Shuai Weng

According to our database, Shuai Weng authored at least 34 papers between 1998 and 2021.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2021

RNAcentral 2021: secondary structure integration, improved sequence search and new member databases.

Blake A. Sweeney, Anton I. Petrov, Carlos Eduardo Ribas, Robert D. Finn, Alex Bateman, Maciej Szymanski, Wojciech M. Karlowski, Stefan E. Seemann, Jan Gorodkin, Jamie J. Cannone, Robin Ray Gutell, Simon Kay, Steven J. Marygold, Gilberto dos Santos, Adam Frankish, Jonathan M. Mudge, Ruth Barshir, Simon Fishilevich, Patricia P. Chan, Todd M. Lowe, Ruth L. Seal, Elspeth A. Bruford, Simona Panni, Pablo Porras, Dimitra Karagkouni, Artemis G. Hatzigeorgiou, Lina Ma, Zhang Zhang, Pieter-Jan Volders, Pieter Mestdagh, Sam Griffiths-Jones, Bastian Fromm, Kevin J. Peterson, Ioanna Kalvari, Eric P. Nawrocki, Anton S. Petrov, Shuai Weng, Philia Bouchard-Bourelle, Michelle S. Scott, Lauren M. Lui, David Hoksza, Ruth C. Lovering, Barbara Kramarz, Prita Mani, Sridhar Ramachandran, Zasha Weinberg

Nucleic Acids Res., 2021

The Gene Ontology resource: enriching a GOld mine.

Seth Carbon, Eric Douglass, Benjamin M. Good, Deepak R. Unni, Nomi L. Harris, Christopher J. Mungall, Siddartha Basu, Rex L. Chisholm, Robert J. Dodson, Eric Hartline, Petra Fey, Paul D. Thomas, Laurent-Philippe Albou, Dustin Ebert, Michael J. Kesling, Huaiyu Mi, Anushya Muruganujan, Xiaosong Huang, Tremayne Mushayahama, Sandra A. LaBonte, Deborah A. Siegele, Giulia Antonazzo, Helen Attrill, Nick H. Brown, Phani V. Garapati, Steven J. Marygold, Vitor Trovisco, Gilberto dos Santos, Kathleen Falls, Christopher J. Tabone, Pinglei Zhou, Joshua L. Goodman, Victor B. Strelets, Jim Thurmond, Penelope Garmiri, Rizwan Ishtiaq, Milagros Rodríguez-López, Marcio Luis Acencio, Martin Kuiper, Astrid Lægreid, Colin Logie, Ruth C. Lovering, Barbara Kramarz, Shirin C. C. Saverimuttu, Sandra M. Pinheiro, Heather Gunn, Renzhi Su, Katherine E. Thurlow, Marcus C. Chibucos, Michelle G. Giglio, Suvarna Nadendla, James B. Munro, Rebecca C. Jackson, Margaret J. Duesbury, Noemi del-Toro, Birgit H. M. Meldal, Kalpana Paneerselvam, Livia Perfetto, Pablo Porras, Sandra E. Orchard, Anjali Shrivastava, Hsin-Yu Chang, Robert D. Finn, Alex L. Mitchell, Neil D. Rawlings, Lorna J. Richardson, Amaia Sangrador-Vegas, Judith A. Blake, Karen R. Christie, Mary E. Dolan, Harold J. Drabkin, David P. Hill, Li Ni, Dmitry M. Sitnikov, Midori A. Harris, Stephen G. Oliver, Kim Rutherford, Valerie Wood, Jaqueline Hayles, Jürg Bähler, Elizabeth R. Bolton, Jeffrey DePons, Melinda R. Dwinell, G. Thomas Hayman, Mary L. Kaldunski, Anne E. Kwitek, Stanley J. F. Laulederkind, Cody Plasterer, Marek Tutaj, Mahima Vedi, Shur-Jen Wang, Peter D'Eustachio, Lisa Matthews, James P. Balhoff, Suzi A. Aleksander, Michael J. Alexander, J. Michael Cherry, Stacia R. Engel, Felix Gondwe, Kalpana Karra, Stuart R. Miyasato, Robert S. Nash, Matt Simison, Marek S. Skrzypek, Shuai Weng, Edith D. Wong, Marc Feuermann, Pascale Gaudet, Anne Morgat, Erica Bakker, Tanya Z. Berardini, Leonore Reiser, Shabari Subramaniam, Eva Huala, Cecilia N. Arighi, Andrea H. Auchincloss, Kristian B. Axelsen, Ghislaine Argoud-Puy, Alex Bateman, Marie-Claude Blatter, Emmanuel Boutet, Emily Bowler, Lionel Breuza, Alan J. Bridge, Ramona Britto, Hema Bye-A-Jee, Cristina Casals-Casas, Elisabeth Coudert, Paul Denny, Anne Estreicher, Maria Livia Famiglietti, George E. Georghiou, Arnaud Gos, Nadine Gruaz-Gumowski, Emma Hatton-Ellis, Chantal Hulo, Alexandr Ignatchenko, Florence Jungo, Kati Laiho, Philippe Le Mercier, Damien Lieberherr, Antonia Lock, Yvonne Lussi, Alistair MacDougall, Michele Magrane, Maria Jesus Martin, Patrick Masson, Darren A. Natale, Nevila Hyka-Nouspikel, Ivo Pedruzzi, Lucille Pourcel, Sylvain Poux, Sangya Pundir, Catherine Rivoire, Elena Speretta, Shyamala Sundaram, Nidhi Tyagi, Kate Warner, Rossana Zaru, Cathy H. Wu, Alexander D. Diehl, Juancarlos Chan, Christian A. Grove, Raymond Y. N. Lee, Hans-Michael Müller, Daniela Raciti, Kimberly Van Auken, Paul W. Sternberg, Matthew Berriman, Michael Paulini, Kevin L. Howe, Sibyl Gao, Adam Wright, Lincoln Stein, Douglas G. Howe, Sabrina Toro, Monte Westerfield, Pankaj Jaiswal, Laurel Cooper, Justin Elser

