A citation-based method for searching scientific literature

Kai Yu Ma, Michiel R Fokkens, Fulvio Reggiori, Muriel Mari, Dineke S Verbeek. Transl Neurodegener 2021
Times Cited: 2







List of co-cited articles
6 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Ubiquitin is phosphorylated by PINK1 to activate parkin.
Fumika Koyano, Kei Okatsu, Hidetaka Kosako, Yasushi Tamura, Etsu Go, Mayumi Kimura, Yoko Kimura, Hikaru Tsuchiya, Hidehito Yoshihara, Takatsugu Hirokawa,[...]. Nature 2014
812
100

PINK1 phosphorylates ubiquitin to activate Parkin E3 ubiquitin ligase activity.
Lesley A Kane, Michael Lazarou, Adam I Fogel, Yan Li, Koji Yamano, Shireen A Sarraf, Soojay Banerjee, Richard J Youle. J Cell Biol 2014
679
100

Phosphorylation of OPTN by TBK1 enhances its binding to Ub chains and promotes selective autophagy of damaged mitochondria.
Benjamin Richter, Danielle A Sliter, Lina Herhaus, Alexandra Stolz, Chunxin Wang, Petra Beli, Gabriele Zaffagnini, Philipp Wild, Sascha Martens, Sebastian A Wagner,[...]. Proc Natl Acad Sci U S A 2016
355
100


The ubiquitin kinase PINK1 recruits autophagy receptors to induce mitophagy.
Michael Lazarou, Danielle A Sliter, Lesley A Kane, Shireen A Sarraf, Chunxin Wang, Jonathon L Burman, Dionisia P Sideris, Adam I Fogel, Richard J Youle. Nature 2015
100

PINK1 is activated by mitochondrial membrane potential depolarization and stimulates Parkin E3 ligase activity by phosphorylating Serine 65.
Chandana Kondapalli, Agne Kazlauskaite, Ning Zhang, Helen I Woodroof, David G Campbell, Robert Gourlay, Lynn Burchell, Helen Walden, Thomas J Macartney, Maria Deak,[...]. Open Biol 2012
506
100

Mitochondrial Quality Control and Restraining Innate Immunity.
Andrew T Moehlman, Richard J Youle. Annu Rev Cell Dev Biol 2020
11
50

Basal Mitophagy Occurs Independently of PINK1 in Mouse Tissues of High Metabolic Demand.
Thomas G McWilliams, Alan R Prescott, Lambert Montava-Garriga, Graeme Ball, François Singh, Erica Barini, Miratul M K Muqit, Simon P Brooks, Ian G Ganley. Cell Metab 2018
243
50

Molecular basis of ubiquitin recognition by the autophagy receptor CALCOCO2.
Xingqiao Xie, Faxiang Li, Yuanyuan Wang, Yingli Wang, Zhijie Lin, Xiaofang Cheng, Jianping Liu, Changbin Chen, Lifeng Pan. Autophagy 2015
38
50

UbiHub: a data hub for the explorers of ubiquitination pathways.
Lihua Liu, David R Damerell, Leonidas Koukouflis, Yufeng Tong, Brian D Marsden, Matthieu Schapira. Bioinformatics 2019
11
50

Global, quantitative and dynamic mapping of protein subcellular localization.
Daniel N Itzhak, Stefka Tyanova, Jürgen Cox, Georg Hh Borner. Elife 2016
234
50

Quantitative proteomics reveal a feedforward mechanism for mitochondrial PARKIN translocation and ubiquitin chain synthesis.
Alban Ordureau, Shireen A Sarraf, David M Duda, Jin-Mi Heo, Mark P Jedrychowski, Vladislav O Sviderskiy, Jennifer L Olszewski, James T Koerber, Tiao Xie, Sean A Beausoleil,[...]. Mol Cell 2014
357
50

