Author details

Full Name

Douglas H Phanstiel

Affiliation

University of North Carolina at Chapel Hill

ORCID

Career Start Year

2006

Papers

H Index

Expertise

CM4AI Collaborator

Nathan Sheffield (CM4AI)

PMID	Paper Title	Journal Title	Published Year
37067481	excluderanges: exclusion sets for T2T-CHM13, GRCm39, and other genome assemblies.	Bioinformatics	2023
38023330	Guiding the design of well-powered Hi-C experiments to detect differential loops.	Bioinform Adv	2023
36993250	Guiding the design of well-powered Hi-C experiments to detect differential loops.	bioRxiv	2023
37084270	matchRanges: generating null hypothesis genomic ranges via covariate-matched sampling.	Bioinformatics	2023
37280210	Chromatin alternates between A and B compartments at kilobase scale for subgenic organization.	Nat Commun	2023
37042725	bootRanges: flexible generation of null sets of genomic ranges for hypothesis testing.	Bioinformatics	2023
37436897	Proximity-dependent recruitment of Polycomb repressive complexes by the lncRNA Airn.	Cell Rep	2023
35134826	Plotgardener: cultivating precise multi-panel figures in R.	Bioinformatics	2022
35427897	Oncogenic fusion proteins and their role in three-dimensional chromatin structure, phase separation, and cancer.	Curr Opin Genet Dev	2022
35459147	Synthetic amyloid beta does not induce a robust transcriptional response in innate immune cell culture systems.	J Neuroinflammation	2022
36699364	CTCF: an R/bioconductor data package of human and mouse CTCF binding sites.	Bioinform Adv	2022
35869079	A multi-omic dissection of super-enhancer driven oncogenic gene expression programs in ovarian cancer.	Nat Commun	2022
36099032	3D chromatin structure in chondrocytes identifies putative osteoarthritis risk genes.	Genetics	2022
36323252	Temporal analysis suggests a reciprocal relationship between 3D chromatin structure and transcription.	Cell Rep	2022
35221113	Cell type-specific chromatin topology and gene regulation.	Trends Genet	2022
33248223	Transcriptional response of human articular chondrocytes treated with fibronectin fragments: an in vitro model of the osteoarthritis phenotype.	Osteoarthritis Cartilage	2021
34163069	Phase separation drives aberrant chromatin looping and cancer development.	Nature	2021
31984958	Mapping Alzheimer's Disease Variants to Their Target Genes Using Computational Analysis of Chromatin Configuration.	J Vis Exp	2020
31903446	CoralP: Flexible visualization of the human phosphatome.	J Open Source Softw	2019
31903447	Bedtoolsr: An R package for genomic data analysis and manipulation.	J Open Source Softw	2019
30172842	Coral: Clear and Customizable Visualization of Human Kinome Data.	Cell Syst	2018
28890333	Static and Dynamic DNA Loops form AP-1-Bound Activation Hubs during Macrophage Development.	Mol Cell	2017
28931413	Topological organization and dynamic regulation of human tRNA genes during macrophage differentiation.	Genome Biol	2017
26034063	Mango: a bias-correcting ChIA-PET analysis pipeline.	Bioinformatics	2015
26300125	Genetic Control of Chromatin States in Humans Involves Local and Distal Chromosomal Interactions.	Cell	2015
24903420	Sushi.R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures.	Bioinformatics	2014
25228660	Genome-wide map of regulatory interactions in the human genome.	Genome Res	2014
23830146	Whole-exome sequencing identifies tetratricopeptide repeat domain 7A (TTC7A) mutations for combined immunodeficiency with intestinal atresias.	J Allergy Clin Immunol	2013
21393638	Higher-energy collision-activated dissociation without a dedicated collision cell.	Mol Cell Proteomics	2011
21999516	Proteomics and pluripotency.	Crit Rev Biochem Mol Biol	2011
21963608	Gas-phase purification enables accurate, multiplexed proteome quantification with isobaric tagging.	Nat Methods	2011
21983960	Proteomic and phosphoproteomic comparison of human ES and iPS cells.	Nat Methods	2011
21298793	COMPASS: a suite of pre- and post-search proteomics software tools for OMSSA.	Proteomics	2011
19938823	Analysis of tandem mass spectra by FTMS for improved large-scale proteomics with superior protein quantification.	Anal Chem	2010
19154110	Peptide quantification using 8-plex isobaric tags and electron transfer dissociation tandem mass spectrometry.	Anal Chem	2009
18326628	Mass spectrometry identifies and quantifies 74 unique histone H4 isoforms in differentiating human embryonic stem cells.	Proc Natl Acad Sci U S A	2008
18849650	Unraveling the histone's potential: a proteomics perspective.	Epigenetics	2008
18547137	A mouse to human search for plasma proteome changes associated with pancreatic tumor development.	PLoS Med	2008
18620867	Peptide and protein quantification using iTRAQ with electron transfer dissociation.	J Am Soc Mass Spectrom	2008
18613715	A proteomics grade electron transfer dissociation-enabled hybrid linear ion trap-orbitrap mass spectrometer.	J Proteome Res	2008
17441688	Implementation of electron-transfer dissociation on a hybrid linear ion trap-orbitrap mass spectrometer.	Anal Chem	2007
18089831	Identification of 14-3-3 theta as an antigen that induces a humoral response in lung cancer.	Cancer Res	2007
17696519	Contribution of protein fractionation to depth of analysis of the serum and plasma proteomes.	J Proteome Res	2007
16889424	Quantitative analysis of acrylamide labeled serum proteins by LC-MS/MS.	J Proteome Res	2006

