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CeNDR, the Caenorhabditis elegans natural diversity resource.
Published in:
Nucleic Acids Research, 2017, v. 45, n. D1, p. D650, doi. 10.1093/nar/gkw893
By:
- Cook, Daniel E.;
- Zdraljevic, Stefan;
- Roberts, Joshua P.;
- Andersen, Erik C.
Publication type:
Article
DeepConsensus improves the accuracy of sequences with a gap-aware sequence transformer.
Published in:
Nature Biotechnology, 2023, v. 41, n. 2, p. 232, doi. 10.1038/s41587-022-01435-7
By:
- Baid, Gunjan;
- Cook, Daniel E.;
- Shafin, Kishwar;
- Yun, Taedong;
- Llinares-López, Felipe;
- Berthet, Quentin;
- Belyaeva, Anastasiya;
- Töpfer, Armin;
- Wenger, Aaron M.;
- Rowell, William J.;
- Yang, Howard;
- Kolesnikov, Alexey;
- Ammar, Waleed;
- Vert, Jean-Philippe;
- Vaswani, Ashish;
- McLean, Cory Y.;
- Nattestad, Maria;
- Chang, Pi-Chuan;
- Carroll, Andrew
Publication type:
Article
Natural variation in a single amino acid substitution underlies physiological responses to topoisomerase II poisons.
Published in:
PLoS Genetics, 2017, v. 13, n. 7, p. 1, doi. 10.1371/journal.pgen.1006891
By:
- Zdraljevic, Stefan;
- Strand, Christine;
- Seidel, Hannah S.;
- Cook, Daniel E.;
- Doench, John G.;
- Andersen, Erik C.
Publication type:
Article
Discovery of genomic intervals that underlie nematode responses to benzimidazoles.
Published in:
PLoS Neglected Tropical Diseases, 2018, v. 12, n. 3, p. 1, doi. 10.1371/journal.pntd.0006368
By:
- Zamanian, Mostafa;
- Cook, Daniel E.;
- Zdraljevic, Stefan;
- Brady, Shannon C.;
- Lee, Daehan;
- Lee, Junho;
- Andersen, Erik C.
Publication type:
Article
easyFulcrum: An R package to process and analyze ecological sampling data generated using the Fulcrum mobile application.
Published in:
PLoS ONE, 2021, v. 16, n. 10, p. 1, doi. 10.1371/journal.pone.0254293
By:
- Di Bernardo, Matteo;
- Crombie, Timothy A.;
- Cook, Daniel E.;
- Andersen, Erik C.
Publication type:
Article
Replication of clinical associations with 17-hydroxyprogesterone in preterm newborns.
Published in:
Journal of Pediatric Endocrinology & Metabolism, 2012, v. 25, n. 3/4, p. 301, doi. 10.1515/jpem-2011-0456
By:
- Ryckman, Kelli K.;
- Cook, Daniel E.;
- Berberich, Stanton L.;
- Shchelochkov, Oleg A.;
- Berends, Susan K.;
- Busch, Tamara;
- Dagle, John M.;
- Murray, Jeffrey C.
Publication type:
Article
Population Selection and Sequencing of Caenorhabditis elegans Wild Isolates Identifies a Region on Chromosome III Affecting Starvation Resistance.
Published in:
G3: Genes | Genomes | Genetics, 2019, v. 9, n. 10, p. 3477, doi. 10.1534/g3.119.400617
By:
- Webster, Amy K.;
- Hung, Anthony;
- Moore, Brad T.;
- Guzman, Ryan;
- Jordan, James M.;
- Kaplan, Rebecca E. W.;
- Hibshman, Jonathan D.;
- Tanny, Robyn E.;
- Cook, Daniel E.;
- Andersen, Erik;
- Baugh, L. Ryan
Publication type:
Article
Generating Manhattan plots in Stata.