Extending the limits of quantitative proteome profiling with data-independent acquisition and application to acetaminophen-treated three-dimensional liver microtissues.
Roland Bruderer, Oliver M Bernhardt, Tejas Gandhi, Saša M Miladinović, Lin-Yang Cheng, Simon Messner, Tobias Ehrenberger, Vito Zanotelli, Yulia Butscheid, Claudia Escher,[...]. Mol Cell Proteomics 2015
355
50

Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization.
Shireen A Sarraf, Malavika Raman, Virginia Guarani-Pereira, Mathew E Sowa, Edward L Huttlin, Steven P Gygi, J Wade Harper. Nature 2013
617
50

MSFragger: ultrafast and comprehensive peptide identification in mass spectrometry-based proteomics.
Andy T Kong, Felipe V Leprevost, Dmitry M Avtonomov, Dattatreya Mellacheruvu, Alexey I Nesvizhskii. Nat Methods 2017
262
50

Msp1/ATAD1 in Protein Quality Control and Regulation of Synaptic Activities.
Lan Wang, Peter Walter. Annu Rev Cell Dev Biol 2020
3
50

The autophagy adaptor NDP52 and the FIP200 coiled-coil allosterically activate ULK1 complex membrane recruitment.
Xiaoshan Shi, Chunmei Chang, Adam L Yokom, Liv E Jensen, James H Hurley. Elife 2020
13
50

Structure of the AAA protein Msp1 reveals mechanism of mislocalized membrane protein extraction.
Lan Wang, Alexander Myasnikov, Xingjie Pan, Peter Walter. Elife 2020
13
50

The Michael J. Fox Foundation for Parkinson's Research Strategy to Advance Therapeutic Development of PINK1 and Parkin.
Shalini Padmanabhan, Nicole K Polinski, Liliana B Menalled, Marco A S Baptista, Brian K Fiske. Biomolecules 2019
7
50


Fast Deisotoping Algorithm and Its Implementation in the MSFragger Search Engine.
Guo Ci Teo, Daniel A Polasky, Fengchao Yu, Alexey I Nesvizhskii. J Proteome Res 2021
2
50

Phosphoproteomic screening identifies Rab GTPases as novel downstream targets of PINK1.
Yu-Chiang Lai, Chandana Kondapalli, Ronny Lehneck, James B Procter, Brian D Dill, Helen I Woodroof, Robert Gourlay, Mark Peggie, Thomas J Macartney, Olga Corti,[...]. EMBO J 2015
111
50


Efficient protection and isolation of ubiquitylated proteins using tandem ubiquitin-binding entities.
Roland Hjerpe, Fabienne Aillet, Fernando Lopitz-Otsoa, Valerie Lang, Patrick England, Manuel S Rodriguez. EMBO Rep 2009
295
50

Mitochondrial disorders as windows into an ancient organelle.
Scott B Vafai, Vamsi K Mootha. Nature 2012
399
50

Targeting pathways of C-tail-anchored proteins.
Nica Borgese, Elisa Fasana. Biochim Biophys Acta 2011
155
50


Global Landscape and Dynamics of Parkin and USP30-Dependent Ubiquitylomes in iNeurons during Mitophagic Signaling.
Alban Ordureau, Joao A Paulo, Jiuchun Zhang, Heeseon An, Kirby N Swatek, Joe R Cannon, Qiaoqiao Wan, David Komander, J Wade Harper. Mol Cell 2020
48
50

Mitochondrial quality control mediated by PINK1 and Parkin: links to parkinsonism.
Derek Narendra, John E Walker, Richard Youle. Cold Spring Harb Perspect Biol 2012
199
50

The contribution of Parkin, PINK1 and DJ-1 genes to selective neuronal degeneration in Parkinson's disease.
Marc van der Vlag, Robbert Havekes, Pim R A Heckman. Eur J Neurosci 2020
14
50

Parkinson's: A Disease of Aberrant Vesicle Trafficking.
Pawan Kishor Singh, Miratul M K Muqit. Annu Rev Cell Dev Biol 2020
12
50

