Liquid–liquid phase separation sequence-based predictors (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "Liquid–liquid phase separation sequence-based predictors" in English language version.

refsWebsite

Global rank English rank

18nih.gov

4^th place

11doi.org

2^nd place

10worldcat.org

5^th place

2semanticscholar.org

11^th place

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1vub.ac.be

low place

1harvard.edu

18^th place

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1biorxiv.org

5,061^st place

5,698^th place

1handle.net

102^nd place

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biorxiv.org

Sun, Tanlin; Li, Qian; Xu, Youjun; Zhang, Zhuqing; Lai, Luhua; Pei, Jianfeng (2019-11-15). "Prediction of liquid-liquid phase separation proteins using machine learning": 842336. doi:10.1101/842336. S2CID 209574590. {{cite journal}}: Cite journal requires |journal= (help)

doi.org

Orlando, Gabriele; Raimondi, Daniele; Tabaro, Francesco; Codicè, Francesco; Moreau, Yves; Vranken, Wim F (2019-04-17). "Computational identification of prion-like RNA-binding proteins that form liquid phase-separated condensates" (PDF). Bioinformatics. 35 (22): 4617–4623. doi:10.1093/bioinformatics/btz274. ISSN 1367-4803. PMID 30994888.
Lancaster, A. K.; Nutter-Upham, A.; Lindquist, S.; King, O. D. (2014-05-13). "PLAAC: a web and command-line application to identify proteins with prion-like amino acid composition". Bioinformatics. 30 (17): 2501–2502. doi:10.1093/bioinformatics/btu310. ISSN 1367-4803. PMC 4147883. PMID 24825614.
Vernon, Robert McCoy; Chong, Paul Andrew; Tsang, Brian; Kim, Tae Hun; Bah, Alaji; Farber, Patrick; Lin, Hong; Forman-Kay, Julie Deborah (2018-02-09). Shan, Yibing (ed.). "Pi-Pi contacts are an overlooked protein feature relevant to phase separation". eLife. 7: e31486. doi:10.7554/eLife.31486. ISSN 2050-084X. PMC 5847340. PMID 29424691.
Bolognesi, Benedetta; Gotor, Nieves Lorenzo; Dhar, Riddhiman; Cirillo, Davide; Baldrighi, Marta; Tartaglia, Gian Gaetano; Lehner, Ben (2016-06-28). "A Concentration-Dependent Liquid Phase Separation Can Cause Toxicity upon Increased Protein Expression". Cell Reports. 16 (1): 222–231. doi:10.1016/j.celrep.2016.05.076. ISSN 2211-1247. PMC 4929146. PMID 27320918.