1 - 44 of 44

Yunjiang Qiu

Ludwig Institute for Cancer Research, University of California

Career Start Year 2015

Number of shared co-authors 0

Hailiang Mei

Leiden University Medical Center

Career Start Year 2014

Number of shared co-authors 0

Kathleen M Fisch

Center for Computational Biology and Bioinformatics, University of California

Career Start Year 2009

Number of shared co-authors 0

Venkat S Malladi

UT Southwestern Medical Center

Career Start Year 2008

Number of shared co-authors 4

Chongzhi Zang

Center for Public Health Genomics, University of Virginia

Career Start Year 2008

Number of shared co-authors 3

Harmen J G van de Werken

Department of Immunology Erasmus University Medical Center

Career Start Year 2006

Number of shared co-authors 0

Yue Lu

The University of Texas MD Anderson Cancer Center

Career Start Year 2006

Number of shared co-authors 0

Joshua W K Ho

The University of Hong Kong

Career Start Year 2006

Number of shared co-authors 1

Altuna Akalin

Berlin Institute for Medical Systems Biology

Career Start Year 2006

Number of shared co-authors 0

Songjoon Baek

Center for Cancer Research, National Cancer Institute

Career Start Year 2006

Number of shared co-authors 1

Jun S Song

University of Illinois at Urbana-Champaign

Career Start Year 2005

Number of shared co-authors 1

Christoph Bock

CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences

Career Start Year 2005

Number of shared co-authors 2

Kun Qu

University of Science and Technology of China

Career Start Year 2005

Number of shared co-authors 1

Arnaud Droit

Centre de Recherche du CHU de Quebec-Universite, Universite Laval

Career Start Year 2005

Number of shared co-authors 1

Shannan J Ho Sui

Harvard T.H. Chan School of Public Health

Career Start Year 2004

Number of shared co-authors 0

Christopher Benner

Michigan State University College of Human Medicine

Career Start Year 2004

Number of shared co-authors 1

Shyam Prabhakar

Genome Institute of Singapore (GIS)

Career Start Year 2004

Number of shared co-authors 0

Lihua Jiang

Stanford University

Career Start Year 2004

Number of shared co-authors 9

Zhandong Liu

Jan and Dan Duncan Neurological Research Institute at Texas Children's Hospital

Career Start Year 2003

Number of shared co-authors 0

Michael J Buck

Jacobs School of Medicine and Biomedical Sciences, University at Buffalo

Career Start Year 2002

Number of shared co-authors 0

Olivier Elemento

Meyer Cancer Center

Career Start Year 2002

Number of shared co-authors 0

Peter J Park

Harvard Medical School

Career Start Year 2001

Number of shared co-authors 6

Terrence S Furey

University of North Carolina at Chapel Hill

Career Start Year 2000

Number of shared co-authors 4

Guo-Cheng Yuan

Dana-Farber Cancer Institute, Harvard School of Public Health

Career Start Year 2000

Number of shared co-authors 1

Stefan Bekiranov

University of Virginia

Career Start Year 2000

Number of shared co-authors 1

Kai Tan

University of Pennsylvania

Career Start Year 1999

Number of shared co-authors 0

Martin Hirst

University of British Columbia

Career Start Year 1998

Number of shared co-authors 3

Bing Ren

Center for Epigenomics, University of California San Diego

Career Start Year 1995

Number of shared co-authors 3

Alistair R R Forrest

RIKEN Center for Integrative Medical Sciences

Career Start Year 1994

Number of shared co-authors 0

Bradley E Bernstein

Broad Institute of MIT and Harvard

Career Start Year 1994

Number of shared co-authors 3

row(s) 1 - 30 of 30

Michael I Love

University of North Carolina at Chapel Hill

Co-authored papers 7

Michael Snyder

Stanford University

Co-authored papers 7

Craig D Wenger

University of Wisconsin

Co-authored papers 6

Mikhail G Dozmorov

Virginia Commonwealth University

Co-authored papers 4

Qing Zhang

Beijing Hospital of Traditional Chinese Medicine, Capital Medical University

Co-authored papers 4

Samir M Hanash

University of Texas MD Anderson Cancer Center

Co-authored papers 4

Erez Lieberman Aiden

Co-authored papers 3

James A Thomson

Co-authored papers 3

Sharon J Pitteri

Stanford University

Co-authored papers 2

Alan P Boyle

University of Michigan ann arbor

Co-authored papers 2

Hyejung Won

Co-authored papers 2

Danielle L Swaney

J. David Gladstone Institutes

Co-authored papers 2

Ghia Euskirchen

Co-authored papers 2

Nathan Sheffield (CM4AI)

University of Virginia

Co-authored papers 1

Samuel G Mackintosh

Co-authored papers 1

Karen L Mohlke

Co-authored papers 1

Joel S Parker

Lineberger Cancer Center, University of North Carolina

Co-authored papers 1

Anshul Kundaje

Stanford University.

Co-authored papers 1

Rohith Srivas

Amgen Inc.

Co-authored papers 1

Renee C Ireton

Center for Innate Immunity and Immune Disease, University of Washington

Co-authored papers 1

Richard D Unwin

Co-authored papers 1

Nabeel Bardeesy

Massachusetts General Hospital

Co-authored papers 1

Timothy J Triche

Center for Epigenetics, Van Andel Research Institute

Co-authored papers 1

Joshua Chuck Harrell

Virginia Commonwealth University

Co-authored papers 1

Muhammad S Shamim

Co-authored papers 1

Victor Ruotti

Co-authored papers 1

Wolfgang Huber

Technische Universitat Munchen

Co-authored papers 1

Michael Q Zhang

Co-authored papers 1

William Stafford Noble

Co-authored papers 1

Jimmy K Eng

University of Washington

Co-authored papers 1

1 - 30

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