Works by Cherry, Michael J

Results: 117

Gene spatial integration: enhancing spatial transcriptomics analysis via deep learning and batch effect mitigation Open Access.

Published in:

Bioinformatics, 2025, v. 41, n. 6, p. 1, doi. 10.1093/bioinformatics/btaf350

By:

Pratama, Rian;
Hilton, Jason;
Cherry, J Michael;
Song, Giltae

Publication type:

Article

Early‐life movement ecology of a cervid: Implications for chronic wasting disease management.

Published in:

Ecological Solutions & Evidence, 2025, v. 6, n. 2, p. 1, doi. 10.1002/2688-8319.70046

By:

Ellis, Calvin C.;
Cherry, Michael J.;
Gray, Shawn S.;
DeYoung, Randy W.;
Hewitt, David G.;
Heffelfinger, Levi J.

Publication type:

Article

Influence of abiotic factors on habitat selection of sympatric ocelots and bobcats: testing the interactive range-limit theory.

Published in:

Frontiers in Ecology & Evolution, 2023, p. 01, doi. 10.3389/fevo.2023.1166184

By:

Sergeyev, Maksim;
Tanner, Evan P.;
Cherry, Michael J.;
Lombardi, Jason V.;
Tewes, Michael E.;
Campbell, Tyler A.;
Janecka, Jan;
Newediuk, Levi

Publication type:

Article

Chronology of reproductive investment determines predation risk aversion in a felid‐ungulate system.

Published in:

Ecology & Evolution (20457758), 2019, v. 9, n. 6, p. 3264, doi. 10.1002/ece3.4947

By:

Crawford, Daniel A.;
Cherry, Michael J.;
Kelly, Brian D.;
Garrison, Elina P.;
Shindle, David B.;
Conner, L. Mike;
Chandler, Richard B.;
Miller, Karl V.

Publication type:

Article

AAtDB, an Arabidopsis thaliana database.

Published in:

Plant Molecular Biology Reporter, 1992, v. 10, n. 4, p. 308, doi. 10.1007/BF02668902

By:

Michael Cherry, J.;
Cartinhour, Samuel;
Goodman, Howard

Publication type:

Article

Saccharomyces Genome Database: the genomics resource of budding yeast.

Published in:

Nucleic Acids Research, 2012, p. D700, doi. 10.1093/nar/gkr1029

By:

Cherry, J. Michael;
Hong, Eurie L.;
Amundsen, Craig;
Balakrishnan, Rama;
Binkley, Gail;
Chan, Esther T.;
Christie, Karen R.;
Costanzo, Maria C.;
Dwight, Selina S.;
Engel, Stacia R.;
Fisk, Dianna G.;
Hirschman, Jodi E.;
Hitz, Benjamin C.;
Karra, Kalpana;
Krieger, Cynthia J.;
Miyasato, Stuart R.;
Nash, Rob S.;
Park, Julie;
Skrzypek, Marek S.;
Simison, Matt

Publication type:

Article

Towards BioDBcore: a community-defined information specification for biological databases.

Published in:

Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D7, doi. 10.1093/nar/gkq1173

By:

Gaudet, Pascale;
Bairoch, Amos;
Field, Dawn;
Sansone, Susanna-Assunta;
Taylor, Chris;
Attwood, Teresa K.;
Bateman, Alex;
Blake, Judith A.;
Bult, Carol J.;
Cherry, J. Michael;
Chisholm, Rex L.;
Cochrane, Guy;
Cook, Charles E.;
Eppig, Janan T.;
Galperin, Michael Y.;
Gentleman, Robert;
Goble, Carole A.;
Gojobori, Takashi;
Hancock, John M.;
Howe, Douglas G.

Publication type:

Article

Tetrahymena Genome Database (TGD): a new genomic resource for Tetrahymena thermophila research.

