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Select item 101036781.

Specific pupylation as IDEntity reporter (SPIDER) for the identification of protein-biomolecule interactions

He-Wei Jiang, Hong Chen, Yun-Xiao Zheng, Xue-Ning Wang, Qingfeng Meng, Jin Xie, Jiong Zhang, ChangSheng Zhang, Zhao-Wei Xu, Zi-Qing Chen, Lei Wang, Wei-Sha Kong, Kuan Zhou, Ming-Liang Ma, Hai-Nan Zhang, Shu-Juan Guo, Jun-Biao Xue, Jing-Li Hou, Zhe-Yi Liu, Wen-Xue Niu, Fang-Jun Wang, Tao Wang, Wei Li, Rui-Na Wang, Yong-Jun Dang, Daniel M. Czajkowsky, JianFeng Pei, Jia-Jia Dong, Sheng-Ce Tao

Sci China Life Sci. 2023 Apr 14 : 1–19. doi: 10.1007/s11427-023-2316-2 [Epub ahead of print]

PMCID:: PMC10103678

Abstract Article PDF–2.4M

Select item 100339372.

Assessment of community efforts to advance network-based prediction of protein–protein interactions

Xu-Wen Wang, Lorenzo Madeddu, Kerstin Spirohn, Leonardo Martini, Adriano Fazzone, Luca Becchetti, Thomas P. Wytock, István A. Kovács, Olivér M. Balogh, Bettina Benczik, Mátyás Pétervári, Bence Ágg, Péter Ferdinandy, Loan Vulliard, Jörg Menche, Stefania Colonnese, Manuela Petti, Gaetano Scarano, Francesca Cuomo, Tong Hao, Florent Laval, Luc Willems, Jean-Claude Twizere, Marc Vidal, Michael A. Calderwood, Enrico Petrillo, Albert-László Barabási, Edwin K. Silverman, Joseph Loscalzo, Paola Velardi, Yang-Yu Liu

Nat Commun. 2023; 14: 1582. Published online 2023 Mar 22. doi: 10.1038/s41467-023-37079-7

PMCID:: PMC10033937

Abstract Article PDF–1.5M

Select item 98160593.

CST1 inhibits ferroptosis and promotes gastric cancer metastasis by regulating GPX4 protein stability via OTUB1

Dongbao Li, Yuhong Wang, Chao Dong, Tao Chen, Anqi Dong, Jiayu Ren, Weikang Li, Gege Shu, Jiaoyang Yang, Wenhao Shen, Lei Qin, Lin Hu, Jin Zhou

Oncogene. 2023; 42(2): 83–98. Published online 2022 Nov 12. doi: 10.1038/s41388-022-02537-x

PMCID:: PMC9816059

Abstract Article PDF–7.6M

Select item 92316234.

ESCPE-1 mediates retrograde endosomal sorting of the SARS-CoV-2 host factor Neuropilin-1

Boris Simonetti, James L. Daly, Lorena Simón-Gracia, Katja Klein, Saroja Weeratunga, Carlos Antón-Plágaro, Allan Tobi, Lorna Hodgson, Philip A. Lewis, Kate J. Heesom, Deborah K. Shoemark, Andrew D. Davidson, Brett M. Collins, Tambet Teesalu, Yohei Yamauchi, Peter J. Cullen

Proc Natl Acad Sci U S A. 2022 Jun 21; 119(25): e2201980119. Published online 2022 Jun 13. doi: 10.1073/pnas.2201980119

PMCID:: PMC9231623

Abstract Article PDF–6.0M

Select item 91197365.

OpenCell: proteome-scale endogenous tagging enables the cartography of human cellular organization

Nathan H. Cho, Keith C. Cheveralls, Andreas-David Brunner, Kibeom Kim, André C. Michaelis, Preethi Raghavan, Hirofumi Kobayashi, Laura Savy, Jason Y. Li, Hera Canaj, James Y.S. Kim, Edna M. Stewart, Christian Gnann, Frank McCarthy, Joana P. Cabrera, Rachel M. Brunetti, Bryant B. Chhun, Greg Dingle, Marco Y. Hein, Bo Huang, Shalin B. Mehta, Jonathan S. Weissman, Rafael Gómez-Sjöberg, Daniel N. Itzhak, Loic A. Royer, Matthias Mann, Manuel D. Leonetti

Science. Author manuscript; available in PMC 2022 Sep 11.

