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Stacia R. Engel

Stanford University

31H-index
71Paper Count
1.9WCitation Count
Published Papers 34
Publication Date
The Gene Ontology knowledgebase in 2026
err2025-12-01
err1
PREAI
errAleksander, Suzi A.; Balhoff, James P.; Carbon, Seth; Cherry, J. Michael; Ebert, Dustin; Feuermann, Marc; Gaudet, Pascale; Harris, Nomi L.; Hill, David P.; Kalita, Patrick; Lee, Raymond; Mi, Huaiyu; Moxon, Sierra; Mungall, Christopher J.; Muruganujan, Anushya; Mushayahama, Tremayne; Sternberg, Paul W.; Thomas, Paul D.; Van Auken, Kimberly; Wong, Edith D.; Wood, Valerie; Ramsey, Jolene; Siegele, Deborah A.; Chisholm, Rex L.; Dodson, Robert; Fey, Petra; Aspromonte, Maria Cristina; Nugnes, Maria Victoria; Naser, Ximena Aixa Castro; Tosatto, Silvio C. E.; Giglio, Michelle; Nadendla, Suvarna; Antonazzo, Giulia; Attrill, Helen; Brown, Nicholas H.; Dos Santos, Gil; Marygold, Steven; Roper, Katja; Strelets, Victor; Tabone, Christopher J.; Thurmond, Jim; Zhou, Pinglei; Zaru, Rossana; Lovering, Ruth C.; Logie, Colin; Chen, Daqing; Naba, Alexandra; Christie, Karen; Corbani, Lori; Ni, Li; Sitnikov, Dmitry; Smith, Cynthia; Seager, James; Cooper, Laurel; Elser, Justin; Jaiswal, Pankaj; Gupta, Parul; Naithani, Sushma; Carme, Pascal; Rutherford, Kim; De Pons, Jeffrey L.; Dwinell, Melinda R.; Hayman, G. Thomas; Kaldunski, Mary L.; Kwitek, Anne E.; Laulederkind, Stanley J. F.; Tutaj, Marek A.; Vedi, Mahima; Wang, Shur-Jen; D'eustachio, Peter; Aimo, Lucila; Axelsen, Kristian; Bridge, Alan; Hyka-Nouspikel, Nevila; Morgat, Anne; Goldbold, Gene; Engel, Stacia R.; Miyasato, Stuart R.; Nash, Robert S.; Sherlock, Gavin; Weng, Shuai; Bakker, Erika; Berardini, Tanya Z.; Reiser, Leonore; Auchincloss, Andrea; Argoud-Puy, Ghislaine; Blatter, Marie-Claude; Boutet, Emmanuel; Breuza, Lionel; Casals-Casas, Cristina; Coudert, Elisabeth; Estreicher, Anne; Famiglietti, Maria Livia; Gos, Arnaud; Gruaz-Gumowski, Nadine; Hulo, Chantal; Jungo, Florence; Mercier, Philippe Le; Lieberherr, Damien; Masson, Patrick; Pedruzzi, Ivo; Pourcel, Lucille; Poux, Sylvain; Rivoire, Catherine; Sundaram, Shyamala; Bateman, Alex; Adesina, Aduragbemi; Bowler-Barnett, Emily; Carpentier, David; Denny, Paul; Ignatchenko, Alexandr; Ishtiaq, Rizwan; Lock, Antonia; Lussi, Yvonne; Magrane, Michele; Martin, Maria J.; Orchard, Sandra; Raposo, Pedro; Speretta, Elena; Tyagi, Nidhi; Urakova, Nadya; Warner, Kate; Yu, Conny Wing-Hen; Chan, Juancarlos; Diamantakis, Stavros; Quinton-Tulloch, Mark; Raciti, Daniela; Fisher, Malcolm; James-Zorn, Christina; Ponferrada, Virgilio; Zorn, Aaron; Howe, Doug; Ramachandran, Sridhar; Ruzicka, Leyla; Westerfield, Monte
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The Unified Phenotype Ontology : a framework for cross-species integrative phenomics
err2025-03-17
err0
errOAAI