Nucleic Acids Res., 2021

2020

Transcriptome visualization and data availability at the Saccharomyces Genome Database.

Patrick C. Ng, Edith D. Wong, Kevin A. MacPherson, Suzi A. Aleksander, Joanna Argasinska, Barbara Dunn, Robert S. Nash, Marek S. Skrzypek, Felix Gondwe, Sagar Jha, Kalpana Karra, Shuai Weng, Stuart R. Miyasato, Matt Simison, Stacia R. Engel, J. Michael Cherry

Nucleic Acids Res., 2020

Alliance of Genome Resources Portal: unified model organism research platform.

Julie Agapite, Laurent-Philippe Albou, Suzi A. Aleksander, Joanna Argasinska, Valerio Arnaboldi, Helen Attrill, Susan M. Bello, Judith A. Blake, Olin Blodgett, Yvonne M. Bradford, Carol J. Bult, Scott Cain, Brian R. Calvi, Seth Carbon, Juancarlos Chan, Wen J. Chen, J. Michael Cherry, Jae-Hyoung Cho, Karen R. Christie, Madeline A. Crosby, Jeff de Pons, Mary E. Dolan, Gilberto dos Santos, Barbara Dunn, Nathan A. Dunn, Anne E. Eagle, Dustin Ebert, Stacia R. Engel, David Fashena, Ken Frazer, Sibyl Gao, Felix Gondwe, Joshua L. Goodman, L. Sian Gramates, Christian A. Grove, Todd W. Harris, Marie-Claire Harrison, Douglas G. Howe, Kevin L. Howe, Sagar Jha, James A. Kadin, Thomas C. Kaufman, Patrick Kalita, Kalpana Karra, Ranjana Kishore, Stanley J. F. Laulederkind, Raymond Y. N. Lee, Kevin A. MacPherson, Steven J. Marygold, Beverley Matthews, Gillian H. Millburn, Stuart R. Miyasato, Sierra A. T. Moxon, Hans-Michael Müller, Christopher J. Mungall, Anushya Muruganujan, Tremayne Mushayahama, Robert S. Nash, Patrick Ng, Michael Paulini, Norbert Perrimon, Christian Pich, Daniela Raciti, Joel E. Richardson, Matthew Russell, Susan Russo Gelbart, Leyla Ruzicka, Kevin Schaper, Mary Shimoyama, Matt Simison, Cynthia L. Smith, David R. Shaw, Ajay Shrivatsav, Marek S. Skrzypek, Jennifer R. Smith, Paul W. Sternberg, Christopher J. Tabone, Paul D. Thomas, Jyothi Thota, Sabrina Toro, Monika Tomczuk, Marek Tutaj, Monika Tutaj, Jose-Maria Urbano, Kimberly Van Auken, Ceri E. Van Slyke, Shur-Jen Wang, Shuai Weng, Monte Westerfield, Gary Williams, Edith D. Wong, Adam Wright, Karen Yook

Nucleic Acids Res., 2020

Incorporation of a unified protein abundance dataset into the Saccharomyces genome database.

