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Links from GEO Profiles

Items: 19

1.
Gene regulatory network inference in long-lived C. elegans reveals modular properties that are predictive of novel aging genes
Manusnan Suriyalaksh, Celia Raimondi, Abraham Mains, Anne Segonds-Pichon, Shahzabe Mukhtar, Sharlene Murdoch, Rebeca Aldunate, Felix Krueger, Roger Guimerà, Simon Andrews, Marta Sales-Pardo, Olivia Casanueva
iScience. 2022 Jan 21; 25(1): 103663. Published online 2021 Dec 20. doi: 10.1016/j.isci.2021.103663
PMCID:
PMC8753122
AbstractArticlePDF–4.6M
2.
Interactome analysis of Caenorhabditis elegans synapses by TurboID-based proximity labeling
Murat Artan, Stephen Barratt, Sean M. Flynn, Farida Begum, Mark Skehel, Armel Nicolas, Mario de Bono
J Biol Chem. 2021 Sep; 297(3): 101094. Published online 2021 Aug 18. doi: 10.1016/j.jbc.2021.101094
Correction in:
J Biol Chem. 2022 Jun; 298(6): 102081.
PMCID:
PMC8446793
AbstractArticlePDF–1.6M
3.
Novel LOTUS-domain proteins are organizational hubs that recruit C. elegans Vasa to germ granules
Patricia Giselle Cipriani, Olivia Bay, John Zinno, Michelle Gutwein, Hin Hark Gan, Vinay K Mayya, George Chung, Jia-Xuan Chen, Hala Fahs, Yu Guan, Thomas F Duchaine, Matthias Selbach, Fabio Piano, Kristin C Gunsalus
eLife. 2021; 10: e60833. Published online 2021 Jul 5. doi: 10.7554/eLife.60833
PMCID:
PMC8331183
AbstractArticlePDF–8.5M
4.
EPIC: Software Toolkit for Elution Profile-Based Inference of Protein Complexes
Lucas ZhongMing Hu, Florian Goebels, June H. Tan, Eric Wolf, Uros Kuzmanov, Cuihong Wan, Sadhna Phanse, Changjiang Xu, Mike Schertzberg, Andrew G. Fraser, Gary D. Bader, Andrew Emili
Nat Methods. Author manuscript; available in PMC 2021 Mar 26.
Published in final edited form as: Nat Methods. 2019 Aug; 16(8): 737–742. Published online 2019 Jul 15. doi: 10.1038/s41592-019-0461-4
PMCID:
PMC7995176
AbstractArticlePDF–1.0M
5.
OrthoList 2: A New Comparative Genomic Analysis of Human and Caenorhabditis elegans Genes
Woojin Kim, Ryan S. Underwood, Iva Greenwald, Daniel D. Shaye
Genetics. 2018 Oct; 210(2): 445–461. Published online 2018 Aug 17. doi: 10.1534/genetics.118.301307
PMCID:
PMC6216590
AbstractArticlePDF–1.4M
6.
TFG facilitates outer coat disassembly on COPII transport carriers to promote tethering and fusion with ER–Golgi intermediate compartments
Michael G. Hanna, IV, Samuel Block, E. B. Frankel, Feng Hou, Adam Johnson, Lin Yuan, Gavin Knight, James J. Moresco, John R. Yates, III, Randolph Ashton, Randy Schekman, Yufeng Tong, Anjon Audhya
Proc Natl Acad Sci U S A. 2017 Sep 12; 114(37): E7707–E7716. Published online 2017 Aug 29. doi: 10.1073/pnas.1709120114
Correction in:
Proc Natl Acad Sci U S A. 2017 Oct 3; 114(40): E8547–E8548.
PMCID:
PMC5604033
AbstractArticlePDF–2.1M
7.
A combined binary interaction and phenotypic map of C. elegans cell polarity proteins
Thijs Koorman, Diana Klompstra, Monique van der Voet, Irma Lemmens, João J. Ramalho, Susan Nieuwenhuize, Sander van den Heuvel, Jan Tavernier, Jeremy Nance, Mike Boxem
Nat Cell Biol. Author manuscript; available in PMC 2016 Jul 18.
Published in final edited form as: Nat Cell Biol. 2016 Mar; 18(3): 337–346. Published online 2016 Jan 18. doi: 10.1038/ncb3300
PMCID:
PMC4767559
AbstractArticlePDF–1.7M
8.
