiology and US Department of Veterans Affairs Medical Center, Cincinnati, OH, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/hmg/ddu455DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4275071PMC
January 2015

Myeloid malignancies with chromosome 5q deletions acquire a dependency on an intrachromosomal NF-κB gene network.

Cell Rep 2014 Sep 4;8(5):1328-38. Epub 2014 Sep 4.

Division of Experimental Hematology and Cancer Biology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA; Department of Cancer Biology, University of Cincinnati College of Medicine, Cincinnati, OH 45267, USA. Electronic address:

View Article

Download full-text PDF

Source
https://linkinghub.elsevier.com/retrieve/pii/S22111247140066
Publisher Site
http://dx.doi.org/10.1016/j.celrep.2014.07.062DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4237069PMC
September 2014

DNA methylation dynamics during ex vivo differentiation and maturation of human dendritic cells.

Epigenetics Chromatin 2014 20;7:21. Epub 2014 Aug 20.

Division of Asthma Research, Cincinnati Children's Hospital Medical Center, 3333 Burnet Ave, Cincinnati, OH 45229, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1756-8935-7-21DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4144987PMC
August 2014

Whole exome sequencing for familial bicuspid aortic valve identifies putative variants.

Circ Cardiovasc Genet 2014 Oct 1;7(5):677-83. Epub 2014 Aug 1.

From the Department of Pediatrics, Cincinnati Children's Hospital Medical Center, OH (L.J.M., V.P., K.M.K., L.C.K., M.K., P.D., M.T.W.); Department of Pediatrics, University of Cincinnati School of Medicine, Cincinnati OH (L.J.M., K.M.K., M.K., M.T.W.); Department of Pediatrics, Nationwide Children's Hospital, The Ohio State University, Columbus (L.C.); Herma Heart Center, Children's Hospital of Wisconsin, Milwaukee (D.W.B.); and Department of Pediatrics, Medical College of Wisconsin, Milwaukee (D.W.B.).

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1161/CIRCGENETICS.114.000526DOI Listing
October 2014

Quantifying inter-laboratory variability in stable isotope analysis of ancient skeletal remains.

PLoS One 2014 25;9(7):e102844. Epub 2014 Jul 25.

Center for Autoimmune Genomics and Etiology, and Divisions of Biomedical Informatics and Developmental Biology, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, United States of America.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0102844PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4111498PMC
April 2015

The 253-kb inversion and deep intronic mutations in UNC13D are present in North American patients with familial hemophagocytic lymphohistiocytosis 3.

Pediatr Blood Cancer 2014 Jun 28;61(6):1034-40. Epub 2014 Jan 28.

Division of Human Genetics, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio; Department of Pediatrics, University of Cincinnati School of Medicine, Cincinnati, Ohio.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/pbc.24955DOI Listing
June 2014

Transcription factor binding to Caenorhabditis elegans first introns reveals lack of redundancy with gene promoters.

Nucleic Acids Res 2014 Jan 24;42(1):153-62. Epub 2013 Sep 24.

Program in Systems Biology, Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01605, USA, Center for Autoimmune Genomics and Etiology (CAGE), Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA and Divisions of Rheumatology and Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkt858DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3874175PMC
January 2014

Early evolution of the T-box transcription factor family.

Proc Natl Acad Sci U S A 2013 Oct 16;110(40):16050-5. Epub 2013 Sep 16.

Institut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), 08003 Barcelona, Spain.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3791752PMC
http://dx.doi.org/10.1073/pnas.1309748110DOI Listing
October 2013

Structural basis for recognition of AT-rich DNA by unrelated xenogeneic silencing proteins.

Proc Natl Acad Sci U S A 2011 Jun 14;108(26):10690-5. Epub 2011 Jun 14.

Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada M5S 1A8.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1073/pnas.1102544108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3127928PMC
June 2011

A catalogue of eukaryotic transcription factor types, their evolutionary origin, and species distribution.

Subcell Biochem 2011 ;52:25-73

Banting and Best Department of Medical Research, Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, ON, M5S 3E1, Canada,

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-90-481-9069-0_3DOI Listing
April 2016

Dramatic changes in transcription factor binding over evolutionary time.

Genome Biol 2010 1;11(6):122. Epub 2010 Jun 1.

Banting and Best Department of Medical Research and Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, ON M5S 3E1, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/gb-2010-11-6-122DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2911098PMC
November 2010

Conserved expression without conserved regulatory sequence: the more things change, the more they stay the same.

Trends Genet 2010 Feb 18;26(2):66-74. Epub 2010 Jan 18.

Banting and Best Department of Medical Research and Donnelly Centre for Cellular and Biomolecular Research, Ontario, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.tig.2009.12.002DOI Listing
February 2010

Identification of conserved regulatory elements in mammalian promoter regions: a case study using the PCK1 promoter.

Genomics Proteomics Bioinformatics 2008 Dec;6(3-4):129-43

Bovine Functional Genomics Laboratory, Beltsville Agricultural Research Center, Beltsville, MD 20705, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/S1672-0229(09)60001-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5054123PMC
December 2008

Transcriptional map of respiratory versatility in the hyperthermophilic crenarchaeon Pyrobaculum aerophilum.

J Bacteriol 2009 Feb 1;191(3):782-94. Epub 2008 Dec 1.

Department of Ocean Sciences, University of California Santa Cruz, 1156 High Street, Santa Cruz, California 95064, USA.

View Article

Download full-text PDF

Source
http://jb.asm.org/content/191/3/782.full.pdf
Web Search
http://jb.asm.org/lookup/doi/10.1128/JB.00965-08
Publisher Site
http://dx.doi.org/10.1128/JB.00965-08DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2632070PMC
February 2009

Information-based methods for predicting gene function from systematic gene knock-downs.

BMC Bioinformatics 2008 Oct 29;9:463. Epub 2008 Oct 29.

Department of Biomolecular Engineering, University of California, Santa Cruz, CA 95064, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-9-463DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2596148PMC
October 2008