Publications by authors named "Ying-Wooi Wan"

49Publications

A Portal to Visualize Transcriptome Profiles in Mouse Models of Neurological Disorders.

Genes (Basel) 2019 09 26;10(10). Epub 2019 Sep 26.

Department of Pediatrics, Baylor College of Medicine, Houston, TX 77030, USA.

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http://dx.doi.org/10.3390/genes10100759DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6826490PMC
September 2019

Complement C3aR Inactivation Attenuates Tau Pathology and Reverses an Immune Network Deregulated in Tauopathy Models and Alzheimer's Disease.

Neuron 2018 12 8;100(6):1337-1353.e5. Epub 2018 Nov 8.

Huffington Center on Aging, Baylor College of Medicine, Houston, TX 77030, USA; Integrative Molecular and Biomedical Sciences Program, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.neuron.2018.10.031DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6309202PMC
December 2018

Apparent bias toward long gene misregulation in MeCP2 syndromes disappears after controlling for baseline variations.

Nat Commun 2018 08 13;9(1):3225. Epub 2018 Aug 13.

Graduate Program in Quantitative and Computational Biosciences, Baylor College of Medicine, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1038/s41467-018-05627-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6089998PMC
August 2018

Loss of Capicua alters early T cell development and predisposes mice to T cell lymphoblastic leukemia/lymphoma.

Proc Natl Acad Sci U S A 2018 02 30;115(7):E1511-E1519. Epub 2018 Jan 30.

Jan and Dan Duncan Neurological Research Institute at Texas Children's Hospital, Houston, TX 77030;

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http://dx.doi.org/10.1073/pnas.1716452115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5816173PMC
February 2018

Data Analysis Pipeline for RNA-seq Experiments: From Differential Expression to Cryptic Splicing.

Curr Protoc Bioinformatics 2017 09 13;59:11.15.1-11.15.21. Epub 2017 Sep 13.

Bioinformatics Core, Jan and Dan Duncan Neurological Research Institute at Texas Children's Hospital, Houston, Texas.

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http://dx.doi.org/10.1002/cpbi.33DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6373869PMC
September 2017

MARRVEL: Integration of Human and Model Organism Genetic Resources to Facilitate Functional Annotation of the Human Genome.

Am J Hum Genet 2017 Jun 11;100(6):843-853. Epub 2017 May 11.

Program in Developmental Biology, Baylor College of Medicine (BCM), Houston, TX 77030, USA; Jan and Dan Duncan Neurological Research Institute, Texas Children's Hospital, Houston, TX 77030, USA; Department of Molecular and Human Genetics, BCM, Houston, TX 77030, USA; Howard Hughes Medical Institute, BCM, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ajhg.2017.04.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5670038PMC
June 2017

Comprehensive evaluation of RNA-seq quantification methods for linearity.

BMC Bioinformatics 2017 Mar 22;18(Suppl 4):117. Epub 2017 Mar 22.

Department of Pediatrics-Neurology, Jan and Dan Duncan Neurological Research Institute, Baylor College of Medicine, 1250 Moursund St., Suite 1325, Houston, 77030, TX, USA.

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http://dx.doi.org/10.1186/s12859-017-1526-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5374695PMC
March 2017

Transcriptional Regulation by ATOH1 and its Target SPDEF in the Intestine.

Cell Mol Gastroenterol Hepatol 2017 Jan 21;3(1):51-71. Epub 2016 Oct 21.

Integrative Molecular and Biomedical Sciences Graduate Program, Baylor College of Medicine, Houston, Texas; Division of Medicine, Section of Gastroenterology and Hepatology, Baylor College of Medicine, Houston, Texas.

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https://linkinghub.elsevier.com/retrieve/pii/S2352345X163012
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http://dx.doi.org/10.1016/j.jcmgh.2016.10.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5247424PMC
January 2017

XMRF: an R package to fit Markov Networks to high-throughput genetics data.

BMC Syst Biol 2016 08 26;10 Suppl 3:69. Epub 2016 Aug 26.

Computational and Integrative Biomedical Research Center, Baylor College of Medicine, Houston, Texas, USA.