errMatentzoglu, Nicolas; Bello, Susan M.; Stefancsik, Ray; Alghamdi, Sarah M.; Anagnostopoulos, Anna, V; Balhoff, James P.; Balk, Meghan A.; Bradford, Yvonne M.; Bridges, Yasemin; Callahan, Tiffany J.; Caufield, Harry; Cuzick, Alayne; Carmody, Leigh C.; Caron, Anita R.; de Souza, Vinicius; Engel, Stacia R.; Fey, Petra; Fisher, Malcolm; Gehrke, Sarah; Grove, Christian; Hansen, Peter; Harris, Nomi L.; Harris, Midori A.; Harris, Laura; Ibrahim, Arwa; Jacobsen, Julius O. B.; Koehler, Sebastian; Mcmurry, Julie A.; Munoz-Fuentes, Violeta; Munoz-Torres, Monica C.; Parkinson, Helen; Pendlington, Zoe M.; Pilgrim, Clare; Robb, Sofia M. C.; Robinson, Peter N.; Seager, James; Segerdell, Erik; Smedley, Damian; Sollis, Elliot; Toro, Sabrina; Vasilevsky, Nicole; Wood, Valerie; Haendel, Melissa A.; Mungall, Christopher J.; Mclaughlin, James A.; Osumi-Sutherland, David
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Saccharomyces Genome Database: advances in genome annotation, expanded biochemical pathways, and other key enhancements
err2024-11-12
err4
PREAI
errEngel, Stacia R.; Aleksander, Suzi; Nash, Robert S.; Wong, Edith D.; Weng, Shuai; Miyasato, Stuart R.; Sherlock, Gavin; Cherry, J. Michael
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Updates to the Alliance of Genome Resources central infrastructure
err2024-03-29
err15
errOAAI
errAleksander, Suzanne A.; Anagnostopoulos, Anna V.; Antonazzo, Giulia; Arnaboldi, Valerio; Attrill, Helen; Becerra, Andres; Bello, Susan M.; Blodgett, Olin; Bradford, Yvonne M.; Bult, Carol J.; Cain, Scott; Calvi, Brian R.; Carbon, Seth; Chan, Juancarlos; Chen, Wen J.; Cherry, J. Michael; Cho, Jaehyoung; Crosby, Madeline A.; De Pons, Jeffrey L.; D'Eustachio, Peter; Diamantakis, Stavros; Dolan, Mary E.; dos Santos, Gilberto; Dyer, Sarah; Ebert, Dustin; Engel, Stacia R.; Fashena, David; Fisher, Malcolm; Foley, Saoirse; Gibson, Adam C.; Gollapally, Varun R.; Gramates, L. Sian; Grove, Christian A.; Hale, Paul; Harris, Todd; Hayman, G. Thomas; Hu, Yanhui; James-Zorn, Christina; Karimi, Kamran; Karra, Kalpana; Kishore, Ranjana; Kwitek, Anne E.; Laulederkind, Stanley J. F.; Lee, Raymond; Longden, Ian; Luypaert, Manuel; Markarian, Nicholas; Marygold, Steven J.; Matthews, Beverley; McAndrews, Monica S.; Millburn, Gillian; Miyasato, Stuart; Motenko, Howie; Moxon, Sierra; Muller, Hans-Michael; Mungall, Christopher J.; Muruganujan, Anushya; Mushayahama, Tremayne; Nash, Robert S.; Nuin, Paulo; Paddock, Holly; Pells, Troy; Perrimon, Norbert; Pich, Christian; Quinton-Tulloch, Mark; Raciti, Daniela; Ramachandran, Sridhar; Richardson, Joel E.; Gelbart, Susan Russo; Ruzicka, Leyla; Schindelman, Gary; Shaw, David R.; Sherlock, Gavin; Shrivatsav, Ajay; Singer, Amy; Smith, Constance M.; Smith, Cynthia L.; Smith, Jennifer R.; Stein, Lincoln; Sternberg, Paul W.; Tabone, Christopher J.; Thomas, Paul D.; Thorat, Ketaki; Thota, Jyothi; Tomczuk, Monika; Trovisco, Vitor; Tutaj, Marek A.; Urbano, Jose-Maria; Van Auken, Kimberly; Van Slyke, Ceri E.; Vize, Peter D.; Wang, Qinghua; Weng, Shuai; Westerfield, Monte; Wilming, Laurens G.; Wong, Edith D.; Wright, Adam; Yook, Karen; Zhou, Pinglei; Zorn, Aaron; Zytkovicz, Mark