Caenorhabditis elegans ALG-1 antimorphic mutations uncover functions for Argonaute in microRNA guide strand selection and passenger strand disposal
Anna Y. Zinovyeva, Isana Veksler-Lublinsky, Ajay A. Vashisht, James A. Wohlschlegel, Victor R. Ambros
Proc Natl Acad Sci U S A. 2015 Sep 22; 112(38): E5271–E5280. Published online 2015 Sep 8. doi: 10.1073/pnas.1506576112
PMCID:
PMC4586838
AbstractArticlePDF–1.1M
9.
TFG clusters COPII-coated transport carriers and promotes early secretory pathway organization
Adam Johnson, Nilakshee Bhattacharya, Michael Hanna, Janice G Pennington, Amber L Schuh, Lei Wang, Marisa S Otegui, Scott M Stagg, Anjon Audhya
EMBO J. 2015 Mar 12; 34(6): 811–827. Published online 2015 Jan 16. doi: 10.15252/embj.201489032
PMCID:
PMC4369316
AbstractArticlePDF–2.8M
10.
ITSN-1 Controls Vesicle Recycling at the Neuromuscular Junction and Functions in Parallel with DAB-1
Wei Wang, Magali Bouhours, Elena O. Gracheva, Edward H. Liao, Keli Xu, Ameet S. Sengar, Xiaofeng Xin, John Roder, Charles Boone, Janet E. Richmond, Mei Zhen, Sean E. Egan
Traffic. Author manuscript; available in PMC 2013 Oct 5.
Published in final edited form as: Traffic. 2008 May; 9(5): 742–754. Published online 2008 Feb 20. doi: 10.1111/j.1600-0854.2008.00712.x
PMCID:
PMC3791081
AbstractArticlePDF–5.0M
11.
SH3 interactome conserves general function over specific form
Xiaofeng Xin, David Gfeller, Jackie Cheng, Raffi Tonikian, Lin Sun, Ailan Guo, Lianet Lopez, Alevtina Pavlenco, Adenrele Akintobi, Yingnan Zhang, Jean-François Rual, Bridget Currell, Somasekar Seshagiri, Tong Hao, Xinping Yang, Yun A Shen, Kourosh Salehi-Ashtiani, Jingjing Li, Aaron T Cheng, Dryden Bouamalay, Adrien Lugari, David E Hill, Mark L Grimes, David G Drubin, Barth D Grant, Marc Vidal, Charles Boone, Sachdev S Sidhu, Gary D Bader
Mol Syst Biol. 2013; 9: 652. Published online 2013 Apr 2. doi: 10.1038/msb.2013.9
PMCID:
PMC3658277
AbstractArticlePDF–2.3M
12.
A Snapshot of the Physical and Functional Wiring of the Eps15 Homology Domain Network in the Nematode
Hanako Tsushima, Maria Grazia Malabarba, Stefano Confalonieri, Francesca Senic-Matuglia, Lisette G. G. C. Verhoef, Cristina Bartocci, Giovanni D'Ario, Andrea Cocito, Pier Paolo Di Fiore, Anna Elisabetta Salcini
PLoS One. 2013; 8(2): e56383. Published online 2013 Feb 12. doi: 10.1371/journal.pone.0056383
PMCID:
PMC3570524
AbstractArticlePDF–798K
13.
Mechanisms by which TFG functions in protein secretion and oncogenesis
Kristen Witte, Amber L. Schuh, Jan Hegermann, Ali Sarkeshik, Jonathan R. Mayers, Katrin Schwarze, John R. Yates, III, Stefan Eimer, Anjon Audhya
Nat Cell Biol. Author manuscript; available in PMC 2012 Mar 23.
Published in final edited form as: Nat Cell Biol. 2011 May; 13(5): 550–558. Published online 2011 Apr 10. doi: 10.1038/ncb2225
PMCID:
PMC3311221
AbstractArticlePDF–2.0M
14.
ced-4 and proto-oncogene tfg-1 antagonistically regulate cell size and apoptosis in C. elegans
Ling Chen, Tom McCloskey, Pradeep M. Joshi, Joel H. Rothman
Curr Biol. Author manuscript; available in PMC 2011 Jul 25.
Published in final edited form as: Curr Biol. 2008 Jul 22; 18(14): 1025–1033. doi: 10.1016/j.cub.2008.06.065
PMCID:
PMC3142714
AbstractArticlePDF–1.6M
15.