Published in:

Nucleic Acids Research, 2006, v. 34, n. suppl 1, p. d500, doi. 10.1093/nar/gkj054

By:

Stover, Nicholas A.;
Krieger, Cynthia J.;
Binkley, Gail;
Dong, Qing;
Fisk, Dianna G.;
Nash, Robert;
Sethuraman, Anand;
Weng, Shuai;
Cherry, J. Michael

Publication type:

Article

PatMatch: a program for finding patterns in peptide and nucleotide sequences.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w262, doi. 10.1093/nar/gki368

By:

Yan, Thomas;
Yoo, Danny;
Berardini, Tanya Z.;
Mueller, Lukas A.;
Weems, Dan C.;
Weng, Shuai;
Cherry, J. Michael;
Rhee, Seung Y.

Publication type:

Article

Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the Saccharomyces Genome Database (SGD).

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 1, p. d374

By:

Balakrishnan, Rama;
Christie, Karen R.;
Costanzo, Maria C.;
Dolinski, Kara;
Dwight, Selina S.;
Engel, Stacia R.;
Fisk, Dianna G.;
Hirschman, Jodi E.;
Hong, Eurie L.;
Nash, Robert;
Oughtred, Rose;
Skrzypek, Marek;
Theesfeld, Chandra L.;
Binkley, Gail;
Dong, Qing;
Lane, Christopher;
Sethuraman, Anand;
Weng, Shuai;
Botstein, David;
Cherry, J. Michael

Publication type:

Article

SOURCE: a unified genomic resource of functional annotations, ontologies, and gene expression data.

Published in:

Nucleic Acids Research, 2003, v. 31, n. 1, p. 219, doi. 10.1093/nar/gkg014

By:

Diehn, Maximilian;
Sherlock, Gavin;
Binkley, Gail;
Jin, Heng;
Matese, John C.;
Hernandez-Boussard, Tina;
Rees, Christian A.;
Cherry, J. Michael;
Botstein, David;
Brown, Patrick O.;
Alizadeh, Ash A.

Publication type:

Article

Saccharomyces Genome Database (SGD) provides biochemical and structural information for budding yeast proteins.

Published in:

Nucleic Acids Research, 2003, v. 31, n. 1, p. 216, doi. 10.1093/nar/gkg054

By:

Weng, Shuai;
Dong, Qing;
Balakrishnan, Rama;
Christie, Karen;
Costanzo, Maria;
Dolinski, Kara;
Dwight, Selina S.;
Engel, Stacia;
Fisk, Dianna G.;
Hong, Eurie;
Issel-Tarver, Laurie;
Sethuraman, Anand;
Theesfeld, Chandra;
Andrada, Rey;
Binkley, Gail;
Lane, Christopher;
Schroeder, Mark;
Botstein, David;
Michael Cherry, J.

Publication type:

Article

Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO).

Published in:

Nucleic Acids Research, 2002, v. 30, n. 1, p. 69, doi. 10.1093/nar/30.1.69

By:

Dwight, Selina S.;
Harris, Midori A.;
Dolinski, Kara;
Ball, Catherine A.;
Binkley, Gail;
Christie, Karen R.;
Fisk, Dianna G.;
Issel-Tarver, Laurie;
Schroeder, Mark;
Sherlock, Gavin;
Sethuraman, Anand;
Weng, Shuai;
Botstein, David;
Cherry, J. Michael

Publication type:

Article

Sex-specific effects of reproductive season on bobcat space use, movement, and resource selection in the Appalachian Mountains of Virginia.

Published in:

PLoS ONE, 2020, v. 15, n. 8, p. 1, doi. 10.1371/journal.pone.0225355

By:

McNitt, David C.;
Alonso, Robert S.;
Cherry, Michael J.;
Fies, Michael L.;
Kelly, Marcella J.

Publication type:

Article

Integrative Meta-Assembly Pipeline (IMAP): Chromosome-level genome assembler combining multiple de novo assemblies.

Published in:

PLoS ONE, 2019, v. 14, n. 8, p. 1, doi. 10.1371/journal.pone.0221858

By:

Song, Giltae;
Lee, Jongin;
Kim, Juyeon;
Kang, Seokwoo;
Lee, Hoyong;
Kwon, Daehong;
Lee, Daehwan;
Lang, Gregory I.;
Cherry, J. Michael;
Kim, Jaebum

Publication type:

Article

Expanding yeast knowledge online.