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Saccharomyces genome database update: server architecture, pan-genome nomenclature, and external resources
err2023-01-04
err195
errOAAI
errWong, Edith D.; Miyasato, Stuart R.; Aleksander, Suzi; Karra, Kalpana; Nash, Robert S.; Skrzypek, Marek S.; Weng, Shuai; Engel, Stacia R.; Cherry, J. Michael
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New data and collaborations at the Saccharomyces Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources
err2021-12-13
err44
errOAAI
errEngel, Stacia R.; Wong, Edith D.; Nash, Robert S.; Aleksander, Suzi; Alexander, Micheal; Douglass, Eric; Karra, Kalpana; Miyasato, Stuart R.; Simison, Matt; Skrzypek, Marek S.; Weng, Shuai; Cherry, J. Michael
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The Gene Ontology resource: enriching a GOld mine
err2020-12-08
err2.2K
errOAAI
errCarbon, Seth; Douglass, Eric; Good, Benjamin M.; Unni, Deepak R.; Harris, Nomi L.; Mungall, Christopher J.; Basu, Siddartha; Chisholm, Rex L.; Dodson, Robert J.; Hartline, Eric; Fey, Petra; Thomas, Paul D.; Albou, Laurent-Philippe; Ebert, Dustin; Kesling, Michael J.; Mi, Huaiyu; Muruganujan, Anushya; Huang, Xiaosong; Mushayahama, Tremayne; LaBonte, Sandra A.; Siegele, Deborah A.; Antonazzo, Giulia; Attrill, Helen; Brown, Nick H.; Garapati, Phani; Marygold, Steven J.; Trovisco, Vitor; Dos Santos, Gil; Falls, Kathleen; Tabone, Christopher; Zhou, Pinglei; Goodman, Joshua L.; Strelets, Victor B.; Thurmond, Jim; Garmiri, Penelope; Ishtiaq, Rizwan; Rodriguez-Lopez, Milagros; Acencio, Marcio L.; Kuiper, Martin; Laegreid, Astrid; Logie, Colin; Lovering, Ruth C.; Kramarz, Barbara; Saverimuttu, Shirin C. C.; Pinheiro, Sandra M.; Gunn, Heather; Su, Renzhi; Thurlow, Katherine E.; Chibucos, Marcus; Giglio, Michelle; Nadendla, Suvarna; Munro, James; Jackson, Rebecca; Duesbury, Margaret J.; Del-Toro, Noemi; Meldal, Birgit H. M.; Paneerselvam, Kalpana; Perfetto, Livia; Porras, Pablo; Orchard, Sandra; Shrivastava, Anjali; Chang, Hsin-Yu; Finn, Robert Daniel; Mitchell, Alexander Lawson; Rawlings, Neil David; Richardson, Lorna; Sangrador-Vegas, Amaia; Blake, Judith A.; Christie, Karen R.; Dolan, Mary E.; Drabkin, Harold J.; Hill, David P.; Ni, Li; Sitnikov, Dmitry M.; Harris, Midori A.; Oliver, Stephen G.; Rutherford, Kim; Wood, Valerie; Hayles, Jaqueline; Bahler, Jurg; Bolton, Elizabeth R.; De Pons, Jeffery L.; Dwinell, Melinda R.; Hayman, G. Thomas; Kaldunski, Mary L.; Kwitek, Anne E.; Laulederkind, Stanley J. F.; Plasterer, Cody; Tutaj, Marek A.; Vedi, Mahima; Wang, Shur-Jen; D'Eustachio, Peter; Matthews, Lisa; Balhoff, James P.; Aleksander, Suzi A.; Alexander, Michael J.; Cherry, J. Michael; Engel, Stacia R.; Gondwe, Felix; Karra, Kalpana; Miyasato, Stuart R.; Nash, Robert S.; Simison, Matt; Skrzypek, Marek S.; Weng, Shuai; Wong, Edith D.; Feuermann, Marc; Gaudet, Pascale; Morgat, Anne; Bakker, Erica; Berardini, Tanya Z.; Reiser, Leonore; Subramaniam, Shabari; Huala, Eva; Arighi, Cecilia