Robert S. Nash, Shuai Weng, Kalpana Karra, Edith D. Wong, Stacia R. Engel, J. Michael Cherry, SGD Project

Database J. Biol. Databases Curation, 2020

2019

Integration of macromolecular complex data into the Saccharomyces Genome Database.

Edith D. Wong, Marek S. Skrzypek, Shuai Weng, Gail Binkley, Birgit H. M. Meldal, Livia Perfetto, Sandra E. Orchard, Stacia R. Engel, J. Michael Cherry, SGD Project

Database J. Biol. Databases Curation, 2019

2018

Saccharomyces genome database informs human biology.

Marek S. Skrzypek, Robert S. Nash, Edith D. Wong, Kevin A. MacPherson, Sage T. Hellerstedt, Stacia R. Engel, Kalpana Karra, Shuai Weng, Travis K. Sheppard, Gail Binkley, Matt Simison, Stuart R. Miyasato, J. Michael Cherry

Nucleic Acids Res., 2018

Updated regulation curation model at the Saccharomyces Genome Database.

Stacia R. Engel, Marek S. Skrzypek, Sage T. Hellerstedt, Edith D. Wong, Robert S. Nash, Shuai Weng, Gail Binkley, Travis K. Sheppard, Kalpana Karra, J. Michael Cherry

Database J. Biol. Databases Curation, 2018

2017

Curated protein information in the Saccharomyces genome database.

Sage T. Hellerstedt, Robert S. Nash, Shuai Weng, Kelley M. Paskov, Edith D. Wong, Kalpana Karra, Stacia R. Engel, J. Michael Cherry

Database J. Biol. Databases Curation, 2017

2016

The <i>Saccharomyces</i> Genome Database Variant Viewer.

Travis K. Sheppard, Benjamin C. Hitz, Stacia R. Engel, Giltae Song, Rama Balakrishnan, Gail Binkley, Maria C. Costanzo, Kyla S. Dalusag, Janos Demeter, Sage T. Hellerstedt, Kalpana Karra, Robert S. Nash, Kelley M. Paskov, Marek S. Skrzypek, Shuai Weng, Edith D. Wong, J. Michael Cherry

Nucleic Acids Res., 2016

Integration of new alternative reference strain genome sequences into the <i>Saccharomyces</i> genome database.

Giltae Song, Rama Balakrishnan, Gail Binkley, Maria C. Costanzo, Kyla S. Dalusag, Janos Demeter, Stacia R. Engel, Sage T. Hellerstedt, Kalpana Karra, Benjamin C. Hitz, Robert S. Nash, Kelley M. Paskov, Travis K. Sheppard, Marek S. Skrzypek, Shuai Weng, Edith D. Wong, J. Michael Cherry

Database J. Biol. Databases Curation, 2016

From one to many: expanding the <i>Saccharomyces cerevisiae</i> reference genome panel.

Stacia R. Engel, Shuai Weng, Gail Binkley, Kelley M. Paskov, Giltae Song, J. Michael Cherry

Database J. Biol. Databases Curation, 2016

2014

<i>Saccharomyces</i> genome database provides new regulation data.

Maria C. Costanzo, Stacia R. Engel, Edith D. Wong, Paul Lloyd, Kalpana Karra, Esther T. Chan, Shuai Weng, Kelley M. Paskov, Greg R. Roe, Gail Binkley, Benjamin C. Hitz, J. Michael Cherry

Nucleic Acids Res., 2014

2012

Saccharomyces Genome Database: the genomics resource of budding yeast.

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

Nucleic Acids Res., 2012

2010

<i>Saccharomyces</i> Genome Database provides mutant phenotype data.

Stacia R. Engel, Rama Balakrishnan, Gail Binkley, Karen R. Christie, Maria C. Costanzo, Selina S. Dwight, Dianna G. Fisk, Jodi E. Hirschman, Benjamin C. Hitz, Eurie L. Hong, Cynthia J. Krieger, Michael S. Livstone, Stuart R. Miyasato, Robert S. Nash, Rose Oughtred, Julie Park, Marek S. Skrzypek, Shuai Weng, Edith D. Wong, Kara Dolinski, David Botstein, J. Michael Cherry

Nucleic Acids Res., 2010

2008

Gene Ontology annotations at SGD: new data sources and annotation methods.