Ambadipudi, Susmitha; Biernat, Jacek; Riedel, Dietmar; Mandelkow, Eckhard; Zweckstetter, Markus (2017-08-17). "Liquid–liquid phase separation of the microtubule-binding repeats of the Alzheimer-related protein Tau". Nature Communications. 8 (1): 275. Bibcode:2017NatCo...8..275A. doi:10.1038/s41467-017-00480-0. ISSN 2041-1723. PMC 5561136. PMID 28819146.
Sun, Tanlin; Li, Qian; Xu, Youjun; Zhang, Zhuqing; Lai, Luhua; Pei, Jianfeng (2019-11-15). "Prediction of liquid-liquid phase separation proteins using machine learning": 842336. doi:10.1101/842336. S2CID 209574590. {{cite journal}}: Cite journal requires |journal= (help)
Mierlo, Guido van; Jansen, Jurriaan R. G.; Wang, Jie; Poser, Ina; Heeringen, Simon J. van; Vermeulen, Michiel (2021-02-02). "Predicting protein condensate formation using machine learning". Cell Reports. 34 (5): 108705. doi:10.1016/j.celrep.2021.108705. hdl:2066/231424. ISSN 2211-1247. PMID 33535034. S2CID 231804701.
Hardenberg, Maarten; Horvath, Attila; Ambrus, Viktor; Fuxreiter, Monika; Vendruscolo, Michele (2020-12-29). "Widespread occurrence of the droplet state of proteins in the human proteome". Proceedings of the National Academy of Sciences. 117 (52): 33254–33262. doi:10.1073/pnas.2007670117. ISSN 0027-8424. PMC 7777240. PMID 33318217.
Ibrahim, Ayyam; Khaodeuanepheng, Nathan; Amarasekara, Dhanush; Correia, John; Lewis, Karen; Fitzkee, Nicholas; Hough, Loren; Whitten, Steven (2023-01-01). "Intrinsically disordered regions that drive phase separation form a robustly distinct protein class". Journal of Biological Chemistry. 299 (1): 102801. doi:10.1016/j.jbc.2022.102801. ISSN 0021-9258. PMC 9860499. PMID 36528065.
Dignon, Gregory L; Zheng, Wenwei; Mittal, Jeetain (2019-03-01). "Simulation methods for liquid–liquid phase separation of disordered proteins". Current Opinion in Chemical Engineering. Frontiers of Chemical Engineering: Molecular Modeling. 23: 92–98. doi:10.1016/j.coche.2019.03.004. ISSN 2211-3398. PMC 7426017. PMID 32802734.
Shea, Joan-Emma; Best, Robert B; Mittal, Jeetain (2021-04-01). "Physics-based computational and theoretical approaches to intrinsically disordered proteins". Current Opinion in Structural Biology. Theory and Simulation/Computational Methods ● Macromolecular Assemblies. 67: 219–225. doi:10.1016/j.sbi.2020.12.012. ISSN 0959-440X. PMC 8150118. PMID 33545530.

