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Items: 18

1.
Protein interaction network revealed by quantitative proteomic analysis links TFIIB to multiple aspects of the transcription cycle
Michael J. O’Brien, Athar Ansari
Biochim Biophys Acta Proteins Proteom. Author manuscript; available in PMC 2024 Feb 16.
Published in final edited form as: Biochim Biophys Acta Proteins Proteom. 2024 Jan 1; 1872(1): 140968. Published online 2023 Oct 19. doi: 10.1016/j.bbapap.2023.140968
PMCID:
PMC10872477
AbstractArticlePDF–1.7M
2.
The social and structural architecture of the yeast protein interactome
André C. Michaelis, Andreas-David Brunner, Maximilian Zwiebel, Florian Meier, Maximilian T. Strauss, Isabell Bludau, Matthias Mann
Nature. 2023; 624(7990): 192–200. Published online 2023 Nov 15. doi: 10.1038/s41586-023-06739-5
PMCID:
PMC10700138
AbstractArticlePDF–20M
3.
A systematic proximity ligation approach to studying protein‐substrate specificity identifies the substrate spectrum of the Ssh1 translocon
Nir Cohen, Naama Aviram, Maya Schuldiner
EMBO J. 2023 Jun; 42(11): e113385. Published online 2023 Apr 19. doi: 10.15252/embj.2022113385
PMCID:
PMC10233368
AbstractArticlePDF–1.2M
4.
Elucidation of the interaction proteome of mitochondrial chaperone Hsp78 highlights its role in protein aggregation during heat stress
Witold Jaworek, Marc Sylvester, Giovanna Cenini, Wolfgang Voos
J Biol Chem. 2022 Oct; 298(10): 102494. Published online 2022 Sep 15. doi: 10.1016/j.jbc.2022.102494
PMCID:
PMC9574514
AbstractArticlePDF–1.9M
5.
New data and collaborations at the Saccharomyces Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources
Stacia R Engel, Edith D Wong, Robert S Nash, Suzi Aleksander, Micheal Alexander, Eric Douglass, Kalpana Karra, Stuart R Miyasato, Matt Simison, Marek S Skrzypek, Shuai Weng, J Michael Cherry
Genetics. 2022 Apr; 220(4): iyab224. Published online 2021 Dec 13. doi: 10.1093/genetics/iyab224
PMCID:
PMC9209811
AbstractArticlePDF–818K
6.
Catalytic residues, substrate specificity, and role in carbon starvation of the 2-hydroxy FA dioxygenase Mpo1 in yeast
Keisuke Mori, Takashi Obara, Naoya Seki, Masatoshi Miyamoto, Tatsuro Naganuma, Takuya Kitamura, Akio Kihara
J Lipid Res. 2020 Jul; 61(7): 1104–1114. Published online 2020 Apr 29. doi: 10.1194/jlr.RA120000803
PMCID:
PMC7328046
AbstractArticlePDF–1.5M
7.
A global interaction network maps a wiring diagram of cellular function
Michael Costanzo, Benjamin VanderSluis, Elizabeth N. Koch, Anastasia Baryshnikova, Carles Pons, Guihong Tan, Wen Wang, Matej Usaj, Julia Hanchard, Susan D. Lee, Vicent Pelechano, Erin B. Styles, Maximilian Billmann, Jolanda van Leeuwen, Nydia van Dyk, Zhen-Yuan Lin, Elena Kuzmin, Justin Nelson, Jeff S. Piotrowski, Tharan Srikumar, Sondra Bahr, Yiqun Chen, Raamesh Deshpande, Christoph F. Kurat, Sheena C. Li, Zhijian Li, Mojca Mattiazzi Usaj, Hiroki Okada, Natasha Pascoe, Bryan-Joseph San Luis, Sara Sharifpoor, Emira Shuteriqi, Scott W. Simpkins, Jamie Snider, Harsha Garadi Suresh, Yizhao Tan, Hongwei Zhu, Noel Malod-Dognin, Vuk Janjic, Natasa Przulj, Olga G. Troyanskaya, Igor Stagljar, Tian Xia, Yoshikazu Ohya, Anne-Claude Gingras, Brian Raught, Michael Boutros, Lars M. Steinmetz, Claire L. Moore, Adam P. Rosebrock, Amy A. Caudy, Chad L. Myers, Brenda Andrews, Charles Boone
Science. Author manuscript; available in PMC 2017 Oct 30.
Published in final edited form as: Science. 2016 Sep 23; 353(6306): aaf1420. doi: 10.1126/science.aaf1420
PMCID:
PMC5661885
AbstractArticlePDF–2.6M
8.
