Connor McEntee
Salk Institute for Biological Studies
5 Papers
2 Citations
Connor McEntee is an academic researcher from Salk Institute for Biological Studies. The author has contributed to research in topics: Arabidopsis & Haystack. The author has an hindex of 4, co-authored 5 publications.
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Papers
RankProd: a bioconductor package for detecting differentially expressed genes in meta-analysis
Fangxin Hong,Rainer Breitling,Connor McEntee,Ben S. Wittner,Jennifer L. Nemhauser,Joanne Chory +5 more
TL;DR: The Bioconductor package RankProd modifies and extends the rank product method proposed by Breitling et al., to integrate multiple microarray studies from different laboratories and/or platforms and accepts pre-processed expression datasets produced from a wide variety of platforms.
Network discovery pipeline elucidates conserved time-of-day-specific cis-regulatory modules.
Todd P. Michael,Todd C. Mockler,Todd C. Mockler,Ghislain Breton,Connor McEntee,Amanda Byer,Jonathan D. Trout,Samuel P. Hazen,Rongkun Shen,Henry D. Priest,Christopher M. Sullivan,Scott A. Givan,Marcelo J. Yanovsky,Fangxin Hong,Steve A. Kay,Joanne Chory +15 more
TL;DR: A hypothesis-driven network discovery pipeline that identifies biologically relevant patterns in genome-scale data is described that identifies at least three distinct transcription modules controlling phase-specific expression, including a new midnight specific module, PBX/TBX/SBX.
Comprehensive definition of genome features in Spirodela polyrhiza by high-depth physical mapping and short-read DNA sequencing strategies.
Todd P. Michael,Douglas W. Bryant,Ryan Gutierrez,Nikolai Borisjuk,Philomena Chu,Hanzhong Zhang,Jing Xia,Jing Xia,Junfei Zhou,Hai Peng,Moaine El Baidouri,Boudewijn F.H. Ten Hallers,Alex Hastie,Tiffany Y. Liang,Kenneth Acosta,Sarah Gilbert,Connor McEntee,Scott A. Jackson,Todd C. Mockler,Weixiong Zhang,Weixiong Zhang,Eric Lam +21 more
TL;DR: High‐throughput sequencing and genome mapping technologies are combined to generate a validated sequence map of the 20 Spirodela polyrhiza chromosomes and reveal a genome that has undergone reduction, likely through eliminating non‐essential protein coding genes, rDNA and LTRs.
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Patent
SYSTEMS AND METHODS FOR IDENTIFICATION AND USE OF SMALL RNAs
Todd P. Michael,Connor McEntee +1 more
- 19 Feb 2016
TL;DR: In this paper, systems and methods are provided that identify small RNAs by identifying amplified small RNAS de novo from high throughput sequencing information. But, their methods are not suitable for the detection of single-antenna RNAs.
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The DIURNAL project: DIURNAL and circadian expression profiling, model-based pattern matching, and promoter analysis.
Todd C. Mockler,Todd P. Michael,Henry D. Priest,Rongkun Shen,Christopher M. Sullivan,Scott A. Givan,Connor McEntee,Steve A. Kay,Joanne Chory +8 more
TL;DR: Together, DIURNAL, HAYSTACK, and ELEMENT can be used to facilitate cross-species comparisons among the plant species supported and to accelerate functional genomics efforts in the laboratory.