handle.net

hdl.handle.net

Mierlo, Guido van; Jansen, Jurriaan R. G.; Wang, Jie; Poser, Ina; Heeringen, Simon J. van; Vermeulen, Michiel (2021-02-02). "Predicting protein condensate formation using machine learning". Cell Reports. 34 (5): 108705. doi:10.1016/j.celrep.2021.108705. hdl:2066/231424. ISSN 2211-1247. PMID 33535034. S2CID 231804701.

harvard.edu

ui.adsabs.harvard.edu

Ambadipudi, Susmitha; Biernat, Jacek; Riedel, Dietmar; Mandelkow, Eckhard; Zweckstetter, Markus (2017-08-17). "Liquid–liquid phase separation of the microtubule-binding repeats of the Alzheimer-related protein Tau". Nature Communications. 8 (1): 275. Bibcode:2017NatCo...8..275A. doi:10.1038/s41467-017-00480-0. ISSN 2041-1723. PMC 5561136. PMID 28819146.

nih.gov

pubmed.ncbi.nlm.nih.gov

Orlando, Gabriele; Raimondi, Daniele; Tabaro, Francesco; Codicè, Francesco; Moreau, Yves; Vranken, Wim F (2019-04-17). "Computational identification of prion-like RNA-binding proteins that form liquid phase-separated condensates" (PDF). Bioinformatics. 35 (22): 4617–4623. doi:10.1093/bioinformatics/btz274. ISSN 1367-4803. PMID 30994888.
Lancaster, A. K.; Nutter-Upham, A.; Lindquist, S.; King, O. D. (2014-05-13). "PLAAC: a web and command-line application to identify proteins with prion-like amino acid composition". Bioinformatics. 30 (17): 2501–2502. doi:10.1093/bioinformatics/btu310. ISSN 1367-4803. PMC 4147883. PMID 24825614.
Vernon, Robert McCoy; Chong, Paul Andrew; Tsang, Brian; Kim, Tae Hun; Bah, Alaji; Farber, Patrick; Lin, Hong; Forman-Kay, Julie Deborah (2018-02-09). Shan, Yibing (ed.). "Pi-Pi contacts are an overlooked protein feature relevant to phase separation". eLife. 7: e31486. doi:10.7554/eLife.31486. ISSN 2050-084X. PMC 5847340. PMID 29424691.
Bolognesi, Benedetta; Gotor, Nieves Lorenzo; Dhar, Riddhiman; Cirillo, Davide; Baldrighi, Marta; Tartaglia, Gian Gaetano; Lehner, Ben (2016-06-28). "A Concentration-Dependent Liquid Phase Separation Can Cause Toxicity upon Increased Protein Expression". Cell Reports. 16 (1): 222–231. doi:10.1016/j.celrep.2016.05.076. ISSN 2211-1247. PMC 4929146. PMID 27320918.
Ambadipudi, Susmitha; Biernat, Jacek; Riedel, Dietmar; Mandelkow, Eckhard; Zweckstetter, Markus (2017-08-17). "Liquid–liquid phase separation of the microtubule-binding repeats of the Alzheimer-related protein Tau". Nature Communications. 8 (1): 275. Bibcode:2017NatCo...8..275A. doi:10.1038/s41467-017-00480-0. ISSN 2041-1723. PMC 5561136. PMID 28819146.
Mierlo, Guido van; Jansen, Jurriaan R. G.; Wang, Jie; Poser, Ina; Heeringen, Simon J. van; Vermeulen, Michiel (2021-02-02). "Predicting protein condensate formation using machine learning". Cell Reports. 34 (5): 108705. doi:10.1016/j.celrep.2021.108705. hdl:2066/231424. ISSN 2211-1247. PMID 33535034. S2CID 231804701.
Hardenberg, Maarten; Horvath, Attila; Ambrus, Viktor; Fuxreiter, Monika; Vendruscolo, Michele (2020-12-29). "Widespread occurrence of the droplet state of proteins in the human proteome". Proceedings of the National Academy of Sciences. 117 (52): 33254–33262. doi:10.1073/pnas.2007670117. ISSN 0027-8424. PMC 7777240. PMID 33318217.
Ibrahim, Ayyam; Khaodeuanepheng, Nathan; Amarasekara, Dhanush; Correia, John; Lewis, Karen; Fitzkee, Nicholas; Hough, Loren; Whitten, Steven (2023-01-01). "Intrinsically disordered regions that drive phase separation form a robustly distinct protein class". Journal of Biological Chemistry. 299 (1): 102801. doi:10.1016/j.jbc.2022.102801. ISSN 0021-9258. PMC 9860499. PMID 36528065.
Dignon, Gregory L; Zheng, Wenwei; Mittal, Jeetain (2019-03-01). "Simulation methods for liquid–liquid phase separation of disordered proteins". Current Opinion in Chemical Engineering. Frontiers of Chemical Engineering: Molecular Modeling. 23: 92–98. doi:10.1016/j.coche.2019.03.004. ISSN 2211-3398. PMC 7426017. PMID 32802734.
Shea, Joan-Emma; Best, Robert B; Mittal, Jeetain (2021-04-01). "Physics-based computational and theoretical approaches to intrinsically disordered proteins". Current Opinion in Structural Biology. Theory and Simulation/Computational Methods ● Macromolecular Assemblies. 67: 219–225. doi:10.1016/j.sbi.2020.12.012. ISSN 0959-440X. PMC 8150118. PMID 33545530.

