John A. Stamatoyannopoulos

发表

Integrative analysis of 111 reference human epigenomes Open

David Haussler, Michael Q. Zhang, Gerald T. Quon, 2015, Nat..

The impact of rare variation on gene expression across tissues

Gao Wang, Mary Goldman, Brian Craft, 2016, Nature.

Analysis of Sequence Conservation at Nucleotide Resolution

Mikhail A. Roytberg, John A. Stamatoyannopoulos, Shamil R. Sunyaev, 2007, PLoS Comput. Biol..

BEDOPS: high-performance genomic feature operations

Richard S. Sandstrom, Shane J. Neph, Robert E. Thurman, 2012, Bioinform..

Unsupervised segmentation of continuous genomic data

William Stafford Noble, Robert E. Thurman, John A. Stamatoyannopoulos, 2007, Bioinform..

Multi-Scale Correlations in Continuous Genomic Data

William Stafford Noble, Robert E. Thurman, John A. Stamatoyannopoulos, 2007, Pacific Symposium on Biocomputing.

Automated validation of polymerase chain reactions using amplicon melting curves

William Stafford Noble, John A. Stamatoyannopoulos, Tobias P. Mann, 2005, 2005 IEEE Computational Systems Bioinformatics Conference (CSB'05).

Automated Validation of Polymerase Chain Reaction Amplicon Melting Curves

William Stafford Noble, John A. Stamatoyannopoulos, Tobias P. Mann, 2006, J. Bioinform. Comput. Biol..

Predicting the in vivo signature of human gene regulatory sequence

William Stafford Noble, Robert E. Thurman, John A. Stamatoyannopoulos, 2005, ISMB.

eFORGE v2.0: updated analysis of cell type-specific signal in epigenomic data

Andrew E. Teschendorff, Shane J. Neph, John A. Stamatoyannopoulos, 2019, Bioinform..

Topologically associating domains are stable units of replication-timing regulation

Yanli Wang, Tamer Kahveci, Yong Cheng, 2014, Nature.

RFECS: A Random-Forest Based Algorithm for Enhancer Identification from Chromatin State

Wei Xie, Yan Li, Manolis Kellis, 2013, PLoS Comput. Biol..

Automated mapping of large-scale chromatin structure in ENCODE

William Stafford Noble, Heng Lian, Robert E. Thurman, 2008, Bioinform..

Operating on Genomic Ranges Using BEDOPS

Shane J. Neph, John A. Stamatoyannopoulos, Alex P. Reynolds, 2016, Statistical Genomics.

Predicting Human Nucleosome Occupancy from Primary Sequence

William Stafford Noble, Jonathan H. Dennis, Robert E. Thurman, 2008, PLoS Comput. Biol..

Cell-of-origin chromatin organization shapes the mutational landscape of cancer

Paz Polak, John A. Stamatoyannopoulos, Shamil R. Sunyaev, 2015, Nature.

Conservation of trans-acting circuitry during mammalian regulatory evolution

Elhanan Borenstein, R. Scott Hansen, Peter J. Sabo, 2014, Nature.

Perspectives on ENCODE

Xintao Wei, Christopher B. Burge, Jason Liu, 2020, Nature.

An Integrative Framework for Detecting Structural Variations in Cancer Genomes

William Stafford Noble, Feng Yue, Jesse R. Dixon, 2017, bioRxiv.

Cell-type-specific long-range looping interactions identify distant regulatory elements of the CFTR gene

John A. Stamatoyannopoulos, Ian Dunham, Job Dekker, 2010, Nucleic acids research.

Domains of genome-wide gene expression dysregulation in Down’s syndrome

Stylianos E. Antonarakis, Laurent Farinelli, Richard S. Sandstrom, 2014, Nature.

clusters of distal regulatory elements Diverse gene reprogramming events occur in the same spatial Material

Ty C. Voss, Peter J. Sabo, Robert E. Thurman, 2011 .

Rapid empirical discovery of optimal peptides for targeted proteomics

Brendan MacLean, Michael J. MacCoss, John A. Stamatoyannopoulos, 2011, Nature Methods.

Oct4 dependence of chromatin structure within the extended Nanog locus in ES cells.

Michael O. Dorschner, John A. Stamatoyannopoulos, Stuart H. Orkin, 2008, Genes & development.

Regulatory DNA keyholes enable specific and persistent multi-gene expression programs in primary T cells without genome modification

David Baker, John A. Stamatoyannopoulos, Zibo Chen, 2020 .

Developmental Fate and Cellular Maturity Encoded in Human Regulatory DNA Landscapes

Shane J. Neph, Robert E. Thurman, John A. Stamatoyannopoulos, 2013, Cell.

Dynamic Exchange at Regulatory Elements during Chromatin Remodeling Underlies Assisted Loading Mechanism

Ty C. Voss, John A. Stamatoyannopoulos, Paul M. Yen, 2011, Cell.

The Human Mitochondrial Transcriptome

Tim R. Mercer, Shane J. Neph, John A. Stamatoyannopoulos, 2011, Cell.