PMC Links for GEO Profiles (Select 1577152) - 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 88331624.

ER-phagy requires the assembly of actin at sites of contact between the cortical ER and endocytic pits

Dongmei Liu, Muriel Mari, Xia Li, Fulvio Reggiori, Susan Ferro-Novick, Peter Novick

Proc Natl Acad Sci U S A. 2022 Feb 8; 119(6): e2117554119. Published online 2022 Jan 31. doi: 10.1073/pnas.2117554119

PMCID:: PMC8833162

Abstract Article PDF–2.4M

Select item 77516485.

Atg8-mediated super-assembly of Atg40 induces local ER remodeling in reticulophagy

Keisuke Mochida, Hitoshi Nakatogawa

Autophagy. 2020; 16(12): 2299–2300. Published online 2020 Oct 10. doi: 10.1080/15548627.2020.1831801

PMCID:: PMC7751648

Abstract Article PDF–1.4M

Select item 77440506.

Characterization of constitutive ER-phagy of excess membrane proteins

Zhanna Lipatova, Valeriya Gyurkovska, Sarah F. Zhao, Nava Segev

PLoS Genet. 2020 Dec; 16(12): e1009255. Published online 2020 Dec 4. doi: 10.1371/journal.pgen.1009255

PMCID:: PMC7744050

Abstract Article PDF–4.0M

Select item 75441237.

Snf1 AMPK positively regulates ER-phagy via expression control of Atg39 autophagy receptor in yeast ER stress response

Tomoaki Mizuno, Kei Muroi, Kenji Irie

PLoS Genet. 2020 Sep; 16(9): e1009053. Published online 2020 Sep 28. doi: 10.1371/journal.pgen.1009053

PMCID:: PMC7544123

Abstract Article PDF–2.7M

Select item 74140498.

Vps13 is required for the packaging of the ER into autophagosomes during ER-phagy

Shuliang Chen, Muriel Mari, Smriti Parashar, Dongmei Liu, Yixian Cui, Fulvio Reggiori, Peter J. Novick, Susan Ferro-Novick

Proc Natl Acad Sci U S A. 2020 Aug 4; 117(31): 18530–18539. Published online 2020 Jul 20. doi: 10.1073/pnas.2008923117

PMCID:: PMC7414049

Abstract Article PDF–2.0M

Select item 73374889.

TORC1 inactivation stimulates autophagy of nucleoporin and nuclear pore complexes

Yui Tomioka, Tetsuya Kotani, Hiromi Kirisako, Yu Oikawa, Yayoi Kimura, Hisashi Hirano, Yoshinori Ohsumi, Hitoshi Nakatogawa

J Cell Biol. 2020 Jul 6; 219(7): e201910063. Published online 2020 May 26. doi: 10.1083/jcb.201910063

PMCID:: PMC7337488

Abstract Article PDF–4.0M

Select item 733518710.

Super-assembly of ER-phagy receptor Atg40 induces local ER remodeling at contacts with forming autophagosomal membranes

Keisuke Mochida, Akinori Yamasaki, Kazuaki Matoba, Hiromi Kirisako, Nobuo N. Noda, Hitoshi Nakatogawa

Nat Commun. 2020; 11: 3306. Published online 2020 Jul 3. doi: 10.1038/s41467-020-17163-y

PMCID:: PMC7335187

Abstract Article PDF–3.6M

Select item 713822211.

DeepPhagy: a deep learning framework for quantitatively measuring autophagy activity in Saccharomyces cerevisiae

Ying Zhang, Yubin Xie, Wenzhong Liu, Wankun Deng, Di Peng, Chenwei Wang, Haodong Xu, Chen Ruan, Yongjie Deng, Yaping Guo, Chenjun Lu, Cong Yi, Jian Ren, Yu Xue

Autophagy. 2020; 16(4): 626–640. Published online 2019 Jun 20. doi: 10.1080/15548627.2019.1632622

PMCID:: PMC7138222

Abstract Article PDF–8.0M

Select item 706238612.

A COPII subunit acts with an autophagy receptor to target endoplasmic reticulum for degradation

Yixian Cui, Smriti Parashar, Muhammad Zahoor, Patrick G. Needham, Muriel Mari, Ming Zhu, Shuliang Chen, Hsuan-Chung Ho, Fulvio Reggiori, Hesso Farhan, Jeffrey L. Brodsky, Susan Ferro-Novick

Science. Author manuscript; available in PMC 2020 Mar 9.

Published in final edited form as: Science. 2019 Jul 5; 365(6448): 53–60. doi: 10.1126/science.aau9263

PMCID:: PMC7062386

Abstract Article PDF–1.4M

Select item 646250213.

Analysis of autophagy activated during changes in carbon source availability in yeast cells

Ryo Iwama, Yoshinori Ohsumi

J Biol Chem. 2019 Apr 5; 294(14): 5590–5603. Published online 2019 Feb 12. doi: 10.1074/jbc.RA118.005698

PMCID:: PMC6462502

Abstract Article PDF–4.4M

Select item 614225614.

ER-phagy requires Lnp1, a protein that stabilizes rearrangements of the ER network

Shuliang Chen, Yixian Cui, Smriti Parashar, Peter J. Novick, Susan Ferro-Novick

Proc Natl Acad Sci U S A. 2018 Jul 3; 115(27): E6237–E6244. Published online 2018 Jun 18. doi: 10.1073/pnas.1805032115

PMCID:: PMC6142256

Abstract Article PDF–1.9M

Select item 566188515.

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 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 520434817.

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