Published in:

Yeast, 1998, v. 14, n. 16, p. 1453, doi. 10.1002/(SICI)1097-0061(199812)14:16<1453::AID-YEA348>3.0.CO;2-G

By:

Dolinski, Kara;
Ball, Catherine A.;
Chervitz, Stephen A.;
Dwight, Selina S.;
Harris, Midori A.;
Roberts, Shannon;
Roe, Taiyun;
Cherry, J. Michael;
Botstein, David

Publication type:

Article

Gene Ontology: tool for the unification of biology.

Published in:

Nature Genetics, 2000, v. 25, n. 1, p. 25, doi. 10.1038/75556

By:

Ashburner, Michael;
Ball, Catherine A.;
Blake, Judith A.;
Botstein, David;
Butler, Heather;
Cherry, J. Michael;
Davis, Allan P.;
Dolinski, Kara;
Dwight, Selina S.;
Eppig, Janan T.;
Harris, Midori A.;
Hill, David P.;
Issel-Tarver, Laurie;
Kasarskis, Andrew;
Lewis, Suzanna;
Matese, John C.;
Richardson, Joel E.;
Ringwald, Martin;
Rubin, Gerald M.

Publication type:

Article

Using drones to detect and quantify wild pig damage and yield loss in corn fields throughout plant growth stages.

Published in:

Wildlife Society Bulletin (2328-5540), 2023, v. 47, n. 2, p. 1, doi. 10.1002/wsb.1437

By:

Friesenhahn, Bethany A.;
Massey, Lori D.;
DeYoung, Randy W.;
Cherry, Michael J.;
Fischer, Justin W.;
Snow, Nathan P.;
VerCauteren, Kurt C.;
Perotto‐Baldivieso, Humberto L.

Publication type:

Article

White‐tailed deer movement in response to helicopter surveys.

Published in:

Wildlife Society Bulletin (2328-5540), 2022, v. 46, n. 5, p. 1, doi. 10.1002/wsb.1383

By:

Dyal, Jordan R.;
Miller, Karl V.;
Cherry, Michael J.;
D'Angelo, Gino J.

Publication type:

Article

Hunting and environmental influences on survival of male wild turkeys in Virginia and West Virginia.

Published in:

Wildlife Society Bulletin (2328-5540), 2022, v. 46, n. 2, p. 1, doi. 10.1002/wsb.1284

By:

Norman, Gary W.;
Crawford, Daniel;
Ryan, Christopher W.;
Igo, William K.;
Cherry, Michael J.

Publication type:

Article

Photo sensors increase likelihood of detection of expelled vaginal implant transmitters.

Published in:

Wildlife Society Bulletin (2328-5540), 2013, v. 37, n. 4, p. 846, doi. 10.1002/wsb.346

By:

Cherry, Michael J.;
Nelson, Melinda A.;
Warren, Robert J.;
Conner, L. Mike

Publication type:

Article

Mining experimental evidence of molecular function claims from the literature.

Published in:

Bioinformatics, 2007, v. 23, n. 23, p. 3232, doi. 10.1093/bioinformatics/btm495

By:

Colleen E. Crangle;
J. Michael Cherry;
Eurie L. Hong;
Alex Zbyslaw

Publication type:

Article

GO::TermFinder—open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes.

Published in:

Bioinformatics, 2004, v. 20, n. 18, p. 3710, doi. 10.1093/bioinformatics/bth456

By:

Boyle, Elizabeth I.;
Weng, Shuai;
Gollub, Jeremy;
Jin, Heng;
Botstein, David;
Cherry, J. Michael;
Sherlock, Gavin

Publication type:

Article

Visualization of expression clusters using Sammon's non-linear mapping.

Published in:

Bioinformatics, 2001, v. 17, n. 7, p. 658, doi. 10.1093/bioinformatics/17.7.658

By:

Ewing, Rob M.;
Cherry, J. Michael

Publication type:

Article

Predation risk increases intraspecific heterogeneity in white-tailed deer diel activity patterns.

