PMC Links for GEO Profiles (Select 648061) - PMC

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 83195314.

Cryo-EM reveals conformational flexibility in apo DNA polymerase ζ

Chloe Du Truong, Theodore A. Craig, Gaofeng Cui, Maria Victoria Botuyan, Rachel A. Serkasevich, Ka-Yi Chan, Georges Mer, Po-Lin Chiu, Rajiv Kumar

J Biol Chem. 2021 Aug; 297(2): 100912. Published online 2021 Jun 24. doi: 10.1016/j.jbc.2021.100912

PMCID:: PMC8319531

Abstract Article PDF–2.1M

Select item 75540885.

Structure and Mechanism of B-family DNA Polymerase ζ Specialized for Translesion DNA Synthesis

Radhika Malik, Mykhailo Kopylov, Yacob Gomez-Llorente, Rinku Jain, Robert E. Johnson, Louise Prakash, Satya Prakash, Iban Ubarretxena-Belandia, Aneel K. Aggarwal

Nat Struct Mol Biol. Author manuscript; available in PMC 2021 Feb 17.

Published in final edited form as: Nat Struct Mol Biol. 2020 Oct; 27(10): 913–924. Published online 2020 Aug 17. doi: 10.1038/s41594-020-0476-7

PMCID:: PMC7554088

Abstract Article PDF–7.0M

Select item 75472116.

Trajectory and uniqueness of mutational signatures in yeast mutators

Sophie Loeillet, Mareike Herzog, Fabio Puddu, Patricia Legoix, Sylvain Baulande, Stephen P. Jackson, Alain G. Nicolas

Proc Natl Acad Sci U S A. 2020 Oct 6; 117(40): 24947–24956. Published online 2020 Sep 23. doi: 10.1073/pnas.2011332117

PMCID:: PMC7547211

Abstract Article PDF–1.8M

Select item 73747467.

Ethanol exposure increases mutation rate through error-prone polymerases

Karin Voordeckers, Camilla Colding, Lavinia Grasso, Benjamin Pardo, Lore Hoes, Jacek Kominek, Kim Gielens, Kaat Dekoster, Jonathan Gordon, Elisa Van der Zande, Peter Bircham, Toon Swings, Jan Michiels, Peter Van Loo, Sandra Nuyts, Philippe Pasero, Michael Lisby, Kevin J. Verstrepen

Nat Commun. 2020; 11: 3664. Published online 2020 Jul 21. doi: 10.1038/s41467-020-17447-3

PMCID:: PMC7374746

Abstract Article PDF–2.5M

Select item 73254358.

A genetic interaction map centered on cohesin reveals auxiliary factors involved in sister chromatid cohesion in S. cerevisiae

Su Ming Sun, Amandine Batté, Mireille Elmer, Sophie C. van der Horst, Tibor van Welsem, Gordon Bean, Trey Ideker, Fred van Leeuwen, Haico van Attikum

J Cell Sci. 2020 May 15; 133(10): jcs237628. Published online 2020 May 22. doi: 10.1242/jcs.237628

PMCID:: PMC7325435

Abstract Article

Select item 70419649.

ATR Homolog Mec1 Controls Association of DNA Polymerase ζ-Rev1 Complex with Regions near a Double-Strand Break

Yukinori Hirano, Katsunori Sugimoto

Curr Biol. Author manuscript; available in PMC 2020 Feb 25.

Published in final edited form as: Curr Biol. 2006 Mar 21; 16(6): 586–590. doi: 10.1016/j.cub.2006.01.063

PMCID:: PMC7041964

Abstract Article PDF–515K

Select item 621571310.

Systematic Analysis of Complex Genetic Interactions

Elena Kuzmin, Benjamin VanderSluis, Wen Wang, Guihong Tan, Raamesh Deshpande, Yiqun Chen, Matej Usaj, Attila Balint, Mojca Mattiazzi Usaj, Jolanda van Leeuwen, Elizabeth N. Koch, Carles Pons, Andrius J. Dagilis, Michael Pryszlak, Jason Zi Yang Wang, Julia Hanchard, Margot Riggi, Kaicong Xu, Hamed Heydari, Bryan-Joseph San Luis, Ermira Shuteriqi, Hongwei Zhu, Nydia Van Dyk, Sara Sharifpoor, Michael Costanzo, Robbie Loewith, Amy Caudy, Daniel Bolnick, Grant W. Brown, Brenda J. Andrews, Charles Boone, Chad L. Myers

Science. Author manuscript; available in PMC 2018 Nov 4.