ncbi.nlm.nih.gov

Lancaster, A. K.; Nutter-Upham, A.; Lindquist, S.; King, O. D. (2014-05-13). "PLAAC: a web and command-line application to identify proteins with prion-like amino acid composition". Bioinformatics. 30 (17): 2501–2502. doi:10.1093/bioinformatics/btu310. ISSN 1367-4803. PMC 4147883. PMID 24825614.
Vernon, Robert McCoy; Chong, Paul Andrew; Tsang, Brian; Kim, Tae Hun; Bah, Alaji; Farber, Patrick; Lin, Hong; Forman-Kay, Julie Deborah (2018-02-09). Shan, Yibing (ed.). "Pi-Pi contacts are an overlooked protein feature relevant to phase separation". eLife. 7: e31486. doi:10.7554/eLife.31486. ISSN 2050-084X. PMC 5847340. PMID 29424691.
Bolognesi, Benedetta; Gotor, Nieves Lorenzo; Dhar, Riddhiman; Cirillo, Davide; Baldrighi, Marta; Tartaglia, Gian Gaetano; Lehner, Ben (2016-06-28). "A Concentration-Dependent Liquid Phase Separation Can Cause Toxicity upon Increased Protein Expression". Cell Reports. 16 (1): 222–231. doi:10.1016/j.celrep.2016.05.076. ISSN 2211-1247. PMC 4929146. PMID 27320918.
Ambadipudi, Susmitha; Biernat, Jacek; Riedel, Dietmar; Mandelkow, Eckhard; Zweckstetter, Markus (2017-08-17). "Liquid–liquid phase separation of the microtubule-binding repeats of the Alzheimer-related protein Tau". Nature Communications. 8 (1): 275. Bibcode:2017NatCo...8..275A. doi:10.1038/s41467-017-00480-0. ISSN 2041-1723. PMC 5561136. PMID 28819146.
Hardenberg, Maarten; Horvath, Attila; Ambrus, Viktor; Fuxreiter, Monika; Vendruscolo, Michele (2020-12-29). "Widespread occurrence of the droplet state of proteins in the human proteome". Proceedings of the National Academy of Sciences. 117 (52): 33254–33262. doi:10.1073/pnas.2007670117. ISSN 0027-8424. PMC 7777240. PMID 33318217.
Ibrahim, Ayyam; Khaodeuanepheng, Nathan; Amarasekara, Dhanush; Correia, John; Lewis, Karen; Fitzkee, Nicholas; Hough, Loren; Whitten, Steven (2023-01-01). "Intrinsically disordered regions that drive phase separation form a robustly distinct protein class". Journal of Biological Chemistry. 299 (1): 102801. doi:10.1016/j.jbc.2022.102801. ISSN 0021-9258. PMC 9860499. PMID 36528065.
Dignon, Gregory L; Zheng, Wenwei; Mittal, Jeetain (2019-03-01). "Simulation methods for liquid–liquid phase separation of disordered proteins". Current Opinion in Chemical Engineering. Frontiers of Chemical Engineering: Molecular Modeling. 23: 92–98. doi:10.1016/j.coche.2019.03.004. ISSN 2211-3398. PMC 7426017. PMID 32802734.
Shea, Joan-Emma; Best, Robert B; Mittal, Jeetain (2021-04-01). "Physics-based computational and theoretical approaches to intrinsically disordered proteins". Current Opinion in Structural Biology. Theory and Simulation/Computational Methods ● Macromolecular Assemblies. 67: 219–225. doi:10.1016/j.sbi.2020.12.012. ISSN 0959-440X. PMC 8150118. PMID 33545530.

semanticscholar.org

api.semanticscholar.org

Sun, Tanlin; Li, Qian; Xu, Youjun; Zhang, Zhuqing; Lai, Luhua; Pei, Jianfeng (2019-11-15). "Prediction of liquid-liquid phase separation proteins using machine learning": 842336. doi:10.1101/842336. S2CID 209574590. {{cite journal}}: Cite journal requires |journal= (help)
Mierlo, Guido van; Jansen, Jurriaan R. G.; Wang, Jie; Poser, Ina; Heeringen, Simon J. van; Vermeulen, Michiel (2021-02-02). "Predicting protein condensate formation using machine learning". Cell Reports. 34 (5): 108705. doi:10.1016/j.celrep.2021.108705. hdl:2066/231424. ISSN 2211-1247. PMID 33535034. S2CID 231804701.

vub.ac.be

biblio.vub.ac.be

Orlando, Gabriele; Raimondi, Daniele; Tabaro, Francesco; Codicè, Francesco; Moreau, Yves; Vranken, Wim F (2019-04-17). "Computational identification of prion-like RNA-binding proteins that form liquid phase-separated condensates" (PDF). Bioinformatics. 35 (22): 4617–4623. doi:10.1093/bioinformatics/btz274. ISSN 1367-4803. PMID 30994888.