Published in:

Behavioral Ecology, 2021, v. 32, n. 1, p. 41, doi. 10.1093/beheco/araa089

By:

Crawford, Daniel A;
Conner, L Mike;
Morris, Gail;
Cherry, Michael J

Publication type:

Article

Effects of predation risk and group dynamics on white-tailed deer foraging behavior in a longleaf pine savanna.

Published in:

Behavioral Ecology, 2015, v. 26, n. 4, p. 1091, doi. 10.1093/beheco/arv054

By:

Cherry, Michael J.;
Conner, L. Mike;
Warren, Robert J.

Publication type:

Article

An applied ecology of fear framework: linking theory to conservation practice.

Published in:

Animal Conservation, 2021, v. 24, n. 3, p. 308, doi. 10.1111/acv.12629

By:

Gaynor, Kaitlyn M.;
Cherry, Michael J.;
Gilbert, Sophie L.;
Kohl, Michel T.;
Larson, Courtney L.;
Newsome, Thomas M.;
Prugh, Laura R.;
Suraci, Justin P.;
Young, Julie K.;
Smith, Justine A.

Publication type:

Article

Drivers of habitat quality for a reintroduced elk herd.

Published in:

Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-25058-9

By:

Quinlan, Braiden A.;
Rosenberger, Jacalyn P.;
Kalb, David M.;
Abernathy, Heather N.;
Thorne, Emily D.;
Ford, W. Mark;
Cherry, Michael J.

Publication type:

Article

Saccharomyces cerevisiae S288C genome annotation: a working hypothesis.

Published in:

Yeast, 2006, v. 23, n. 12, p. 857, doi. 10.1002/yea.1400

By:

Fisk, Dianna G.;
Ball, Catherine A.;
Dolinski, Kara;
Engel, Stacia R.;
Hong, Eurie L.;
Issel-Tarver, Laurie;
Schwartz, Katja;
Sethuraman, Anand;
Botstein, David;
Michael Cherry, J.

Publication type:

Article

An integrated genetic/RFLP map of the Arabidopsis thaliana genome.

Published in:

Plant Journal, 1993, v. 3, n. 5, p. 745

By:

Hauge, Brian M.;
Hanley, Susan M.;
Cartinhour, Sam;
Cherry, J. Michael;
Goodman, Howard M.;
Koornneef, Maarten;
Stam, Piet;
Caren Chang;
Kempin, Sherry;
Medrano, Leonard;
Meyerowitz, Elliot M.

Publication type:

Article

Fire, land cover, and temperature drivers of bat activity in winter.

Published in:

Fire Ecology, 2021, v. 17, n. 1, p. 1, doi. 10.1186/s42408-021-00105-4

By:

Jorge, Marcelo H.;
Sweeten, Sara E.;
True, Michael C.;
Freeze, Samuel R.;
Cherry, Michael J.;
Garrison, Elina P.;
Taylor, Hila;
Gorman, Katherine M.;
Ford, W. Mark

Publication type:

Article

Habitat selection and diurnal refugia of gray foxes in southwestern Georgia, USA.

Published in:

PLoS ONE, 2017, v. 12, n. 10, p. 1, doi. 10.1371/journal.pone.0186402

By:

Deuel, Nicholas R.;
Conner, L. Mike;
Miller, Karl V.;
Chamberlain, Michael J.;
Cherry, Michael J.;
Tannenbaum, Larry V.

Publication type:

Article

Breeding chronology and social interactions affect ungulate foraging behavior at a concentrated food resource.

Published in:

PLoS ONE, 2017, v. 12, n. 6, p. 1, doi. 10.1371/journal.pone.0178477

By:

Stone, David B.;
Cherry, Michael J.;
Martin, James A.;
Cohen, Bradley S.;
Miller, Karl V.

Publication type:

Article

Fire as a driver and mediator of predator–prey interactions.