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http://dx.doi.org/10.1186/s12918-016-0313-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5009817PMC
August 2016

Reversal of phenotypes in MECP2 duplication mice using genetic rescue or antisense oligonucleotides.

Nature 2015 Dec 25;528(7580):123-6. Epub 2015 Nov 25.

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

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http://dx.doi.org/10.1038/nature16159DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4839300PMC
December 2015

TCGA2STAT: simple TCGA data access for integrated statistical analysis in R.

Bioinformatics 2016 03 14;32(6):952-4. Epub 2015 Nov 14.

Computational and Integrative Biomedical Research Center, Department of Pediatrics-Neurology, Jan and Dan Duncan Neurological Research Institute, Texas Children's Hospital, Baylor College of Medicine, Houston, TX, USA.

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http://bioinformatics.oxfordjournals.org/content/early/2015/
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http://dx.doi.org/10.1093/bioinformatics/btv677DOI Listing
March 2016

A genome-wide screen for copy number alterations in an adolescent pilot cohort with müllerian anomalies.

Fertil Steril 2015 Feb 6;103(2):487-93. Epub 2014 Dec 6.

Department of Obstetrics and Gynecology, Baylor College of Medicine, Houston, Texas; Department of Pediatrics, Baylor College of Medicine, Houston, Texas. Electronic address:

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http://dx.doi.org/10.1016/j.fertnstert.2014.10.044DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4476902PMC
February 2015

Network-based identification of biomarkers coexpressed with multiple pathways.

Cancer Inform 2014 16;13(Suppl 5):37-47. Epub 2014 Oct 16.

Mary Babb Randolph Cancer Center/School of Public Health, West Virginia University, Morgantown, WV, USA.

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http://dx.doi.org/10.4137/CIN.S14054DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4218687PMC
November 2014

A drosophila genetic resource of mutants to study mechanisms underlying human genetic diseases.

Cell 2014 Sep;159(1):200-214

Program in Developmental Biology, Baylor College of Medicine (BCM), Houston, TX 77030, USA; Department of Molecular and Human Genetics, BCM, Houston, TX 77030, USA; Jan and Dan Duncan Neurological Research Institute, Houston, TX 77030, USA; Howard Hughes Medical Institute, Houston, TX 77030, USA; Program in Structural and Computational Biology and Molecular Biophysics, BCM, Houston, TX 77030, USA; Department of Neuroscience, BCM, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2014.09.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4298142PMC
September 2014

Serine catabolism regulates mitochondrial redox control during hypoxia.

Cancer Discov 2014 Dec 3;4(12):1406-17. Epub 2014 Sep 3.

Cancer Biology and Genetics Program and Immunology Program, Memorial Sloan Kettering Cancer Center, New York, New York.

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http://dx.doi.org/10.1158/2159-8290.CD-14-0250DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4258153PMC
December 2014

On the reproducibility of TCGA ovarian cancer microRNA profiles.

PLoS One 2014 29;9(1):e87782. Epub 2014 Jan 29.

Department of Pediatrics, Baylor College of Medicine, Houston, Texas, United States of America ; Dan L. Duncan Cancer Center, Baylor College of Medicine, Houston, Texas, United States of America ; Computational and Integrative Biomedical Research (CIBR) Center, Baylor College of Medicine, Houston, Texas, United States of America ; Neurological Research Institute, Texas Children's Hospital, Houston, Texas, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0087782PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3906208PMC
October 2014

Combinatorial therapy discovery using mixed integer linear programming.

Bioinformatics 2014 May 24;30(10):1456-63. Epub 2014 Jan 24.

Computational and Integrative Biomedical Research Center, Baylor College of Medicine, Jan and Dan Duncan Neurological Research Institute, Texas Children's Hospital, Department of Pediatrics-Neurology, Department of Obstetrics and Gynaecology, Department of Molecular Virology and Microbiology, Baylor College of Medicine, School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX 77030, USA, and Department of Cancer Biology, University of Pennsylvania, Philadelphia, PA 19104, USA.

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http://dx.doi.org/10.1093/bioinformatics/btu046DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4016706PMC
May 2014

Expression and functional pathway analysis of nuclear receptor NR2F2 in ovarian cancer.

J Clin Endocrinol Metab 2013 Jul 20;98(7):E1152-62. Epub 2013 May 20.