Eurie L. Hong, Rama Balakrishnan, Qing Dong, Karen R. Christie, Julie Park, Gail Binkley, Maria C. Costanzo, Selina S. Dwight, Stacia R. Engel, Dianna G. Fisk, Jodi E. Hirschman, Benjamin C. Hitz, Cynthia J. Krieger, Michael S. Livstone, Stuart R. Miyasato, Robert S. Nash, Rose Oughtred, Marek S. Skrzypek, Shuai Weng, Edith D. Wong, Kathy K. Zhu, Kara Dolinski, David Botstein, J. Michael Cherry

Nucleic Acids Res., 2008

2007

Expanded protein information at SGD: new pages and proteome browser.

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

Nucleic Acids Res., 2007

2006

<i>Tetrahymena</i> Genome Database (TGD): a new genomic resource for <i>Tetrahymena thermophila</i> research.

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

Nucleic Acids Res., 2006

Genome Snapshot: a new resource at the <i>Saccharomyces</i> Genome Database (SGD) presenting an overview of the <i>Saccharomyces cerevisiae</i> genome.

Jodi E. Hirschman, Rama Balakrishnan, Karen R. Christie, Maria C. Costanzo, Selina S. Dwight, Stacia R. Engel, Dianna G. Fisk, Eurie L. Hong, Michael S. Livstone, Robert S. Nash, Julie Park, Rose Oughtred, Marek S. Skrzypek, Barry Starr, Chandra L. Theesfeld, Jennifer M. Williams, Rey Andrada, Gail Binkley, Qing Dong, Christopher Lane, Stuart R. Miyasato, Anand Sethuraman, Mark Schroeder, Mayank K. Thanawala, Shuai Weng, Kara Dolinski, David Botstein, J. Michael Cherry

Nucleic Acids Res., 2006

2005

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

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

Nucleic Acids Res., 2005

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

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

Nucleic Acids Res., 2005

2004

Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms.

Karen R. Christie, Shuai Weng, Rama Balakrishnan, Maria C. Costanzo, Kara Dolinski, Selina S. Dwight, Stacia R. Engel, Becket Feierbach, Dianna G. Fisk, Jodi E. Hirschman, Eurie L. Hong, Laurie Issel-Tarver, Robert S. Nash, Anand Sethuraman, Barry Starr, Chandra L. Theesfeld, Rey Andrada, Gail Binkley, Qing Dong, Christopher Lane, Mark Schroeder, David Botstein, J. Michael Cherry

Nucleic Acids Res., 2004

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

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

Bioinform., 2004

Saccharomyces genome database: Underlying principles and organisation.

Selina S. Dwight, Rama Balakrishnan, Karen R. Christie, Maria C. Costanzo, Kara Dolinski, Stacia R. Engel, Becket Feierbach, Dianna G. Fisk, Jodi E. Hirschman, Eurie L. Hong, Laurie Issel-Tarver, Robert S. Nash, Anand Sethuraman, Barry Starr, Chandra L. Theesfeld, Rey Andrada, Gail Binkley, Qing Dong, Christopher Lane, Mark Schroeder, Shuai Weng, David Botstein, J. Michael Cherry

Briefings Bioinform., 2004

2003

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

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

Nucleic Acids Res., 2003

Gene Function, Metabolic Pathways and Comparative Genomics in Yeast.

Qing Dong, Rama Balakrishnan, Gail Binkley, Karen R. Christie, Maria C. Costanzo, Kara Dolinski, Selina S. Dwight, Stacia R. Engel, Dianna G. Fisk, Jodi E. Hirschman, Eurie L. Hong, Robert S. Nash, Laurie Issel-Tarver, Anand Sethuraman, Chandra L. Theesfeld, Shuai Weng, David Botstein, J. Michael Cherry

Proceedings of the 2nd IEEE Computer Society Bioinformatics Conference, 2003

2002

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

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

Nucleic Acids Res., 2002

2001

The Stanford Microarray Database.

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

Nucleic Acids Res., 2001

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

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

Nucleic Acids Res., 2001

2000

Integrating functional genomic information into the Saccharomyces Genome Database.

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

Nucleic Acids Res., 2000

1999

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

Seung Yon Rhee, Shuai Weng, Deverie K. Bongard-Pierce, Margarita Garcia-Hernandez, Alice Malekian, David J. Flanders, J. Michael Cherry

Nucleic Acids Res., 1999

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

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

Nucleic Acids Res., 1999

1998

AtDB, the Arabidopsis thaliana database, and graphical-web-display of progress by the Arabidopsis Genome Initiative.

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

Nucleic Acids Res., 1998

SGD: Saccharomyces Genome Database.

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

Nucleic Acids Res., 1998