N.; Auchincloss, Andrea; Axelsen, Kristian; Argoud-Puy, Ghislaine; Bateman, Alex; Blatter, Marie-Claude; Boutet, Emmanuel; Bowler, Emily; Breuza, Lionel; Bridge, Alan; Britto, Ramona; Bye-A-Jee, Hema; Casas, Cristina Casals; Coudert, Elisabeth; Denny, Paul; Estreicher, Anne; Famiglietti, Maria Livia; Georghiou, George; Gos, Arnaud; Gruaz-Gumowski, Nadine; Hatton-Ellis, Emma; Hulo, Chantal; Ignatchenko, Alexandr; Jungo, Florence; Laiho, Kati; Le Mercier, Philippe; Lieberherr, Damien; Lock, Antonia; Lussi, Yvonne; MacDougall, Alistair; Magrane, Michele; Martin, Maria J.; Masson, Patrick; Natale, Darren A.; Hyka-Nouspikel, Nevila; Orchard, Sandra; Pedruzzi, Ivo; Pourcel, Lucille; Poux, Sylvain; Pundir, Sangya; Rivoire, Catherine; Speretta, Elena; Sundaram, Shyamala; Tyagi, Nidhi; Warner, Kate; Zaru, Rossana; Wu, Cathy H.; Diehl, Alexander D.; Chan, Juancarlos N.; Grove, Christian; Lee, Raymond Y. N.; Muller, Hans-Michael; Raciti, Daniela; Van Auken, Kimberly; Sternberg, Paul W.; Berriman, Matthew; Paulini, Michael; Howe, Kevin; Gao, Sibyl; Wright, Adam; Stein, Lincoln; Howe, Douglas G.; Toro, Sabrina; Westerfield, Monte; Jaiswal, Pankaj; Cooper, Laurel; Elser, Justin
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Automated generation of gene summaries at the Alliance of Genome Resources
err2020-06-19
err36
errOAAI
errKishore, Ranjana; Arnaboldi, Valerio; Van Slyke, Ceri E.; Chan, Juancarlos; Nash, Robert S.; Urbano, Jose M.; Dolan, Mary E.; Engel, Stacia R.; Shimoyama, Mary; Sternberg, Paul W.
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Incorporation of a unified protein abundance dataset into the Saccharomyces genome database
err2020-03-04
err4
errOAAI
errNash, Robert S.; Weng, Shuai; Karra, Kalpana; Wong, Edith D.; Engel, Stacia R.; Cherry, J. Michael
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Transcriptome visualization and data availability at the Saccharomyces Genome Database
err2019-10-15
err11
errOAAI
errNg, Patrick C.; Wong, Edith D.; MacPherson, Kevin A.; Aleksander, Suzi; Argasinska, Joanna; Dunn, Barbara; Nash, Robert S.; Skrzypek, Marek S.; Gondwe, Felix; Jha, Sagar; Karra, Kalpana; Weng, Shuai; Miyasato, Stuart; Simison, Matt; Engel, Stacia R.; Cherry, J. Michael
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Alliance of Genome Resources Portal: unified model organism research platform
err2019-09-25
err117
errOAAI
errAgapite, Julie; Albou, Laurent-Philippe; Aleksander, Suzi; Argasinska, Joanna; Arnaboldi, Valerio; Attrill, Helen; Bello, Susan M.; Blake, Judith A.; Blodgett, Olin; Bradford, Yvonne M.; Bult, Carol J.; Cain, Scott; Calvi, Brian R.; Carbon, Seth; Chan, Juancarlos; Chen, Wen J.; Cherry, J. Michael; Cho, Jaehyoung; Christie, Karen R.; Crosby, Madeline A.; De Pons, Jeff; Dolan, Mary E.; dos Santos, Gilberto; Dunn, Barbara Dunn Nathan; Eagle, Anne; Ebert, Dustin; Engel, Stacia R.; Fashena, David; Frazer, Ken; Gao, Sibyl; Gondwe, Felix; Goodman, Josh; Gramates, L. Sian; Grove, Christian A.; Harris, Todd; Harrison, Marie-Claire; Howe, Douglas G.; Howe, Kevin