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Items: 1 to 20 of 24

1.
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
2.
Comprehensive Synthetic Genetic Array Analysis of Alleles That Interact with Mutation of the Saccharomyces cerevisiae RecQ Helicases Hrq1 and Sgs1
Elsbeth Sanders, Phoebe A. Nguyen, Cody M. Rogers, Matthew L. Bochman
G3 (Bethesda) 2020 Dec; 10(12): 4359–4368. Published online 2020 Oct 28. doi: 10.1534/g3.120.401709
PMCID:
PMC7718751
AbstractArticlePDF–1.2M
3.
Rab5 GTPases are required for optimal TORC2 function
Melissa N. Locke, Jeremy Thorner
J Cell Biol. 2019 Mar 4; 218(3): 961–976. doi: 10.1083/jcb.201807154
PMCID:
PMC6400565
AbstractArticlePDF–1.9M
4.
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
5.
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
6.
An inter‐species protein–protein interaction network across vast evolutionary distance
Quan Zhong, Samuel J Pevzner, Tong Hao, Yang Wang, Roberto Mosca, Jörg Menche, Mikko Taipale, Murat Taşan, Changyu Fan, Xinping Yang, Patrick Haley, Ryan R Murray, Flora Mer, Fana Gebreab, Stanley Tam, Andrew MacWilliams, Amélie Dricot, Patrick Reichert, Balaji Santhanam, Lila Ghamsari, Michael A Calderwood, Thomas Rolland, Benoit Charloteaux, Susan Lindquist, Albert‐László Barabási, David E Hill, Patrick Aloy, Michael E Cusick, Yu Xia, Frederick P Roth, Marc Vidal
Mol Syst Biol. 2016 Apr; 12(4): 865. Published online 2016 Apr 23. doi: 10.15252/msb.20156484
PMCID:
PMC4848758
AbstractArticlePDF–2.1M
7.
The Nutrient Stress-induced Small GTPase Rab5 Contributes to the Activation of Vesicle Trafficking and Vacuolar Activity
Kunio Nakatsukasa, Akira Kanada, Mariko Matsuzaki, Stuart D. Byrne, Fumihiko Okumura, Takumi Kamura
J Biol Chem. 2014 Jul 25; 289(30): 20970–20978. Published online 2014 Jun 12. doi: 10.1074/jbc.M114.548297
PMCID:
PMC4110303
AbstractArticlePDF–1.3M
8.
Msb3/Gyp3 GAP selectively opposes Rab5 signaling at endolysosomal organelles
Daniel P. Nickerson, Matthew R.G. Russell, Shing-Yeng Lo, Hannah C. Chapin, Joshua Milnes, Alexey J. Merz
Traffic. Author manuscript; available in PMC 2014 Mar 3.
Published in final edited form as: Traffic. 2012 Oct; 13(10): 1411–1428. Published online 2012 Aug 5. doi: 10.1111/j.1600-0854.2012.01390.x
PMCID:
PMC3939314
AbstractArticlePDF–2.3M
9.
Vps9 Family Protein Muk1 Is the Second Rab5 Guanosine Nucleotide Exchange Factor in Budding Yeast
Andrew L. Paulsel, Alexey J. Merz, Daniel P. Nickerson
J Biol Chem. 2013 Jun 21; 288(25): 18162–18171. Published online 2013 Apr 23. doi: 10.1074/jbc.M113.457069
PMCID:
PMC3689959
AbstractArticlePDF–2.2M
10.
Rab5 Proteins Regulate Activation and Localization of Target of Rapamycin Complex 1
Dave Bridges, Kaleigh Fisher, Sergey N. Zolov, Tingting Xiong, Ken Inoki, Lois S. Weisman, Alan R. Saltiel
J Biol Chem. 2012 Jun 15; 287(25): 20913–20921. Published online 2012 Apr 30. doi: 10.1074/jbc.M111.334060
PMCID:
PMC3375515
AbstractArticlePDF–1.8M
11.
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
12.
Intrinsic tethering activity of endosomal Rab proteins
Sheng-Ying Lo, Christopher L. Brett, Rachael L. Plemel, Marissa Vignali, Stanley Fields, Tamir Gonen, Alexey J. Merz
Nat Struct Mol Biol. Author manuscript; available in PMC 2012 Jul 1.
Published in final edited form as: Nat Struct Mol Biol. 2012 Jan; 19(1): 40–47. Published online 2011 Dec 11. doi: 10.1038/nsmb.2162
PMCID:
PMC3252480
AbstractArticlePDF–1.6M
13.
Subunit organization and Rab interactions of Vps-C protein complexes that control endolysosomal membrane traffic
Rachael L. Plemel, Braden T. Lobingier, Christopher L. Brett, Cortney G. Angers, Daniel P. Nickerson, Andrew Paulsel, Debra Sprague, Alexey J. Merz
Mol Biol Cell. 2011 Apr 15; 22(8): 1353–1363. doi: 10.1091/mbc.E10-03-0260
PMCID:
PMC3078060
AbstractArticlePDF–2.5M
14.
A plasma-membrane E-MAP reveals links of the eisosome with sphingolipid metabolism and endosomal trafficking
Pablo S Aguilar, Florian Fröhlich, Michael Rehman, Mike Shales, Igor Ulitsky, Agustina Olivera-Couto, Hannes Braberg, Ron Shamir, Peter Walter, Matthias Mann, Christer S Ejsing, Nevan J Krogan, Tobias C Walther
Nat Struct Mol Biol. Author manuscript; available in PMC 2011 Jul 1.
Published in final edited form as: Nat Struct Mol Biol. 2010 Jul; 17(7): 901–908. Published online 2010 Jun 6. doi: 10.1038/nsmb.1829
PMCID:
PMC3073498
AbstractArticlePDF–1.9M
15.
Mapping of Vps21 and HOPS Binding Sites in Vps8 and Effect of Binding Site Mutants on Endocytic Trafficking
Agnes Pawelec, Janja Arsić, Ralf Kölling
Eukaryot Cell. 2010 Apr; 9(4): 602–610. doi: 10.1128/EC.00286-09
PMCID:
PMC2863399
AbstractArticlePDF–1004K
16.
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
17.
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
18.
Distinct roles for Khd1p in the localization and expression of bud-localized mRNAs in yeast
Yuko Hasegawa, Kenji Irie, André P. Gerber
RNA. 2008 Nov; 14(11): 2333–2347. doi: 10.1261/rna.1016508
PMCID:
PMC2578860
AbstractArticlePDF–1.3M
19.
Role of three rab5-like GTPases, Ypt51p, Ypt52p, and Ypt53p, in the endocytic and vacuolar protein sorting pathways of yeast
J Cell Biol. 1994 Apr 2; 125(2): 283–298. doi: 10.1083/jcb.125.2.283
PMCID:
PMC2120022
SummaryPDF–4.8M
20.
YGR198w (YPP1) targets A30P α-synuclein to the vacuole for degradation
Todd R. Flower, Cheryl Clark-Dixon, Cheynita Metoyer, Hui Yang, Runhua Shi, Zhaojie Zhang, Stephan N. Witt
J Cell Biol. 2007 Jun 18; 177(6): 1091–1104. doi: 10.1083/jcb.200610071
PMCID:
PMC2064368
AbstractArticlePDF–5.5M

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