Published in final edited form as: Science. 2022 Mar 11; 375(6585): eabi6983. Published online 2022 Mar 11. doi: 10.1126/science.abi6983

PMCID:: PMC9119736

Abstract Article PDF–3.3M

Select item 91052356.

Cullin 3 Exon 9 Deletion in Familial Hyperkalemic Hypertension Impairs Cullin3-Ring-E3 Ligase (CRL3) Dynamic Regulation and Cycling

Ilektra Kouranti, Waed Abdel Khalek, Stephani Mazurkiewicz, Irmine Loisel-Ferreira, Alexis M. Gautreau, Lionel Pintard, Xavier Jeunemaitre, Eric Clauser

Int J Mol Sci. 2022 May; 23(9): 5151. Published online 2022 May 5. doi: 10.3390/ijms23095151

PMCID:: PMC9105235

Abstract Article PDF–5.8M

Select item 88165407.

Upregulated Fibulin-1 Increased Endometrial Stromal Cell Viability and Migration by Repressing EFEMP1-Dependent Ferroptosis in Endometriosis

Yiting Wan, Yanhua Song, Jing Chen, Jueying Kong, CanCan Gu, Jiami Huang, Ling Zuo

Biomed Res Int. 2022; 2022: 4809415. Published online 2022 Jan 28. doi: 10.1155/2022/4809415

PMCID:: PMC8816540

Abstract Article PDF–2.7M

Select item 81917428.

Comprehensive proteomic characterization of stem cell-derived extracellular matrices

Héloïse Ragelle, Alexandra Naba, Benjamin L. Larson, Fangheng Zhou, Miralem Prijic, Charles A. Whittaker, Amanda Del Rosario, Robert Langer, Richard O. Hynes, Daniel G. Anderson

Biomaterials. Author manuscript; available in PMC 2021 Jun 10.

Published in final edited form as: Biomaterials. 2017 Jun; 128: 147–159. Published online 2017 Mar 7. doi: 10.1016/j.biomaterials.2017.03.008

PMCID:: PMC8191742

Abstract Article PDF–1.5M

Select item 81650309.

Dual Proteome-scale Networks Reveal Cell-specific Remodeling of the Human Interactome

Edward L. Huttlin, Raphael J. Bruckner, Jose Navarrete-Perea, Joe R. Cannon, Kurt Baltier, Fana Gebreab, Melanie P. Gygi, Alexandra Thornock, Gabriela Zarraga, Stanley Tam, John Szpyt, Brandon M. Gassaway, Alexandra Panov, Hannah Parzen, Sipei Fu, Arvene Golbazi, Eila Maenpaa, Keegan Stricker, Sanjukta Guha Thakurta, Tian Zhang, Ramin Rad, Joshua Pan, David P. Nusinow, Joao A. Paulo, Devin K. Schweppe, Laura Pontano Vaites, J. Wade Harper, Steven P. Gygi

Cell. Author manuscript; available in PMC 2022 May 27.

Published in final edited form as: Cell. 2021 May 27; 184(11): 3022–3040.e28. Published online 2021 May 6. doi: 10.1016/j.cell.2021.04.011

PMCID:: PMC8165030

Abstract Article PDF–2.2M

Select item 807872810.

Characterization of the Extracellular Matrix of Normal and Diseased Tissues Using Proteomics

Alexandra Naba, Oliver M. T. Pearce, Amanda Del Rosario, Duanduan Ma, Huiming Ding, Vinothini Rajeeve, Pedro R. Cutillas, Frances R. Balkwill, Richard O. Hynes

J Proteome Res. Author manuscript; available in PMC 2021 Apr 27.

Published in final edited form as: J Proteome Res. 2017 Aug 4; 16(8): 3083–3091. Published online 2017 Jul 19. doi: 10.1021/acs.jproteome.7b00191

PMCID:: PMC8078728

Abstract Article PDF–2.1M

Select item 782143611.