L.; Jha, Sagar; Kadin, James A.; Kaufman, Thomas C.; Kalita, Patrick; Karra, Kalpana; Kishore, Ranjana; Laulederkind, Stan; Lee, Raymond; MacPherson, Kevin A.; Marygold, Steven J.; Matthews, Beverley; Millburn, Gillian; Miyasato, Stuart; Moxon, Sierra; Mueller, Hans-Michael; Mungall, Christopher; Muruganujan, Anushya; Mushayahama, Tremayne; Nash, Robert S.; Ng, Patrick; Paulini, Michael; Perrimon, Norbert; Pich, Christian; Raciti, Daniela; Richardson, Joel E.; Russell, Matthew; Gelbart, Susan Russo; Ruzicka, Leyla; Schaper, Kevin; Shimoyama, Mary; Simison, Matt; Smith, Cynthia; Shaw, David R.; Shrivatsav, Ajay; Skrzypek, Marek; Smith, Jennifer R.; Sternberg, Paul W.; Tabone, Christopher J.; Thomas, Paul D.; Thota, Jyothi; Toro, Sabrina; Tomczuk, Monika; Tutaj, Marek; Tutaj, Monika; Urbano, Jose-Maria; Van Auken, Kimberly; Van Slyke, Ceri E.; Wang, Shur-Jen; Weng, Shuai; Westerfield, Monte; Williams, Gary; Wong, Edith D.; Wright, Adam; Yook, Karen
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Integration of macromolecular complex data into the Saccharomyces Genome Database
err2019-02-04
err8
errOAAI
errWong, Edith D.; Skrzypek, Marek S.; Weng, Shuai; Binkley, Gail; Meldal, Birgit H. M.; Perfetto, Livia; Orchard, Sandra E.; Engel, Stacia R.; Cherry, J. Michael
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Annotation of gene product function from high-throughput studies using the Gene Ontology
err2019-02-01
err23
errOAAI
errAttrill, Helen; Gaudet, Pascale; Huntley, Rachael P.; Lovering, Ruth C.; Engel, Stacia R.; Poux, Sylvain; Van Auken, Kimberly M.; Georghiou, George; Chibucos, Marcus C.; Berardini, Tanya Z.; Wood, Valerie; Drabkin, Harold; Fey, Petra; Garmiri, Penelope; Harris, Midori A.; Sawford, Tony; Reiser, Leonore; Tauber, Rebecca; Toro, Sabrina
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RNAcentral: a hub of information for non-coding RNA sequences (vol 47, pg D221, 2019)
err2018-12-08
err2
errOAAI
errSweeney, Blake A.; Petrov, Anton I.; Burkov, Boris; Finn, Robert D.; Bateman, Alex; Szymanski, Maciej; Karlowski, Wojciech M.; Gorodkin, Jan; Seemann, Stefan E.; Cannone, Jamie J.; Gutell, Robin R.; Fey, Petra; Basu, Siddhartha; Kay, Simon; Cochrane, Guy; Billis, Kostantinos; Emmert, David; Marygold, Steven J.; Huntley, Rachael P.; Lovering, Ruth C.; Frankish, Adam; Chan, Patricia P.; Lowe, Todd M.; Bruford, Elspeth; Seal, Ruth; Vandesompele, Jo; Volders, Pieter-Jan; Paraskevopoulou, Maria; Ma, Lina; Zhang, Zhang; Griffiths-Jones, Sam; Bujnicki, Janusz M.; Boccaletto, Pietro; Blake, Judith A.; Bult, Carol J.; Chen, Runsheng; Zhao, Yi; Wood, Valerie; Rutherford, Kim; Rivas, Elena; Cole, James; Laulederkind, Stanley J. F.; Shimoyama, Mary; Gillespie, Marc E.; Orlic-Milacic, Marija; Kalvari, Ioanna; Nawrocki, Eric; Engel, Stacia R.; Cherry, J. Michael; Berardini, Tanya Z.; Hatzigeorgiou, Artemis; Karagkouni, Dimitra; Howe, Kevin; Davis, Paul; Dinger, Marcel; He, Shunmin; Yoshihama, Maki; Kenmochi, Naoya; Stadler, Peter F.; Williams, Kelly P.
