Articles with public access mandates - Colin DeweyLearn more
Not available anywhere: 1
Perspectives on ENCODE
F Abascal, R Acosta, NJ Addleman, J Adrian, V Afzal, B Aken, JA Akiyama
Nature 583 (7818), 693-699, 2020
Mandates: US National Institutes of Health
Available somewhere: 38
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
B Li, CN Dewey
BMC bioinformatics 12, 1-16, 2011
Mandates: US National Institutes of Health
De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
BJ Haas, A Papanicolaou, M Yassour, M Grabherr, PD Blood, J Bowden, ...
Nature protocols 8 (8), 1494-1512, 2013
Mandates: US National Institutes of Health, Howard Hughes Medical Institute, Research …
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
Management Group Liefer Laura A. 51 Wetterstrand Kris A. 51 Good Peter J. 51 ...
nature 447 (7146), 799-816, 2007
Mandates: German Research Foundation
Expanded encyclopaedias of DNA elements in the human and mouse genomes
JE Moore, MJ Purcaro, HE Pratt, CB Epstein, N Shoresh, J Adrian, T Kawli, ...
Nature 583 (7818), 699-710, 2020
Mandates: US Department of Energy, US National Institutes of Health, UK Biotechnology …
Fast statistical alignment
RK Bradley, A Roberts, M Smoot, S Juvekar, J Do, C Dewey, I Holmes, ...
PLoS computational biology 5 (5), e1000392, 2009
Mandates: US National Institutes of Health
Genomic Variation in Natural Populations of Drosophila melanogaster
CH Langley, K Stevens, C Cardeno, YCG Lee, DR Schrider, JE Pool, ...
Genetics 192 (2), 533-598, 2012
Mandates: US National Institutes of Health
Evaluation of de novo transcriptome assemblies from RNA-Seq data
B Li, N Fillmore, Y Bai, M Collins, JA Thomson, R Stewart, CN Dewey
Genome biology 15, 1-21, 2014
Mandates: US National Institutes of Health
Genome-wide effects on Escherichia coli transcription from ppGpp binding to its two sites on RNA polymerase
P Sanchez-Vazquez, CN Dewey, N Kitten, W Ross, RL Gourse
Proceedings of the National Academy of Sciences 116 (17), 8310-8319, 2019
Mandates: US National Institutes of Health
Gata2 cis-element is required for hematopoietic stem cell generation in the mammalian embryo
X Gao, KD Johnson, YI Chang, ME Boyer, CN Dewey, J Zhang, ...
The Journal of experimental medicine 210 (13), 2833, 2013
Mandates: US National Institutes of Health
Rbm20 regulates titin alternative splicing as a splicing repressor
S Li, W Guo, CN Dewey, ML Greaser
Nucleic acids research 41 (4), 2659-2672, 2013
Mandates: US National Institutes of Health
Comparative RNA-seq analysis in the unsequenced axolotl: the oncogene burst highlights early gene expression in the blastema
R Stewart, CA Rascón, S Tian, J Nie, C Barry, LF Chu, H Ardalani, ...
PLoS computational biology 9 (3), e1002936, 2013
Mandates: US National Institutes of Health
Fine-scale phylogenetic discordance across the house mouse genome
MA White, C Ané, CN Dewey, BR Larget, BA Payseur
PLoS Genetics 5 (11), e1000729, 2009
Mandates: US National Institutes of Health
Discovering transcription factor binding sites in highly repetitive regions of genomes with multi-read analysis of ChIP-Seq data
D Chung, PF Kuan, B Li, R Sanalkumar, K Liang, EH Bresnick, C Dewey, ...
PLoS computational biology 7 (7), e1002111, 2011
Mandates: US National Institutes of Health
EBSeq-HMM: a Bayesian approach for identifying gene-expression changes in ordered RNA-seq experiments
N Leng, Y Li, BE McIntosh, BK Nguyen, B Duffin, S Tian, JA Thomson, ...
Bioinformatics 31 (16), 2614-2622, 2015
Mandates: US National Institutes of Health
MetaSRA: normalized human sample-specific metadata for the Sequence Read Archive
MN Bernstein, AH Doan, CN Dewey
Bioinformatics 33 (18), 2914-2923, 2017
Mandates: US National Institutes of Health
Mechanism governing heme synthesis reveals a GATA factor/heme circuit that controls differentiation
N Tanimura, E Miller, K Igarashi, D Yang, JN Burstyn, CN Dewey, ...
EMBO reports 17 (2), 249-265, 2016
Mandates: US National Institutes of Health
Cis-regulatory mechanisms governing stem and progenitor cell transitions
KD Johnson, G Kong, X Gao, YI Chang, KJ Hewitt, R Sanalkumar, ...
Science advances 1 (8), e1500503, 2015
Mandates: US National Institutes of Health
Hematopoietic signaling mechanism revealed from a stem/progenitor cell cistrome
KJ Hewitt, DH Kim, P Devadas, R Prathibha, C Zuo, R Sanalkumar, ...
Molecular cell 59 (1), 62-74, 2015
Mandates: US National Institutes of Health
Analysis of embryonic development in the unsequenced axolotl: Waves of transcriptomic upheaval and stability
P Jiang, JD Nelson, N Leng, M Collins, S Swanson, CN Dewey, ...
Developmental biology 426 (2), 143-154, 2017
Mandates: US National Institutes of Health
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