Published in:
Stata Journal, 2013, v. 13, n. 2, p. 323, doi. 10.1177/1536867x1301300206
By:
- Cook, Daniel E.;
- Ryckman, Kelli R.;
- Murray, Jeffrey C.
Publication type:
Article
The distribution of mutational effects on fitness in Caenorhabditis elegans inferred from standing genetic variation.
Published in:
Genetics, 2022, v. 220, n. 1, p. 1, doi. 10.1093/genetics/iyab166
By:
- Gilbert, Kimberly J.;
- Zdraljevic, Stefan;
- Cook, Daniel E.;
- Cutter, Asher D.;
- Andersen, Erik C.;
- Baer, Charles F.
Publication type:
Article
A Novel Gene Underlies Bleomycin-Response Variation in Caenorhabditis elegans.
Published in:
Genetics, 2019, v. 212, n. 4, p. 1453, doi. 10.1534/genetics.119.302286
By:
- Brady, Shannon C.;
- Zdraljevic, Stefan;
- Bisaga, Karol W.;
- Tanny, Robyn E.;
- Cook, Daniel E.;
- Daehan Lee;
- Ye Wang;
- Andersen, Erik C.
Publication type:
Article
Shared Genomic Regions Underlie Natural Variation in Diverse Toxin Responses.
Published in:
Genetics, 2018, v. 210, n. 4, p. 1509, doi. 10.1534/genetics.118.301311
By:
- Tanny, Robyn E.;
- Giuliani, Sarah E.;
- Hippleheuser, Stephen W.;
- Evans, Kathryn S.;
- Brady, Shannon C.;
- Cook, Daniel E.;
- Andersen, Erik C.;
- Bloom, Joshua S.;
- Zamanian, Mostafa
Publication type:
Article
The Genetic Basis of Natural Variation in Caenorhabditis elegans Telomere Length.
Published in:
Genetics, 2016, v. 204, n. 1, p. 371, doi. 10.1534/genetics.116.191148
By:
- Cook, Daniel E.;
- Zdraljevic, Stefan;
- Tanny, Robyn E.;
- Seo, Beomseok;
- Riccardi, David D.;
- Noble, Luke M.;
- Rockman, Matthew V.;
- Alkema, Mark J.;
- Braendle, Christian;
- Kammenga, Jan E.;
- Wang, John;
- Kruglyak, Leonid;
- Félix, Marie-Anne;
- Lee, Junho;
- Andersen, Erik C.
Publication type:
Article
Local adaptation and spatiotemporal patterns of genetic diversity revealed by repeated sampling of Caenorhabditis elegans across the Hawaiian Islands.
Published in:
Molecular Ecology, 2022, v. 31, n. 8, p. 2327, doi. 10.1111/mec.16400
By:
- Crombie, Timothy A.;
- Battlay, Paul;
- Tanny, Robyn E.;
- Evans, Kathryn S.;
- Buchanan, Claire M.;
- Cook, Daniel E.;
- Dilks, Clayton M.;
- Stinson, Loraina A.;
- Zdraljevic, Stefan;
- Zhang, Gaotian;
- Roberto, Nicole M.;
- Lee, Daehan;
- Ailion, Michael;
- Hodgins, Kathryn A.;
- Andersen, Erik C.;
- Schoville, Sean
Publication type:
Article
A deep-learning-based RNA-seq germline variant caller.
Published in:
Bioinformatics Advances, 2023, v. 3, n. 1, p. 1, doi. 10.1093/bioadv/vbad062
By:
- Cook, Daniel E;
- Venkat, Aarti;
- Yelizarov, Dennis;
- Pouliot, Yannick;
- Chang, Pi-Chuan;
- Carroll, Andrew;
- Vega, Francisco M De La
Publication type:
Article
VCF-kit: assorted utilities for the variant call format.
Published in:
Bioinformatics, 2017, v. 33, n. 10, p. 1581, doi. 10.1093/bioinformatics/btx011
By:
- Cook, Daniel E.;
- Andersen, Erik C.
Publication type:
Article

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