Xiting Yan

Xiting Yan

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Xiting Yan

Xiting Yan

Publications by authors named "Xiting Yan"

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29Publications

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Integrating multiomics longitudinal data to reconstruct networks underlying lung development.

Am J Physiol Lung Cell Mol Physiol 2019 Nov 21;317(5):L556-L568. Epub 2019 Aug 21.

Division of Neonatology, Department of Pediatrics, University of Alabama at Birmingham, Birmingham, Alabama.

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http://dx.doi.org/10.1152/ajplung.00554.2018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6879899PMC
November 2019

Characterisation of asthma subgroups associated with circulating YKL-40 levels.

Eur Respir J 2017 10 12;50(4). Epub 2017 Oct 12.

Section of Pulmonary, Critical Care Medicine and Sleep and Dept of Internal Medicine, Yale University School of Medicine, New Haven, CT, USA

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http://dx.doi.org/10.1183/13993003.00800-2017DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5967238PMC
October 2017

A novel pathway-based distance score enhances assessment of disease heterogeneity in gene expression.

BMC Bioinformatics 2017 Jun 20;18(1):309. Epub 2017 Jun 20.

Center for Pulmonary Personalized Medicine, Section of Pulmonary, Critical Care, and Sleep Medicine, Department of Internal Medicine, Yale School of Medicine, New Haven, CT, 06520, USA.

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http://dx.doi.org/10.1186/s12859-017-1727-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5480187PMC
June 2017

Collapsing-based and kernel-based single-gene analyses applied to Genetic Analysis Workshop 17 mini-exome data.

BMC Proc 2011 29;5 Suppl 9:S117. Epub 2011 Nov 29.

Division of Biostatistics, Yale School of Public Health, Yale University, 60 College St., PO Box 208034, New Haven, CT 06520-8034, USA.

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http://dx.doi.org/10.1186/1753-6561-5-S9-S117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3287841PMC
April 2015

T cell-intrinsic role of IL-6 signaling in primary and memory responses.

Elife 2014 May 19;3:e01949. Epub 2014 May 19.

Department of Immunobiology, Yale University School of Medicine, New Haven, United States Howard Hughes Medical Institute, Yale University School of Medicine, New Haven, United States

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http://dx.doi.org/10.7554/eLife.01949DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4046568PMC
May 2014

An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge.

Authors:
Catherine A Brownstein Alan H Beggs Nils Homer Barry Merriman Timothy W Yu Katherine C Flannery Elizabeth T DeChene Meghan C Towne Sarah K Savage Emily N Price Ingrid A Holm Lovelace J Luquette Elaine Lyon Joseph Majzoub Peter Neupert David McCallie Peter Szolovits Huntington F Willard Nancy J Mendelsohn Renee Temme Richard S Finkel Sabrina W Yum Livija Medne Shamil R Sunyaev Ivan Adzhubey Christopher A Cassa Paul I W de Bakker Hatice Duzkale Piotr Dworzyński William Fairbrother Laurent Francioli Birgit H Funke Monica A Giovanni Robert E Handsaker Kasper Lage Matthew S Lebo Monkol Lek Ignaty Leshchiner Daniel G MacArthur Heather M McLaughlin Michael F Murray Tune H Pers Paz P Polak Soumya Raychaudhuri Heidi L Rehm Rachel Soemedi Nathan O Stitziel Sara Vestecka Jochen Supper Claudia Gugenmus Bernward Klocke Alexander Hahn Max Schubach Mortiz Menzel Saskia Biskup Peter Freisinger Mario Deng Martin Braun Sven Perner Richard J H Smith Janeen L Andorf Jian Huang Kelli Ryckman Val C Sheffield Edwin M Stone Thomas Bair E Ann Black-Ziegelbein Terry A Braun Benjamin Darbro Adam P DeLuca Diana L Kolbe Todd E Scheetz Aiden E Shearer Rama Sompallae Kai Wang Alexander G Bassuk Erik Edens Katherine Mathews Steven A Moore Oleg A Shchelochkov Pamela Trapane Aaron Bossler Colleen A Campbell Jonathan W Heusel Anne Kwitek Tara Maga Karin Panzer Thomas Wassink Douglas Van Daele Hela Azaiez Kevin Booth Nic Meyer Michael M Segal Marc S Williams Gerard Tromp Peter White Donald Corsmeier Sara Fitzgerald-Butt Gail Herman Devon Lamb-Thrush Kim L McBride David Newsom Christopher R Pierson Alexander T Rakowsky Aleš Maver Luca Lovrečić Anja Palandačić Borut Peterlin Ali Torkamani Anna Wedell Mikael Huss Andrey Alexeyenko Jessica M Lindvall Måns Magnusson Daniel Nilsson Henrik Stranneheim Fulya Taylan Christian Gilissen Alexander Hoischen Bregje van Bon Helger Yntema Marcel Nelen Weidong Zhang Jason Sager Lu Zhang Kathryn Blair Deniz Kural Michael Cariaso Greg G Lennon Asif Javed Saloni Agrawal Pauline C Ng Komal S Sandhu Shuba Krishna Vamsi Veeramachaneni Ofer Isakov Eran Halperin Eitan Friedman Noam Shomron Gustavo Glusman Jared C Roach Juan Caballero Hannah C Cox Denise Mauldin Seth A Ament Lee Rowen Daniel R Richards F Anthony San Lucas Manuel L Gonzalez-Garay C Thomas Caskey Yu Bai Ying Huang Fang Fang Yan Zhang Zhengyuan Wang Jorge Barrera Juan M Garcia-Lobo Domingo González-Lamuño Javier Llorca Maria C Rodriguez Ignacio Varela Martin G Reese Francisco M De La Vega Edward Kiruluta Michele Cargill Reece K Hart Jon M Sorenson Gholson J Lyon David A Stevenson Bruce E Bray Barry M Moore Karen Eilbeck Mark Yandell Hongyu Zhao Lin Hou Xiaowei Chen Xiting Yan Mengjie Chen Cong Li Can Yang Murat Gunel Peining Li Yong Kong Austin C Alexander Zayed I Albertyn Kym M Boycott Dennis E Bulman Paul M K Gordon A Micheil Innes Bartha M Knoppers Jacek Majewski Christian R Marshall Jillian S Parboosingh Sarah L Sawyer Mark E Samuels Jeremy Schwartzentruber Isaac S Kohane David M Margulies