worldcat.org

search.worldcat.org

Orlando, Gabriele; Raimondi, Daniele; Tabaro, Francesco; Codicè, Francesco; Moreau, Yves; Vranken, Wim F (2019-04-17). "Computational identification of prion-like RNA-binding proteins that form liquid phase-separated condensates" (PDF). Bioinformatics. 35 (22): 4617–4623. doi:10.1093/bioinformatics/btz274. ISSN 1367-4803. PMID 30994888.
Lancaster, A. K.; Nutter-Upham, A.; Lindquist, S.; King, O. D. (2014-05-13). "PLAAC: a web and command-line application to identify proteins with prion-like amino acid composition". Bioinformatics. 30 (17): 2501–2502. doi:10.1093/bioinformatics/btu310. ISSN 1367-4803. PMC 4147883. PMID 24825614.
Vernon, Robert McCoy; Chong, Paul Andrew; Tsang, Brian; Kim, Tae Hun; Bah, Alaji; Farber, Patrick; Lin, Hong; Forman-Kay, Julie Deborah (2018-02-09). Shan, Yibing (ed.). "Pi-Pi contacts are an overlooked protein feature relevant to phase separation". eLife. 7: e31486. doi:10.7554/eLife.31486. ISSN 2050-084X. PMC 5847340. PMID 29424691.
Bolognesi, Benedetta; Gotor, Nieves Lorenzo; Dhar, Riddhiman; Cirillo, Davide; Baldrighi, Marta; Tartaglia, Gian Gaetano; Lehner, Ben (2016-06-28). "A Concentration-Dependent Liquid Phase Separation Can Cause Toxicity upon Increased Protein Expression". Cell Reports. 16 (1): 222–231. doi:10.1016/j.celrep.2016.05.076. ISSN 2211-1247. PMC 4929146. PMID 27320918.
Ambadipudi, Susmitha; Biernat, Jacek; Riedel, Dietmar; Mandelkow, Eckhard; Zweckstetter, Markus (2017-08-17). "Liquid–liquid phase separation of the microtubule-binding repeats of the Alzheimer-related protein Tau". Nature Communications. 8 (1): 275. Bibcode:2017NatCo...8..275A. doi:10.1038/s41467-017-00480-0. ISSN 2041-1723. PMC 5561136. PMID 28819146.
Mierlo, Guido van; Jansen, Jurriaan R. G.; Wang, Jie; Poser, Ina; Heeringen, Simon J. van; Vermeulen, Michiel (2021-02-02). "Predicting protein condensate formation using machine learning". Cell Reports. 34 (5): 108705. doi:10.1016/j.celrep.2021.108705. hdl:2066/231424. ISSN 2211-1247. PMID 33535034. S2CID 231804701.
Hardenberg, Maarten; Horvath, Attila; Ambrus, Viktor; Fuxreiter, Monika; Vendruscolo, Michele (2020-12-29). "Widespread occurrence of the droplet state of proteins in the human proteome". Proceedings of the National Academy of Sciences. 117 (52): 33254–33262. doi:10.1073/pnas.2007670117. ISSN 0027-8424. PMC 7777240. PMID 33318217.
Ibrahim, Ayyam; Khaodeuanepheng, Nathan; Amarasekara, Dhanush; Correia, John; Lewis, Karen; Fitzkee, Nicholas; Hough, Loren; Whitten, Steven (2023-01-01). "Intrinsically disordered regions that drive phase separation form a robustly distinct protein class". Journal of Biological Chemistry. 299 (1): 102801. doi:10.1016/j.jbc.2022.102801. ISSN 0021-9258. PMC 9860499. PMID 36528065.
Dignon, Gregory L; Zheng, Wenwei; Mittal, Jeetain (2019-03-01). "Simulation methods for liquid–liquid phase separation of disordered proteins". Current Opinion in Chemical Engineering. Frontiers of Chemical Engineering: Molecular Modeling. 23: 92–98. doi:10.1016/j.coche.2019.03.004. ISSN 2211-3398. PMC 7426017. PMID 32802734.
Shea, Joan-Emma; Best, Robert B; Mittal, Jeetain (2021-04-01). "Physics-based computational and theoretical approaches to intrinsically disordered proteins". Current Opinion in Structural Biology. Theory and Simulation/Computational Methods ● Macromolecular Assemblies. 67: 219–225. doi:10.1016/j.sbi.2020.12.012. ISSN 0959-440X. PMC 8150118. PMID 33545530.