Identifying FBLN1 (Gene ID: 2192) as a Potential Melanoma Biomarker for Melanoma based on an Analysis of microRNA Expression Profiles in the GEO and TCGA Databases

Xiao-Tian Liu, Tian-Tian Liu, Meng-Yuan Wu, Qing-Xi Chen, Jiang-Xing Zhuang, Qin Wang

Genet Test Mol Biomarkers. January 2021; 25(1): 68–78. Published online 2021 Jan 18. doi: 10.1089/gtmb.2020.0274

PMCID:: PMC7821436

Abstract Article PDF–1.0M

Select item 716998312.

A reference map of the human binary protein interactome

Katja Luck, Dae-Kyum Kim, Luke Lambourne, Kerstin Spirohn, Bridget E. Begg, Wenting Bian, Ruth Brignall, Tiziana Cafarelli, Francisco J. Campos-Laborie, Benoit Charloteaux, Dongsic Choi, Atina G. Coté, Meaghan Daley, Steven Deimling, Alice Desbuleux, Amélie Dricot, Marinella Gebbia, Madeleine F. Hardy, Nishka Kishore, Jennifer J. Knapp, István A. Kovács, Irma Lemmens, Miles W. Mee, Joseph C. Mellor, Carl Pollis, Carles Pons, Aaron D. Richardson, Sadie Schlabach, Bridget Teeking, Anupama Yadav, Mariana Babor, Dawit Balcha, Omer Basha, Christian Bowman-Colin, Suet-Feung Chin, Soon Gang Choi, Claudia Colabella, Georges Coppin, Cassandra D’Amata, David De Ridder, Steffi De Rouck, Miquel Duran-Frigola, Hanane Ennajdaoui, Florian Goebels, Liana Goehring, Anjali Gopal, Ghazal Haddad, Elodie Hatchi, Mohamed Helmy, Yves Jacob, Yoseph Kassa, Serena Landini, Roujia Li, Natascha van Lieshout, Andrew MacWilliams, Dylan Markey, Joseph N. Paulson, Sudharshan Rangarajan, John Rasla, Ashyad Rayhan, Thomas Rolland, Adriana San-Miguel, Yun Shen, Dayag Sheykhkarimli, Gloria M. Sheynkman, Eyal Simonovsky, Murat Taşan, Alexander Tejeda, Vincent Tropepe, Jean-Claude Twizere, Yang Wang, Robert J. Weatheritt, Jochen Weile, Yu Xia, Xinping Yang, Esti Yeger-Lotem, Quan Zhong, Patrick Aloy, Gary D. Bader, Javier De Las Rivas, Suzanne Gaudet, Tong Hao, Janusz Rak, Jan Tavernier, David E. Hill, Marc Vidal, Frederick P. Roth, Michael A. Calderwood

Nature. Author manuscript; available in PMC 2020 Oct 8.

Published in final edited form as: Nature. 2020 Apr; 580(7803): 402–408. Published online 2020 Apr 8. doi: 10.1038/s41586-020-2188-x

PMCID:: PMC7169983

Abstract Article PDF–5.4M

Select item 677783713.

Fibulin-1c regulates transforming growth factor–β activation in pulmonary tissue fibrosis

Gang Liu, Marion A. Cooley, Andrew G. Jarnicki, Theo Borghuis, Prema M. Nair, Gavin Tjin, Alan C. Hsu, Tatt Jhong Haw, Michael Fricker, Celeste L. Harrison, Bernadette Jones, Nicole G. Hansbro, Peter A. Wark, Jay C. Horvat, W. Scott Argraves, Brian G. Oliver, Darryl A. Knight, Janette K. Burgess, Philip M. Hansbro

JCI Insight. 2019 Aug 22; 4(16): e124529. Published online 2019 Aug 22. doi: 10.1172/jci.insight.124529

PMCID:: PMC6777837

Abstract Article PDF–11M

Select item 671552214.