Genome Biol 2014 Mar 25;15(3):R53. Epub 2014 Mar 25.

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http://dx.doi.org/10.1186/gb-2014-15-3-r53DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4073084PMC
March 2014

Signaling through the adaptor molecule MyD88 in CD4+ T cells is required to overcome suppression by regulatory T cells.

Immunity 2014 Jan;40(1):78-90

Department of Immunobiology, Yale University, New Haven, CT 06519, USA; Howard Hughes Medical Institute, School of Medicine, Yale University, New Haven, CT 06519, USA. Electronic address:

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http://dx.doi.org/10.1016/j.immuni.2013.10.023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4445716PMC
January 2014

Modeling RNA degradation for RNA-Seq with applications.

Biostatistics 2012 Sep 21;13(4):734-47. Epub 2012 Feb 21.

Molecular and Computational Biology Program, University of Southern California, Los Angeles, CA 90089, USA.

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http://dx.doi.org/10.1093/biostatistics/kxs001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3616752PMC
September 2012

Dealing with high dimensionality for the identification of common and rare variants as main effects and for gene-environment interaction.

Genet Epidemiol 2011 ;35 Suppl 1:S35-40

Department of Genetic Epidemiology, University Medical Center Göttingen, Göttingen, Germany.

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http://dx.doi.org/10.1002/gepi.20647DOI Listing
May 2012

Use of Bayesian networks to dissect the complexity of genetic disease: application to the Genetic Analysis Workshop 17 simulated data.

BMC Proc 2011 Nov 29;5 Suppl 9:S37. Epub 2011 Nov 29.

Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, PO Box 208009, New Haven, CT 06520-8114, USA.

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http://dx.doi.org/10.1186/1753-6561-5-S9-S37DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3287873PMC
November 2011

Large-scale risk prediction applied to Genetic Analysis Workshop 17 mini-exome sequence data.

BMC Proc 2011 Nov 29;5 Suppl 9:S46. Epub 2011 Nov 29.

Department of Epidemiology and Public Health, Yale University, 60 College Street, New Haven, CT 06520, USA.

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http://dx.doi.org/10.1186/1753-6561-5-S9-S46DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3287883PMC
November 2011

On optimal pooling designs to identify rare variants through massive resequencing.

Genet Epidemiol 2011 Apr 19;35(3):139-47. Epub 2011 Jan 19.

Department of Epidemiology and Public Health, Yale University, New Haven, Connecticut, USA.

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http://dx.doi.org/10.1002/gepi.20561DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3176340PMC
April 2011

Progressive recruitment of Runx2 to genomic targets despite decreasing expression during osteoblast differentiation.

J Cell Biochem 2008 Nov;105(4):965-70

Department of Biochemistry & Molecular Biology, University of Southern California, Los Angeles, California, USA.

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http://dx.doi.org/10.1002/jcb.21900DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2591066PMC
November 2008

Testing gene set enrichment for subset of genes: Sub-GSE.

BMC Bioinformatics 2008 Sep 2;9:362. Epub 2008 Sep 2.

Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089-2910, USA.

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http://dx.doi.org/10.1186/1471-2105-9-362DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2543030PMC
September 2008

Inferring activity changes of transcription factors by binding association with sorted expression profiles.

BMC Bioinformatics 2007 Nov 16;8:452. Epub 2007 Nov 16.

Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089-2910, USA.

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http://bmcbioinformatics.biomedcentral.com/articles/10.1186/
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http://dx.doi.org/10.1186/1471-2105-8-452DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2194743PMC
November 2007

MARD: a new method to detect differential gene expression in treatment-control time courses.

Bioinformatics 2006 Nov 23;22(21):2650-7. Epub 2006 Aug 23.

Molecular and Computational Biology Program, Department of Biological Sciences, Computational Biology, University of Southern California Los Angeles, CA, USA.

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http://dx.doi.org/10.1093/bioinformatics/btl451DOI Listing
November 2006

Detecting differentially expressed genes by relative entropy.

J Theor Biol 2005 Jun 24;234(3):395-402. Epub 2005 Jan 24.

LMAM, School of Mathematical Sciences and Center for Theoretical Biology, Peking University, Beijing 100871, China.

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http://linkinghub.elsevier.com/retrieve/pii/S002251930400599
Publisher Site
http://dx.doi.org/10.1016/j.jtbi.2004.11.039DOI Listing
June 2005