Published in final edited form as: Science. 2018 Apr 20; 360(6386): eaao1729. doi: 10.1126/science.aao1729

PMCID:: PMC6215713

Abstract Article PDF–1.9M

Select item 576535911.

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 566188512.

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 564324913.

NGS-based analysis of base-substitution signatures created by yeast DNA polymerase eta and zeta on undamaged and abasic DNA templates in vitro

Yizhang Chen, Tomohiko Sugiyama

DNA Repair (Amst) Author manuscript; available in PMC 2018 Nov 1.

Published in final edited form as: DNA Repair (Amst). 2017 Nov; 59: 34–43. Published online 2017 Sep 12. doi: 10.1016/j.dnarep.2017.08.011

PMCID:: PMC5643249

Abstract Article PDF–771K

Select item 561581814.

In Vitro Lesion Bypass Studies of O⁴-Alkylthymidines with Human DNA Polymerase η

Nicole L. Williams, Pengcheng Wang, Jiabin Wu, Yinsheng Wang

Chem Res Toxicol. Author manuscript; available in PMC 2017 Sep 27.

Published in final edited form as: Chem Res Toxicol. 2016 Apr 18; 29(4): 669–675. Published online 2016 Mar 30. doi: 10.1021/acs.chemrestox.5b00509

PMCID:: PMC5615818

Abstract Article PDF–1.6M

Select item 561451815.

Replicative Bypass Studies of α-Anomeric Lesions of 2′-Deoxyribonucleosides in Vitro

Nicole L. Williams, Nicholas J. Amato, Yinsheng Wang

Chem Res Toxicol. Author manuscript; available in PMC 2018 May 15.

Published in final edited form as: Chem Res Toxicol. 2017 May 15; 30(5): 1127–1133. Published online 2017 Apr 14. doi: 10.1021/acs.chemrestox.6b00439

PMCID:: PMC5614518

Abstract Article PDF–541K

Select item 560025416.

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 538839717.

Yeast DNA polymerase ζ maintains consistent activity and mutagenicity across a wide range of physiological dNTP concentrations

Olga V. Kochenova, Rachel Bezalel-Buch, Phong Tran, Alena V. Makarova, Andrei Chabes, Peter M. J. Burgers, Polina V. Shcherbakova

Nucleic Acids Res. 2017 Feb 17; 45(3): 1200–1218. Published online 2016 Nov 28. doi: 10.1093/nar/gkw1149

PMCID:: PMC5388397

Abstract Article PDF–4.6M

Select item 520924518.

A network of conserved synthetic lethal interactions for exploration of precision cancer therapy

Rohith Srivas, John Paul Shen, Chih Cheng Yang, Su Ming Sun, Jianfeng Li, Andrew M. Gross, James Jensen, Katherine Licon, Ana Bojorquez-Gomez, Kristin Klepper, Justin Huang, Daniel Pekin, Jia L. Xu, Huwate Yeerna, Vignesh Sivaganesh, Leonie Kollenstart, Haico van Attikum, Pedro Aza-Blanc, Robert W. Sobol, Trey Ideker

Mol Cell. Author manuscript; available in PMC 2017 Aug 4.

Published in final edited form as: Mol Cell. 2016 Aug 4; 63(3): 514–525. Published online 2016 Jul 21. doi: 10.1016/j.molcel.2016.06.022

PMCID:: PMC5209245

Abstract Article PDF–1.6M

Select item 503108519.

Translesion Synthesis of the N²-2′-Deoxyguanosine Adduct of the Dietary Mutagen IQ in Human Cells: Error-Free Replication by DNA Polymerase κ and Mutagenic Bypass by DNA Polymerases η, ζ, and Rev1

Arindam Bose, Amy D. Millsap, Arnie DeLeon, Carmelo J. Rizzo, Ashis K. Basu

Chem Res Toxicol. 2016 Sep 19; 29(9): 1549–1559. Published online 2016 Aug 4. doi: 10.1021/acs.chemrestox.6b00221

PMCID:: PMC5031085

Abstract Article PDF–5.8M

Select item 498126820.

Telomere Dysfunction Triggers Palindrome Formation Independently of Double-Strand Break Repair Mechanisms

Vasil Raykov, Marcus E. Marvin, Edward J. Louis, Laura Maringele

Genetics. 2016 Aug; 203(4): 1659–1668. Published online 2016 Jun 20. doi: 10.1534/genetics.115.183020

PMCID:: PMC4981268

Abstract Article PDF–1.5M

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