Articles with public access mandates - Andrew D SmithLearn more
Available somewhere: 73
An integrative genomics approach identifies Hypoxia Inducible Factor-1 (HIF-1)-target genes that form the core response to hypoxia
Y Benita, H Kikuchi, AD Smith, MQ Zhang, DC Chung, RJ Xavier
Nucleic acids research 37 (14), 4587-4602, 2009
Mandates: US National Institutes of Health
Using quality scores and longer reads improves accuracy of Solexa read mapping
AD Smith, Z Xuan, MQ Zhang
BMC bioinformatics 9, 1-8, 2008
Mandates: US National Institutes of Health
A model of breast cancer heterogeneity reveals vascular mimicry as a driver of metastasis
E Wagenblast, M Soto, S Gutiérrez-Ángel, CA Hartl, AL Gable, AR Maceli, ...
Nature 520 (7547), 358-362, 2015
Mandates: US National Institutes of Health, Howard Hughes Medical Institute, Cancer …
Sperm methylation profiles reveal features of epigenetic inheritance and evolution in primates
A Molaro, E Hodges, F Fang, Q Song, WR McCombie, GJ Hannon, ...
Cell 146 (6), 1029-1041, 2011
Mandates: US National Institutes of Health, Howard Hughes Medical Institute
A reference methylome database and analysis pipeline to facilitate integrative and comparative epigenomics
Q Song, B Decato, EE Hong, M Zhou, F Fang, J Qu, T Garvin, M Kessler, ...
PloS one 8 (12), e81148, 2013
Mandates: US National Institutes of Health
Improvements to the ARTIC multiplex PCR method for SARS-CoV-2 genome sequencing using nanopore
JR Tyson, P James, D Stoddart, N Sparks, A Wickenhagen, G Hall, ...
BioRxiv, 2020
Mandates: US National Institutes of Health, Canadian Institutes of Health Research …
Directional DNA methylation changes and complex intermediate states accompany lineage specificity in the adult hematopoietic compartment
E Hodges, A Molaro, CO Dos Santos, P Thekkat, Q Song, PJ Uren, J Park, ...
Molecular cell 44 (1), 17-28, 2011
Mandates: US National Institutes of Health
Predicting the molecular complexity of sequencing libraries
T Daley, AD Smith
Nature methods 10 (4), 325-327, 2013
Mandates: US National Institutes of Health
Site identification in high-throughput RNA–protein interaction data
PJ Uren, E Bahrami-Samani, SC Burns, M Qiao, FV Karginov, E Hodges, ...
Bioinformatics 28 (23), 3013-3020, 2012
Mandates: US National Institutes of Health
Before it gets started: regulating translation at the 5′ UTR
PR Araujo, K Yoon, D Ko, AD Smith, M Qiao, U Suresh, SC Burns, ...
International Journal of Genomics 2012 (1), 475731, 2012
Mandates: US National Institutes of Health
The maize methylome influences mRNA splice sites and reveals widespread paramutation-like switches guided by small RNA
M Regulski, Z Lu, J Kendall, MTA Donoghue, J Reinders, V Llaca, ...
Genome research 23 (10), 1651-1662, 2013
Mandates: US National Institutes of Health, Howard Hughes Medical Institute
High definition profiling of mammalian DNA methylation by array capture and single molecule bisulfite sequencing
E Hodges, AD Smith, J Kendall, Z Xuan, K Ravi, M Rooks, MQ Zhang, ...
Genome research 19 (9), 1593-1605, 2009
Mandates: US National Institutes of Health, Howard Hughes Medical Institute
An evolutionarily conserved gene family encodes proton-selective ion channels
YH Tu, AJ Cooper, B Teng, RB Chang, DJ Artiga, HN Turner, EM Mulhall, ...
Science 359 (6379), 1047-1050, 2018
Mandates: US National Institutes of Health
Molecular characterization of the transition from acute to chronic kidney injury following ischemia/reperfusion
J Liu, S Kumar, E Dolzhenko, GF Alvarado, J Guo, C Lu, Y Chen, M Li, ...
JCI insight 2 (18), 2017
Mandates: Swiss National Science Foundation, US National Institutes of Health
Updates to the RMAP short-read mapping software
AD Smith, WY Chung, E Hodges, J Kendall, G Hannon, J Hicks, Z Xuan, ...
Bioinformatics 25 (21), 2841-2842, 2009
Mandates: US National Institutes of Health, Howard Hughes Medical Institute
Diverse endonucleolytic cleavage sites in the mammalian transcriptome depend upon microRNAs, Drosha, and additional nucleases
FV Karginov, S Cheloufi, MMW Chong, A Stark, AD Smith, GJ Hannon
Molecular cell 38 (6), 781-788, 2010
Mandates: US National Institutes of Health, Howard Hughes Medical Institute
Regionally specific and genome-wide analyses conclusively demonstrate the absence of CpG methylation in human mitochondrial DNA
EE Hong, CY Okitsu, AD Smith, CL Hsieh
Molecular and cellular biology, 2013
Mandates: US National Institutes of Health
Conserved and divergent features of mesenchymal progenitor cell types within the cortical nephrogenic niche of the human and mouse kidney
NO Lindström, J Guo, AD Kim, T Tran, Q Guo, GDS Brandine, A Ransick, ...
Journal of the American Society of Nephrology 29 (3), 806-824, 2018
Mandates: US National Institutes of Health
Using beta-binomial regression for high-precision differential methylation analysis in multifactor whole-genome bisulfite sequencing experiments
E Dolzhenko, AD Smith
BMC bioinformatics 15, 1-8, 2014
Mandates: US National Institutes of Health
Progressive recruitment of mesenchymal progenitors reveals a time-dependent process of cell fate acquisition in mouse and human nephrogenesis
NO Lindström, GDS Brandine, T Tran, A Ransick, G Suh, J Guo, AD Kim, ...
Developmental cell 45 (5), 651-660. e4, 2018
Mandates: US National Institutes of Health
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