Jason S Cumbie
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Explore the profile of Jason S Cumbie including associated specialties, affiliations and a list of published articles.
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17
Citations
1493
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Recent Articles
11.
Cumbie J, Kimbrel J, Di Y, Schafer D, Wilhelm L, Fox S, et al.
PLoS One
. 2011 Oct;
6(10):e25279.
PMID: 21998647
GENE-counter is a complete Perl-based computational pipeline for analyzing RNA-Sequencing (RNA-Seq) data for differential gene expression. In addition to its use in studying transcriptomes of eukaryotic model organisms, GENE-counter is...
12.
Fahlgren N, Sullivan C, Kasschau K, Chapman E, Cumbie J, Montgomery T, et al.
RNA
. 2009 Mar;
15(5):992-1002.
PMID: 19307293
The advent of high-throughput sequencing (HTS) methods has enabled direct approaches to quantitatively profile small RNA populations. However, these methods have been limited by several factors, including representational artifacts and...
13.
Backman T, Sullivan C, Cumbie J, Miller Z, Chapman E, Fahlgren N, et al.
Nucleic Acids Res
. 2007 Nov;
36(Database issue):D982-5.
PMID: 17999994
Development of the Arabidopsis Small RNA Project (ASRP) Database, which provides information and tools for the analysis of microRNA, endogenous siRNA and other small RNA-related features, has been driven by...
14.
Henz S, Cumbie J, Kasschau K, Lohmann J, Carrington J, Weigel D, et al.
Plant Physiol
. 2007 May;
144(3):1247-55.
PMID: 17496106
It has been shown that overlapping cis-natural antisense transcripts (cis-NATs) can form a regulatory circuit in which small RNAs derived from one transcript regulate stability of the other transcript, which...
15.
Howell M, Fahlgren N, Chapman E, Cumbie J, Sullivan C, Givan S, et al.
Plant Cell
. 2007 Apr;
19(3):926-42.
PMID: 17400893
Posttranscriptional RNA silencing of many endogenous transcripts, viruses, and transgenes involves the RNA-DEPENDENT RNA POLYMERASE6/DICER-LIKE4 (RDR6/DCL4)-dependent short interfering RNA (siRNA) biogenesis pathway. Arabidopsis thaliana contains several families of trans-acting siRNAs...
16.
Fahlgren N, Howell M, Kasschau K, Chapman E, Sullivan C, Cumbie J, et al.
PLoS One
. 2007 Feb;
2(2):e219.
PMID: 17299599
In plants, microRNAs (miRNAs) comprise one of two classes of small RNAs that function primarily as negative regulators at the posttranscriptional level. Several MIRNA genes in the plant kingdom are...
17.
Kasschau K, Fahlgren N, Chapman E, Sullivan C, Cumbie J, Givan S, et al.
PLoS Biol
. 2007 Feb;
5(3):e57.
PMID: 17298187
Eukaryotes contain a diversified set of small RNA-guided pathways that control genes, repeated sequences, and viruses at the transcriptional and posttranscriptional levels. Genome-wide profiles and analyses of small RNAs, particularly...