The Genetic Landscape of a Cell
Michael Costanzo, Anastasia Baryshnikova, Jeremy Bellay, Yungil Kim, Eric D. Spear, Carolyn S. Sevier, Huiming Ding, Judice L.Y. Koh, Kiana Toufighi, Sara Mostafavi, Jeany Prinz, Robert P. St. Onge, Benjamin VanderSluis, Taras Makhnevych, Franco J. Vizeacoumar, Solmaz Alizadeh, Sondra Bahr, Renee L. Brost, Yiqun Chen, Murat Cokol, Raamesh Deshpande, Zhijian Li, Zhen-Yuan Lin, Wendy Liang, Michaela Marback, Jadine Paw, Bryan-Joseph San Luis, Ermira Shuteriqi, Amy Hin Yan Tong, Nydia van Dyk, Iain M. Wallace, Joseph A. Whitney, Matthew T. Weirauch, Guoqing Zhong, Hongwei Zhu, Walid A. Houry, Michael Brudno, Sasan Ragibizadeh, Balázs Papp, Csaba Pál, Frederick P. Roth, Guri Giaever, Corey Nislow, Olga G. Troyanskaya, Howard Bussey, Gary D. Bader, Anne-Claude Gingras, Quaid D. Morris, Philip M. Kim, Chris A. Kaiser, Chad L. Myers, Brenda J. Andrews, Charles Boone
Science. Author manuscript; available in PMC 2017 Sep 15.
Published in final edited form as: Science. 2010 Jan 22; 327(5964): 425–431. doi: 10.1126/science.1180823
PMCID:
PMC5600254
AbstractArticlePDF–2.4M
9.
Interrogation of γ-tubulin alleles using high-resolution fitness measurements reveals a distinct cytoplasmic function in spindle alignment
Kristian Shulist, Eric Yen, Susanne Kaitna, Allen Leary, Alexandra Decterov, Debarun Gupta, Jackie Vogel
Sci Rep. 2017; 7: 11398. Published online 2017 Sep 12. doi: 10.1038/s41598-017-11789-7
Correction in:
Sci Rep. 2018; 8: 2513.
PMCID:
PMC5595808
AbstractArticlePDF–5.9M
10.
One library to make them all: Streamlining yeast library creation by a SWAp-Tag (SWAT) strategy
Ido Yofe, Uri Weill, Matthias Meurer, Silvia Chuartzman, Einat Zalckvar, Omer Goldman, Shifra Ben-Dor, Conny Schütze, Nils Wiedemann, Michael Knop, Anton Khmelinskii, Maya Schuldiner
Nat Methods. Author manuscript; available in PMC 2016 Sep 22.
Published in final edited form as: Nat Methods. 2016 Apr; 13(4): 371–378. Published online 2016 Feb 29. doi: 10.1038/nmeth.3795
PMCID:
PMC4869835
AbstractArticlePDF–2.7M
11.
A comprehensive analysis of replicative lifespan in 4,698 single-gene deletion strains uncovers conserved mechanisms of aging
Mark A. McCormick, Joe R. Delaney, Mitsuhiro Tsuchiya, Scott Tsuchiyama, Anna Shemorry, Sylvia Sim, Annie Chia-Zong Chou, Umema Ahmed, Daniel Carr, Christopher J. Murakami, Jennifer Schleit, George L. Sutphin, Brian M. Wasko, Christopher F. Bennett, Adrienne M. Wang, Brady Olsen, Richard P. Beyer, Theodor K. Bammler, Donna Prunkard, Simon C. Johnson, Juniper K. Pennypacker, Elroy An, Arieanna Anies, Anthony S. Castanza, Eunice Choi, Nick Dang, Shiena Enerio, Marissa Fletcher, Lindsay Fox, Sarani Goswami, Sean A. Higgins, Molly A. Holmberg, Di Hu, Jessica Hui, Monika Jelic, Ki-Soo Jeong, Elijah Johnston, Emily O. Kerr, Jin Kim, Diana Kim, Katie Kirkland, Shannon Klum, Soumya Kotireddy, Eric Liao, Michael Lim, Michael S. Lin, Winston C. Lo, Dan Lockshon, Hillary A. Miller, Richard M. Moller, Brian Muller, Jonathan Oakes, Diana N. Pak, Zhao Jun Peng, Kim M. Pham, Tom G. Pollard, Prarthana Pradeep, Dillon Pruett, Dilreet Rai, Brett Robison, Ariana A. Rodriguez, Bopharoth Ros, Michael Sage, Manpreet K. Singh, Erica D. Smith, Katie Snead, Amrita Solanky, Benjamin L. Spector, Kristan K. Steffen, Bie Nga Tchao, Marc K. Ting, Helen Vander Wende, Dennis Wang, K. Linnea Welton, Eric A. Westman, Rachel B. Brem, Xin-guang Liu, Yousin Suh, Zhongjun Zhou, Matt Kaeberlein, Brian K. Kennedy
Cell Metab. Author manuscript; available in PMC 2016 Nov 3.
Published in final edited form as: Cell Metab. 2015 Nov 3; 22(5): 895–906. Published online 2015 Oct 8. doi: 10.1016/j.cmet.2015.09.008
PMCID:
PMC4862740
AbstractArticlePDF–1.6M
12.