Departments of Obstetrics and Gynecology, The Dan L Duncan Cancer Center, Baylor College of Medicine, The Methodist Hospital, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1210/jc.2013-1081DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3701283PMC
July 2013

Digital sorting of complex tissues for cell type-specific gene expression profiles.

BMC Bioinformatics 2013 Mar 7;14:89. Epub 2013 Mar 7.

Department of Pediatrics, Neurological Research Institute, Baylor College of Medicine, Houston, TX, USA.

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http://dx.doi.org/10.1186/1471-2105-14-89DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3626856PMC
March 2013

A smoking-associated 7-gene signature for lung cancer diagnosis and prognosis.

Int J Oncol 2012 Oct 16;41(4):1387-96. Epub 2012 Jul 16.

Mary Randolph Cancer Center, West Virginia University, Morgantown, WV 26506, USA.

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http://dx.doi.org/10.3892/ijo.2012.1556DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3481011PMC
October 2012

Pathway-based identification of a smoking associated 6-gene signature predictive of lung cancer risk and survival.

Artif Intell Med 2012 Jun 11;55(2):97-105. Epub 2012 Feb 11.

Department of Community Medicine, West Virginia University, Morgantown, WV 26506, USA.

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http://dx.doi.org/10.1016/j.artmed.2012.01.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3351561PMC
June 2012

Signaling pathway-based identification of extensive prognostic gene signatures for lung adenocarcinoma.

Lung Cancer 2012 Apr 1;76(1):98-105. Epub 2011 Nov 1.

Department of Community Medicine/Mary Babb Randolph Cancer Center, West Virginia University, Morgantown, WV 26506-9300, USA.

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http://dx.doi.org/10.1016/j.lungcan.2011.09.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3274612PMC
April 2012

A novel network model identified a 13-gene lung cancer prognostic signature.

Int J Comput Biol Drug Des 2011 17;4(1):19-39. Epub 2011 Feb 17.

Mary Babb Randolph Cancer Centre, Department of Community Medicine, West Virginia University, Morgantown, WV 26506-9300, USA.

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http://dx.doi.org/10.1504/IJCBDD.2011.038655DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3095973PMC
May 2011

A 12-gene genomic instability signature predicts clinical outcomes in multiple cancer types.

Int J Biol Markers 2010 Oct-Dec;25(4):219-28

Mary Babb Randolph Cancer Center/Community Medicine, West Virginia University, Morgantown, WV, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3155635PMC
http://dx.doi.org/10.5301/jbm.2010.6079DOI Listing
April 2011

Network-Based Identification of Smoking-Associated Gene Signature for Lung Cancer.

Proceedings (IEEE Int Conf Bioinformatics Biomed) 2010 Dec;2010:479-484

Mary Babb Randolph Cancer Center, West Virginia University, Morgantown, WV 26506-9300.

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http://dx.doi.org/10.1109/BIBM.2010.5706613DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4429297PMC
December 2010

Hybrid models identified a 12-gene signature for lung cancer prognosis and chemoresponse prediction.

PLoS One 2010 Aug 17;5(8):e12222. Epub 2010 Aug 17.

Mary Babb Randolph Cancer Center, West Virginia University, Morgantown, West Virginia, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0012222PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2923187PMC
August 2010

A breast cancer prognostic signature predicts clinical outcomes in multiple tumor types.

Oncol Rep 2010 Aug;24(2):489-94

Mary Babb Randolph Cancer Center/Community Medicine, West Virginia University, Morgantown, WV 26506-9300, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3095949PMC
http://dx.doi.org/10.3892/or_00000883DOI Listing
August 2010

A Novel Network Model for Molecular Prognosis.

ACM Int Conf Bioinform Comput Biol (2010) 2010;2010:342-345

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4440690PMC
http://dx.doi.org/10.1145/1854776.1854825DOI Listing
January 2010

An integrative genomic and proteomic approach to chemosensitivity prediction.

Int J Oncol 2009 Jan;34(1):107-15

Mary Babb Randolph Cancer Center, West Virginia University, Morgantown, WV 26506-9300, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2667126PMC
http://dx.doi.org/10.3892/ijo_00000134DOI Listing
January 2009