DNA shape, genetic codes, and evolution

著者: Parker, Stephen C. J., Tullius, Thomas D.
出版事項 2011

YAMDA: thousandfold speedup of EM-based motif discovery using deep learning libraries and GPU

著者: Quang, Daniel, Guan, Yuanfang, Parker, Stephen C J
出版年 Bioinformatics (2018)

Genomic annotation of disease-associated variants reveals shared functional contexts

著者: Kyono, Yasuhiro, Kitzman, Jacob O., Parker, Stephen C. J.
出版年 Diabetologia (2019)

Detection of DNA structural motifs in functional genomic elements

著者: Greenbaum, Jason A., Parker, Stephen C.J., Tullius, Thomas D.
出版事項 2007

Motif signatures in stretch enhancers are enriched for disease-associated genetic variants

著者: Quang, Daniel X, Erdos, Michael R, Parker, Stephen C J, Collins, Francis S
出版年 Epigenetics Chromatin (2015)

Super Enhancers in Cancers, Complex Disease, and Developmental Disorders

著者: Niederriter, Adrienne R., Varshney, Arushi, Parker, Stephen C. J., Martin, Donna M.
出版年 Genes (Basel) (2015)

Quantification, dynamic visualization, and validation of bias in ATAC-seq data with ataqv

著者: Orchard, Peter, Kyono, Yasuhiro, Hensley, John, Kitzman, Jacob O., Parker, Stephen C.J.
出版年 Cell Syst (2020)

Local DNA Topography Correlates with Functional Noncoding Regions of the Human Genome

著者: Parker, Stephen C.J., Hansen, Loren, Abaan, Hatice Ozel, Tullius, Thomas D., Margulies, Elliott H.
出版事項 2009

A Bioinformatics Approach for Determining Sample Identity from Different Lanes of High-Throughput Sequencing Data

著者: Goldfeder, Rachel L., Parker, Stephen C. J., Ajay, Subramanian S., Ozel Abaan, Hatice, Margulies, Elliott H.
出版事項 2011

Accurate and comprehensive sequencing of personal genomes

著者: Ajay, Subramanian S., Parker, Stephen C.J., Ozel Abaan, Hatice, Fuentes Fajardo, Karin V., Margulies, Elliott H.
出版事項 2011

Multi-omic profiling of pituitary thyrotropic cells and progenitors

著者: Daly, Alexandre Z., Dudley, Lindsey A., Peel, Michael T., Liebhaber, Stephen A., Parker, Stephen C. J., Camper, Sally A.
出版年 BMC Biol (2021)

Cell Specificity of Human Regulatory Annotations and Their Genetic Effects on Gene Expression

著者: Varshney, Arushi, VanRenterghem, Hadley, Orchard, Peter, Boyle, Alan P., Stitzel, Michael L., Ucar, Duygu, Parker, Stephen C. J.
出版年 Genetics (2019)

Chromatin information content landscapes inform transcription factor and DNA interactions

著者: D’Oliveira Albanus, Ricardo, Kyono, Yasuhiro, Hensley, John, Varshney, Arushi, Orchard, Peter, Kitzman, Jacob O., Parker, Stephen C. J.
出版年 Nat Commun (2021)

A Map of Minor Groove Shape and Electrostatic Potential from Hydroxyl Radical Cleavage Patterns of DNA

著者: Bishop, Eric P., Rohs, Remo, Parker, Stephen C. J., West, Sean M., Liu, Peng, Mann, Richard S., Honig, Barry, Tullius, Thomas D.
出版事項 2011

Global dynamics of stage-specific transcription factor binding during thymocyte development

著者: Hosoya, Tomonori, D’Oliveira Albanus, Ricardo, Hensley, John, Myers, Greggory, Kyono, Yasuhiro, Kitzman, Jacob, Parker, Stephen C. J., Engel, James Douglas
出版年 Sci Rep (2018)

BoostMe accurately predicts DNA methylation values in whole-genome bisulfite sequencing of multiple human tissues

著者: Zou, Luli S., Erdos, Michael R., Taylor, D. Leland, Chines, Peter S., Varshney, Arushi, Parker, Stephen C. J., Collins, Francis S., Didion, John P.
出版年 BMC Genomics (2018)

GBshape: a genome browser database for DNA shape annotations

著者: Chiu, Tsu-Pei, Yang, Lin, Zhou, Tianyin, Main, Bradley J., Parker, Stephen C.J., Nuzhdin, Sergey V., Tullius, Thomas D., Rohs, Remo
出版年 Nucleic Acids Res (2014)

Genome-wide chromatin accessibility and transcriptome profiling show minimal epigenome changes and coordinated transcriptional dysregulation of hedgehog signaling in Danforth’s sho...

著者: Orchard, Peter, White, James S, Thomas, Peedikayil E, Mychalowych, Anna, Kiseleva, Anya, Hensley, John, Allen, Benjamin, Parker, Stephen C J, Keegan, Catherine E
出版年 Hum Mol Genet (2019)

BAF60a deficiency uncouples chromatin accessibility and cold sensitivity from white fat browning

著者: Liu, Tongyu, Mi, Lin, Xiong, Jing, Orchard, Peter, Yu, Qi, Yu, Lei, Zhao, Xu-Yun, Meng, Zhuo-Xian, Parker, Stephen C. J., Lin, Jiandie D., Li, Siming
出版年 Nat Commun (2020)

Single-cell ATAC-Seq in human pancreatic islets and deep learning upscaling of rare cells reveals cell-specific type 2 diabetes regulatory signatures

著者: Rai, Vivek, Quang, Daniel X., Erdos, Michael R., Cusanovich, Darren A., Daza, Riza M., Narisu, Narisu, Zou, Luli S., Didion, John P., Guan, Yuanfang, Shendure, Jay, Parker, Stephen C.J., Collins, Francis S.
出版年 Mol Metab (2019)