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Select item 102333681.

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

Abstract Article PDF–1.2M

Select item 92098112.

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

Abstract Article PDF–818K

Select item 77592993.

A selective transmembrane recognition mechanism by a membrane-anchored ubiquitin ligase adaptor

Felichi Mae Arines, Aaron Jeremy Hamlin, Xi Yang, Yun-Yu Jennifer Liu, Ming Li

J Cell Biol. 2021 Jan 4; 220(1): e202001116. Published online 2020 Dec 22. doi: 10.1083/jcb.202001116

PMCID:: PMC7759299

Abstract Article PDF–8.1M

Select item 70550074.

TORC1 regulates vacuole membrane composition through ubiquitin- and ESCRT-dependent microautophagy

Xi Yang, Weichao Zhang, Xin Wen, Patrick J. Bulinski, Dominic A. Chomchai, Felichi Mae Arines, Yun-Yu Liu, Simon Sprenger, David Teis, Daniel J. Klionsky, Ming Li

J Cell Biol. 2020 Mar 2; 219(3): e201902127. Published online 2020 Feb 11. doi: 10.1083/jcb.201902127

PMCID:: PMC7055007

Abstract Article PDF–8.0M

Select item 67277575.

Retrograde trafficking and quality control of yeast synaptobrevin, Snc1, are conferred by its transmembrane domain

Mengxiao Ma, Christopher G. Burd

Mol Biol Cell. 2019 Jul 1; 30(14): 1729–1742. doi: 10.1091/mbc.E19-02-0117

PMCID:: PMC6727757

Abstract Article PDF–2.4M

Select item 63145616.

Rsp5 Ubiquitin ligase–mediated quality control system clears membrane proteins mistargeted to the vacuole membrane

Richa Sardana, Lu Zhu, Scott D. Emr

J Cell Biol. 2019 Jan 7; 218(1): 234–250. doi: 10.1083/jcb.201806094

PMCID:: PMC6314561

Abstract Article PDF–3.8M

Select item 57653597.

Genome-Wide Mapping of Decay Factor–mRNA Interactions in Yeast Identifies Nutrient-Responsive Transcripts as Targets of the Deadenylase Ccr4

Jason E. Miller, Liye Zhang, Haoyang Jiang, Yunfei Li, B. Franklin Pugh, Joseph C. Reese

G3 (Bethesda) 2018 Jan; 8(1): 315–330. Published online 2017 Nov 20. doi: 10.1534/g3.117.300415

PMCID:: PMC5765359

Abstract Article PDF–2.2M

Select item 56618858.

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

Abstract Article PDF–2.6M

Select item 56002549.

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

Abstract Article PDF–2.4M

Select item 550766710.

ESCRTs function directly on the lysosome membrane to downregulate ubiquitinated lysosomal membrane proteins

Lu Zhu, Jeff R Jorgensen, Ming Li, Ya-Shan Chuang, Scott D Emr

eLife. 2017; 6: e26403. Published online 2017 Jun 29. doi: 10.7554/eLife.26403

PMCID:: PMC5507667

Abstract Article PDF–7.1M

Select item 520434811.

A novel translational control mechanism involving RNA structures within coding sequences

Jennifer Jungfleisch, Danny D. Nedialkova, Ivan Dotu, Katherine E. Sloan, Neus Martinez-Bosch, Lukas Brüning, Emanuele Raineri, Pilar Navarro, Markus T. Bohnsack, Sebastian A. Leidel, Juana Díez

Genome Res. 2017 Jan; 27(1): 95–106. doi: 10.1101/gr.209015.116

Correction in:: Genome Res. 2017 Apr; 27(4): 663.

PMCID:: PMC5204348

Abstract Article PDF–1.3M

Select item 486983512.

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

Abstract Article PDF–2.7M

Select item 469352513.

Ubiquitin‐Activated Interaction Traps (UBAITs) identify E3 ligase binding partners

Hazel F O'Connor, Nancy Lyon, Justin W Leung, Poonam Agarwal, Caleb D Swaim, Kyle M Miller, Jon M Huibregtse

EMBO Rep. 2015 Dec; 16(12): 1699–1712. Published online 2015 Oct 27. doi: 10.15252/embr.201540620

PMCID:: PMC4693525

Abstract Article PDF–693K

Select item 463987114.

Membrane-anchored ubiquitin ligase complex is required for the turnover of lysosomal membrane proteins

Ming Li, Tatsuhiro Koshi, Scott D. Emr

J Cell Biol. 2015 Nov 9; 211(3): 639–652. doi: 10.1083/jcb.201505062

PMCID:: PMC4639871

Abstract Article PDF–8.2M

Select item 461603915.

Integrated multi-omics analyses reveal the pleiotropic nature of the control of gene expression by Puf3p

Christopher J. Kershaw, Joseph L. Costello, David Talavera, William Rowe, Lydia M. Castelli, Paul F. G. Sims, Christopher M. Grant, Mark P. Ashe, Simon J. Hubbard, Graham D. Pavitt

Sci Rep. 2015; 5: 15518. Published online 2015 Oct 23. doi: 10.1038/srep15518