OrthoList: A Compendium of C. elegans Genes with Human Orthologs
Daniel D. Shaye, Iva Greenwald
PLoS One. 2011; 6(5): e20085. Published online 2011 May 25. doi: 10.1371/journal.pone.0020085
Correction in:
PLoS One. 2014; 9(1): 10.1371/annotation/f5ffb738-a176-4a43-b0e0-249cdea45fe0.
PMCID:
PMC3102077
AbstractArticlePDF–530K
16.
A genome-wide study of PDZ-domain interactions in C. elegans reveals a high frequency of non-canonical binding
Nicolas Lenfant, Jolanta Polanowska, Sophie Bamps, Shizue Omi, Jean-Paul Borg, Jérôme Reboul
BMC Genomics. 2010; 11: 671. Published online 2010 Nov 26. doi: 10.1186/1471-2164-11-671
PMCID:
PMC3091786
AbstractArticlePDF–1.2M
17.
Empirically-controlled mapping of the Caenorhabditis elegans protein-protein interactome network
Nicolas Simonis, Jean-François Rual, Anne-Ruxandra Carvunis, Murat Tasan, Irma Lemmens, Tomoko Hirozane-Kishikawa, Tong Hao, Julie M Sahalie, Kavitha Venkatesan, Fana Gebreab, Sebiha Cevik, Niels Klitgord, Changyu Fan, Pascal Braun, Ning Li, Nono Ayivi-Guedehoussou, Elizabeth Dann, Nicolas Bertin, David Szeto, Amélie Dricot, Muhammed A Yildirim, Chenwei Lin, Anne-Sophie de Smet, Huey-Ling Kao, Christophe Simon, Alex Smolyar, Jin Sook Ahn, Muneesh Tewari, Mike Boxem, Stuart Milstein, Haiyuan Yu, Matija Dreze, Jean Vandenhaute, Kristin C Gunsalus, Michael E Cusick, David E Hill, Jan Tavernier, Frederick P Roth, Marc Vidal
Nat Methods. Author manuscript; available in PMC 2011 Mar 15.
Published in final edited form as: Nat Methods. 2009 Jan; 6(1): 47–54. doi: 10.1038/nmeth.1279
PMCID:
PMC3057923
AbstractArticlePDF–3.0M
18.
A novel pathway for phagosome maturation during engulfment of apoptotic cells
Jason M. Kinchen, Kimon Doukoumetzidis, Johann Almendinger, Lilli Stergiou, Annie Tosello-Trampont, Costi D. Sifri, Michael O. Hengartner, Kodi S. Ravichandran
Nat Cell Biol. Author manuscript; available in PMC 2010 Apr 8.
Published in final edited form as: Nat Cell Biol. 2008 May; 10(5): 556–566. Published online 2008 Apr 20. doi: 10.1038/ncb1718
PMCID:
PMC2851549
AbstractArticlePDF–5.7M
19.
A Map of the Interactome Network of the Metazoan C. elegans
Siming Li, Christopher M. Armstrong, Nicolas Bertin, Hui Ge, Stuart Milstein, Mike Boxem, Pierre-Olivier Vidalain, Jing-Dong J. Han, Alban Chesneau, Tong Hao, Debra S. Goldberg, Ning Li, Monica Martinez, Jean-François Rual, Philippe Lamesch, Lai Xu, Muneesh Tewari, Sharyl L. Wong, Lan V. Zhang, Gabriel F. Berriz, Laurent Jacotot, Philippe Vaglio, Jérôme Reboul, Tomoko Hirozane-Kishikawa, Qianru Li, Harrison W. Gabel, Ahmed Elewa, Bridget Baumgartner, Debra J. Rose, Haiyuan Yu, Stephanie Bosak, Reynaldo Sequerra, Andrew Fraser, Susan E. Mango, William M. Saxton, Susan Strome, Sander van den Heuvel, Fabio Piano, Jean Vandenhaute, Claude Sardet, Mark Gerstein, Lynn Doucette-Stamm, Kristin C. Gunsalus, J. Wade Harper, Michael E. Cusick, Frederick P. Roth, David E. Hill, Marc Vidal
Science. Author manuscript; available in PMC 2006 Dec 14.
Published in final edited form as: Science. 2004 Jan 23; 303(5657): 540–543. Published online 2004 Jan 2. doi: 10.1126/science.1091403
PMCID:
PMC1698949
AbstractArticlePDF–1.4M

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