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RNAcentral: a hub of information for non-coding RNA sequences
err2018-11-05
err190
errOAAI
errSweeney, Blake A.; Petrov, Anton I.; Burkov, Boris; Finn, Robert D.; Bateman, Alex; Szymanski, Maciej; Karlowski, Wojciech M.; Gorodkin, Jan; Seemann, Stefan E.; Cannone, Jamie J.; Gutell, Robin R.; Fey, Petra; Basu, Siddhartha; Kay, Simon; Cochrane, Guy; Billis, Kostantinos; Emmert, David; Marygold, Steven J.; Huntley, Rachael P.; Lovering, Ruth C.; Frankish, Adam; Chan, Patricia P.; Lowe, Todd M.; Bruford, Elspeth; Seal, Ruth; Vandesompele, Jo; Volders, Pieter-Jan; Paraskevopoulou, Maria; Ma, Lina; Zhang, Zhang; Griffiths-Jones, Sam; Bujnicki, Janusz M.; Boccaletto, Pietro; Blake, Judith A.; Bult, Carol J.; Chen, Runsheng; Zhao, Yi; Wood, Valerie; Rutherford, Kim; Rivas, Elena; Cole, James; Laulederkind, Stanley J. F.; Shimoyama, Mary; Gillespie, Marc E.; Orlic-Milacic, Marija; Kalvari, Ioanna; Nawrocki, Eric; Engel, Stacia R.; Cherry, J. Michael; Berardini, Tanya Z.; Hatzigeorgiou, Artemis; Karagkouni, Dimitra; Howe, Kevin; Davis, Paul; Dinger, Marcel; He, Shunmin; Yoshihama, Maki; Kenmochi, Naoya; Stadler, Peter F.; Williams, Kelly P.
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Model organism data evolving in support of translational medicine
err2018-09-17
err30
errOAAI
errHowe, Douglas G.; Blake, Judith A.; Bradford, Yvonne M.; Bult, Carol J.; Calvi, Brian R.; Enge, Stacia R.; Kadin, James A.; Kaufman, Thomas C.; Kishores, Ranjana; Laulederkind, Stanleyj F.; Lewis, Suzanna E.; Moxon, Sierra A. T.; Richardson, Joel E.; Smith, Cynthia
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Updated regulation curation model at the Saccharomyces Genome Database
err2018-02-27
err3
errOAAI
errEngel, Stacia R.; Skrzypek, Marek S.; Hellerstedt, Sage T.; Wong, Edith D.; Nash, Robert S.; Weng, Shuai; Binkley, Gail; Sheppard, Travis K.; Karra, Kalpana; Cherry, J. Michael
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Saccharomyces genome database informs human biology
err2017-11-11
err24
errOAAI
errSkrzypek, Marek S.; Nash, Robert S.; Wong, Edith D.; MacPherson, Kevin A.; Hellerstedt, Sage T.; Engel, Stacia R.; Karra, Kalpana; Weng, Shuai; Sheppard, Travis K.; Binkley, Gail; Simison, Matt; Miyasato, Stuart R.; Cherry, J. Michael
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Curated protein information in the Saccharomyces genome database
err2017-03-11
err13
errOAAI
errHellerstedt, Sage T.; Nash, Robert S.; Weng, Shuai; Paskov, Kelley M.; Wong, Edith D.; Karra, Kalpana; Engel, Stacia R.; Cherry, J. Michael
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Outreach and online training services at the Saccharomyces Genome Database
err2017-02-26
err5
errOAAI
errMacPherson, Kevin A.; Starr, Barry; Wong, Edith D.; Dalusag, Kyla S.; Hellerstedt, Sage T.; Lang, OliviaW.; Nash, Robert S.; Skrzypek, Marek S.; Engel, Stacia R.; Cherry, J. Michael
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