High-Resolution View of the Yeast Meiotic Program Revealed by Ribosome Profiling
Gloria A. Brar, Moran Yassour, Nir Friedman, Aviv Regev, Nicholas T. Ingolia, Jonathan S. Weissman
Science. Author manuscript; available in PMC 2012 Aug 8.
Published in final edited form as: Science. 2012 Feb 3; 335(6068): 552–557. Published online 2011 Dec 22. doi: 10.1126/science.1215110
PMCID:
PMC3414261
AbstractArticlePDF–3.4M
13.
Functional wiring of the yeast kinome revealed by global analysis of genetic network motifs
Sara Sharifpoor, Dewald van Dyk, Michael Costanzo, Anastasia Baryshnikova, Helena Friesen, Alison C. Douglas, Ji-Young Youn, Benjamin VanderSluis, Chad L. Myers, Balázs Papp, Charles Boone, Brenda J. Andrews
Genome Res. 2012 Apr; 22(4): 791–801. doi: 10.1101/gr.129213.111
PMCID:
PMC3317160
AbstractArticlePDF–998K
14.
The nucleotide sequence of Saccharomyces cerevisiae chromosome V
F. S. Dietrich, J. Mulligan, K. Hennessy, M. A. Yelton, E. Allen, R. Araujo, E. Aviles, A. Berno, T. Brennan, J. Carpenter, E. Chen, J. M. Cherry, E. Chung, M. Duncan, E. Guzman, G. Hartzell, S. Hunicke-Smith, R. W. Hyman, A. Kayser, C. Komp, D. Lashkari, H. Lew, D. Lin, D. Mosedale, K. Nakahara, A. Namath, R. Norgren, P. Oefner, C. Oh, F. X. Petel, D. Roberts, P. Sehl, S. Schramm, T. Shogren, V. Smith, P. Taylor, Y. Wei, D. Botstein, R. W. Davis
Nature. Author manuscript; available in PMC 2011 Mar 15.
Published in final edited form as: Nature. 1997 May 29; 387(6632 Suppl): 78–81.
PMCID:
PMC3057095
AbstractArticlePDF–73K
15.
Purification of Nuclear Poly(A)-binding Protein Nab2 Reveals Association with the Yeast Transcriptome and a Messenger Ribonucleoprotein Core Structure
Julien Batisse, Claire Batisse, Aidan Budd, Bettina Böttcher, Ed Hurt
J Biol Chem. 2009 Dec 11; 284(50): 34911–34917. Published online 2009 Oct 19. doi: 10.1074/jbc.M109.062034
PMCID:
PMC2787353
AbstractArticlePDF–3.8M
16.
High Quality Binary Protein Interaction Map of the Yeast Interactome Network
Haiyuan Yu, Pascal Braun, Muhammed A. Yildirim, Irma Lemmens, Kavitha Venkatesan, Julie Sahalie, Tomoko Hirozane-Kishikawa, Fana Gebreab, Na Li, Nicolas Simonis, Tong Hao, Jean-Francois Rual, Amélie Dricot, Alexei Vazquez, Ryan R. Murray, Christophe Simon, Leah Tardivo, Stanley Tam, Nenad Svrzikapa, Changyu Fan, Anne-Sophie de Smet, Adriana Motyl, Michael E. Hudson, Juyong Park, Xiaofeng Xin, Michael E. Cusick, Troy Moore, Charlie Boone, Michael Snyder, Frederick P. Roth, Albert-László Barabási, Jan Tavernier, David E. Hill, Marc Vidal
Science. Author manuscript; available in PMC 2009 Sep 18.
Published in final edited form as: Science. 2008 Oct 3; 322(5898): 104–110. Published online 2008 Aug 21. doi: 10.1126/science.1158684
PMCID:
PMC2746753
AbstractArticlePDF–2.2M
17.
Association of yeast Upf1p with direct substrates of the NMD pathway
Marcus J. O. Johansson, Feng He, Phyllis Spatrick, Chunfang Li, Allan Jacobson
Proc Natl Acad Sci U S A. 2007 Dec 26; 104(52): 20872–20877. Published online 2007 Dec 17. doi: 10.1073/pnas.0709257105
PMCID:
PMC2409234
AbstractArticlePDF–864K
18.
Purification, molecular cloning, and expression of 2-hydroxyphytanoyl-CoA lyase, a peroxisomal thiamine pyrophosphate-dependent enzyme that catalyzes the carbon–carbon bond cleavage during α-oxidation of 3-methyl-branched fatty acids
Veerle Foulon, Vasily D. Antonenkov, Kathleen Croes, Etienne Waelkens, Guy P. Mannaerts, Paul P. Van Veldhoven, Minne Casteels
Proc Natl Acad Sci U S A. 1999 Aug 31; 96(18): 10039–10044. doi: 10.1073/pnas.96.18.10039
PMCID:
PMC17838
AbstractArticlePDF–227K

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