A Four-gene Transcript Score to Predict Metastatic-lethal Progression in Men Treated for Localized Prostate Cancer: Development and Validation Studies

Anqi Cheng, Shanshan Zhao, Liesel M. FitzGerald, Jonathan L. Wright, Suzanne Kolb, R. Jeffrey Karnes, Robert B. Jenkins, Elai Davicioni, Elaine A. Ostrander, Ziding Feng, Jian-Bing Fan, James Y. Dai, Janet L. Stanford

Prostate. Author manuscript; available in PMC 2020 Oct 1.

Published in final edited form as: Prostate. 2019 Oct; 79(14): 1589–1596. Published online 2019 Aug 2. doi: 10.1002/pros.23882

PMCID:: PMC6715522

Abstract Article PDF–558K

Select item 605336415.

Armadillo repeat containing 12 promotes neuroblastoma progression through interaction with retinoblastoma binding protein 4

Dan Li, Huajie Song, Hong Mei, Erhu Fang, Xiaojing Wang, Feng Yang, Huanhuan Li, Yajun Chen, Kai Huang, Liduan Zheng, Qiangsong Tong

Nat Commun. 2018; 9: 2829. Published online 2018 Jul 19. doi: 10.1038/s41467-018-05286-2

PMCID:: PMC6053364

Abstract Article PDF–4.3M

Select item 600841016.

Agrin has a pathological role in the progression of oral cancer

César Rivera, Flávia Silva Zandonadi, Celeste Sánchez-Romero, Ciro Dantas Soares, Daniela Campos Granato, Wilfredo Alejandro González-Arriagada, Adriana Franco Paes Leme

Br J Cancer. 2018 Jun 12; 118(12): 1628–1638. Published online 2018 Jun 6. doi: 10.1038/s41416-018-0135-5

PMCID:: PMC6008410

Abstract Article PDF–2.6M

Select item 598677317.

The matrix proteins aggrecan and fibulin-1 play a key role in determining aortic stiffness

Yasmin, Raya Al Maskari, Carmel M. McEniery, Sarah E. Cleary, Ye Li, Keith Siew, Nichola L. Figg, Ashraf W. Khir, John R. Cockcroft, Ian B. Wilkinson, Kevin M. O’Shaughnessy

Sci Rep. 2018; 8: 8550. Published online 2018 Jun 4. doi: 10.1038/s41598-018-25851-5

PMCID:: PMC5986773

Abstract Article PDF–3.2M

Select item 596587218.

Alterations in the brain interactome of the intrinsically disordered N-terminal domain of the cellular prion protein (PrP^C) in Alzheimer’s disease

Sarah Ulbrich, Petra Janning, Ralf Seidel, Jakob Matschke, Anika Gonsberg, Sebastian Jung, Markus Glatzel, Martin Engelhard, Konstanze F. Winklhofer, Jörg Tatzelt

PLoS One. 2018; 13(5): e0197659. Published online 2018 May 23. doi: 10.1371/journal.pone.0197659

PMCID:: PMC5965872

Abstract Article PDF–2.4M

Select item 586483219.

An AP-MS- and BioID-compatible MAC-tag enables comprehensive mapping of protein interactions and subcellular localizations

Xiaonan Liu, Kari Salokas, Fitsum Tamene, Yaming Jiu, Rigbe G. Weldatsadik, Tiina Öhman, Markku Varjosalo

Nat Commun. 2018; 9: 1188. Published online 2018 Mar 22. doi: 10.1038/s41467-018-03523-2

PMCID:: PMC5864832

Abstract Article PDF–4.5M

Select item 573088920.

The E3 ubiquitin ligase APC/C^C^dh1 degrades MCPH1 after MCPH1‐βTrCP2‐Cdc25A‐mediated mitotic entry to ensure neurogenesis

Xiaoqian Liu, Wen Zong, Tangliang Li, Yujun Wang, Xingzhi Xu, Zhong‐Wei Zhou, Zhao‐Qi Wang

EMBO J. 2017 Dec 15; 36(24): 3666–3681. Published online 2017 Nov 17. doi: 10.15252/embj.201694443

PMCID:: PMC5730889

Abstract Article PDF–2.4M

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