Published in:

2022

By:

Doherty, Tim S.;
Geary, William L.;
Jolly, Chris J.;
Macdonald, Kristina J.;
Miritis, Vivianna;
Watchorn, Darcy J.;
Cherry, Michael J.;
Conner, L. Mike;
González, Tania Marisol;
Legge, Sarah M.;
Ritchie, Euan G.;
Stawski, Clare;
Dickman, Chris R.

Publication type:

Literature Review

Activity patterns and temporal predator avoidance of white-tailed deer (Odocoileus virginianus) during the fawning season.

Published in:

Journal of Ethology, 2019, v. 37, n. 3, p. 283, doi. 10.1007/s10164-019-00599-1

By:

Higdon, Summer D.;
Diggins, Corinne A.;
Cherry, Michael J.;
Ford, W. Mark

Publication type:

Article

Temperature influences resource selection and predation risk tolerance in a climate generalist.

Published in:

Landscape Ecology, 2025, v. 40, n. 2, p. 1, doi. 10.1007/s10980-025-02056-6

By:

Green, Breanna R.;
Tanner, Evan P.;
Chandler, Richard B.;
Abernathy, Heather N.;
Conner, L. Mike;
Garrison, Elina P.;
Shindle, David B.;
Miller, Karl V.;
Cherry, Michael J.

Publication type:

Article

Correction to: Scale of effect of landscape patterns on resource selection by bobcats (Lynx rufus) in a multi‑use rangeland system.

Published in:

2024

By:

Branney, Aidan B.;
Dutt, Amanda M. Veals;
Wardle, Zachary M.;
Tanner, Evan P.;
Tewes, Michael E.;
Cherry, Michael J.

Publication type:

Correction Notice

Scale of effect of landscape patterns on resource selection by bobcats (Lynx rufus) in a multi-use rangeland system.

Published in:

Landscape Ecology, 2024, v. 39, n. 8, p. 1, doi. 10.1007/s10980-024-01944-7

By:

Branney, Aidan B.;
Dutt, Amanda M. Veals;
Wardle, Zachary M.;
Tanner, Evan P.;
Tewes, Michael E.;
Cherry, Michael J.

Publication type:

Article

Landscape connectivity for an endangered carnivore: habitat conservation and road mitigation for ocelots in the US.

Published in:

Landscape Ecology, 2023, v. 38, n. 2, p. 363, doi. 10.1007/s10980-022-01569-8

By:

Veals, Amanda M.;
Holbrook, Joseph D.;
Cherry, Michael J.;
Campbell, Tyler A.;
Young Jr., John H.;
Tewes, Michael E.

Publication type:

Article

Avian species richness in a frequently burned ecosystem: a link between pyrodiversity and biodiversity.

Published in:

Landscape Ecology, 2022, v. 37, n. 4, p. 983, doi. 10.1007/s10980-022-01399-8

By:

Jorge, Marcelo H.;
Conner, L. Mike;
Garrison, Elina P.;
Cherry, Michael J.

Publication type:

Article

The Stanford Microarray Database.

Published in:

Nucleic Acids Research, 2001, v. 29, n. 1, p. 152, doi. 10.1093/nar/29.1.152

By:

Sherlock, Gavin;
Hernandez-Boussard, Tina;
Kasarskis, Andrew;
Binkley, Gail;
Matese, John C.;
Dwight, Selina S.;
Kaloper, Miroslava;
Weng, Shuai;
Jin, Heng;
Ball, Catherine A.;
Eisen, Michael B.;
Spellman, Paul T.;
Brown, Patrick O.;
Botstein, David;
Cherry, J. Michael

Publication type:

Article

Saccharomyces Genome Database provides tools to survey gene expression and functional analysis data.

Published in:

Nucleic Acids Research, 2001, v. 29, n. 1, p. 80, doi. 10.1093/nar/29.1.80

By:

Ball, Catherine A.;
Jin, Heng;
Sherlock, Gavin;
Weng, Shuai;
Matese, John C.;
Andrada, Rey;
Binkley, Gail;
Dolinski, Kara;
Dwight, Selina S.;
Harris, Midori A.;
Issel-Tarver, Laurie;
Schroeder, Mark;
Botstein, David;
Cherry, J. Michael

Publication type:

Article

Integrating functional genomic information into the Saccharomyces Genome Database.

Published in:

Nucleic Acids Research, 2000, v. 28, n. 1, p. 77, doi. 10.1093/nar/28.1.77

By:

Ball, Catherine A.;
Dolinski, Kara;
Dwight, Selina S.;
Harris, Midori A.;
Issel-Tarver, Laurie;
Kasarskis, Andrew;
Scafe, Charles R.;
Sherlock, Gavin;
Binkley, Gail;
Jin, Heng;
Kaloper, Mira;
Orr, Sidney D.;
Schroeder, Mark;
Weng, Shuai;
Zhu, Yan;
Botstein, David;
Cherry, J. Michael

Publication type:

Article

Unified display of Arabidopsis thaliana physical maps from AtDB, the A.thaliana database.

Published in:

Nucleic Acids Research, 1999, v. 27, n. 1, p. 79, doi. 10.1093/nar/27.1.79

By:

Rhee, Seung Y.;
Weng, Shuai;
Bongard‐Pierce, Deverie K.;
García‐Hernández, Margarita;
Malekian, Alice;
Flanders, David J.;
Cherry, J. Michael

Publication type:

Article

Using the Saccharomyces Genome Database (SGD) for analysis of protein similarities and structure.

Published in:

Nucleic Acids Research, 1999, v. 27, n. 1, p. 74, doi. 10.1093/nar/27.1.74

By:

Chervitz, Stephen A.;
Hester, Erich T.;
Ball, Catherine A.;
Dolinski, Kara;
Dwight, Selina S.;
Harris, Midori A.;
Juvik, Gail;
Malekian, Alice;
Roberts, Shannon;
Roe, TaiYun;
Scafe, Charles;
Schroeder, Mark;
Sherlock, Gavin;
Zhu, Shuai Weng, Yan;
Cherry, J. Michael;
Botstein, David

Publication type:

Article

AtDB, the Arabidopsis thaliana Database, and graphical‐web‐display of progress by the ArabidopsisGenome Initiative.

Published in:

Nucleic Acids Research, 1998, v. 26, n. 1, p. 80, doi. 10.1093/nar/26.1.80

By:

Flanders, David J.;
Weng, Shuai;
Petel, Fabien X.;
Cherry, J. Michael

Publication type:

Article

SGD: Saccharomyces Genome Database.

Published in:

Nucleic Acids Research, 1998, v. 26, n. 1, p. 73, doi. 10.1093/nar/26.1.73

By:

Cherry, J. Michael;
Adler, Caroline;
Ball, Catherine;
Chervitz, Stephen A.;
Dwight, Selina S.;
Hester, Erich T.;
Jia, Yankai;
Juvik, Gail;
Roe, TaiYun;
Schroeder, Mark;
Weng, Shuai;
Botstein, David

Publication type:

Article

Estimating recruitment from capture–recapture data by modelling spatio‐temporal variation in birth and age‐specific survival rates.

Published in:

Methods in Ecology & Evolution, 2018, v. 9, n. 10, p. 2115, doi. 10.1111/2041-210X.13068

By:

Chandler, Richard B.;
Engebretsen, Kristin;
Cherry, Michael J.;
Garrison, Elina P.;
Miller, Karl V.

Publication type:

Article

Genetic and physical maps of Saccharomyces cerevisiae.

Published in:

Nature, 1997, v. 387, n. 6632, p. 67, doi. 10.1038/387s067

By:

Cherry, J. Michael;
Ball, Catherine

Publication type:

Article

Monitoring partially marked populations using camera and telemetry data.

Published in:

Ecological Applications, 2022, v. 32, n. 4, p. 1, doi. 10.1002/eap.2553

By:

Margenau, Lydia L. S.;
Cherry, Michael J.;
Miller, Karl V.;
Garrison, Elina P.;
Chandler, Richard B.

Publication type:

Article