Critical role of mitochondrial ubiquitination and the OPTN-ATG9A axis in mitophagy.
Koji Yamano, Reika Kikuchi, Waka Kojima, Ryota Hayashida, Fumika Koyano, Junko Kawawaki, Takuji Shoda, Yosuke Demizu, Mikihiko Naito, Keiji Tanaka,[...]. J Cell Biol 2020
35
50

A probability-based approach for high-throughput protein phosphorylation analysis and site localization.
Sean A Beausoleil, Judit Villén, Scott A Gerber, John Rush, Steven P Gygi. Nat Biotechnol 2006
50

Dynamics of PARKIN-Dependent Mitochondrial Ubiquitylation in Induced Neurons and Model Systems Revealed by Digital Snapshot Proteomics.
Alban Ordureau, Joao A Paulo, Wei Zhang, Tim Ahfeldt, Jiuchun Zhang, Erin F Cohn, Zhonggang Hou, Jin-Mi Heo, Lee L Rubin, Sachdev S Sidhu,[...]. Mol Cell 2018
79
50

Quantitative mass spectrometry-based multiplexing compares the abundance of 5000 S. cerevisiae proteins across 10 carbon sources.
Joao A Paulo, Jeremy D O'Connell, Robert A Everley, Jonathon O'Brien, Micah A Gygi, Steven P Gygi. J Proteomics 2016
87
50

Broad activation of the ubiquitin-proteasome system by Parkin is critical for mitophagy.
Nickie C Chan, Anna M Salazar, Anh H Pham, Michael J Sweredoski, Natalie J Kolawa, Robert L J Graham, Sonja Hess, David C Chan. Hum Mol Genet 2011
654
50

Mutations in the parkin gene cause autosomal recessive juvenile parkinsonism.
T Kitada, S Asakawa, N Hattori, H Matsumine, Y Yamamura, S Minoshima, M Yokochi, Y Mizuno, N Shimizu. Nature 1998
50

Increasing the multiplexing capacity of TMTs using reporter ion isotopologues with isobaric masses.
Graeme C McAlister, Edward L Huttlin, Wilhelm Haas, Lily Ting, Mark P Jedrychowski, John C Rogers, Karsten Kuhn, Ian Pike, Robert A Grothe, Justin D Blethrow,[...]. Anal Chem 2012
342
50

Parkin is recruited selectively to impaired mitochondria and promotes their autophagy.
Derek Narendra, Atsushi Tanaka, Der-Fen Suen, Richard J Youle. J Cell Biol 2008
50

MultiNotch MS3 enables accurate, sensitive, and multiplexed detection of differential expression across cancer cell line proteomes.
Graeme C McAlister, David P Nusinow, Mark P Jedrychowski, Martin Wühr, Edward L Huttlin, Brian K Erickson, Ramin Rad, Wilhelm Haas, Steven P Gygi. Anal Chem 2014
585
50

FKBP8 recruits LC3A to mediate Parkin-independent mitophagy.
Zambarlal Bhujabal, Åsa B Birgisdottir, Eva Sjøttem, Hanne B Brenne, Aud Øvervatn, Sabrina Habisov, Vladimir Kirkin, Trond Lamark, Terje Johansen. EMBO Rep 2017
169
50

A tissue-specific atlas of mouse protein phosphorylation and expression.
Edward L Huttlin, Mark P Jedrychowski, Joshua E Elias, Tapasree Goswami, Ramin Rad, Sean A Beausoleil, Judit Villén, Wilhelm Haas, Mathew E Sowa, Steven P Gygi. Cell 2010
50

Development of a multiplexed targeted mass spectrometry assay for LRRK2-phosphorylated Rabs and Ser910/Ser935 biomarker sites.
Raja S Nirujogi, Francesca Tonelli, Matthew Taylor, Pawel Lis, Alexander Zimprich, Esther Sammler, Dario R Alessi. Biochem J 2021
9
50

Mitochondrial fission facilitates the selective mitophagy of protein aggregates.
Jonathon L Burman, Sarah Pickles, Chunxin Wang, Shiori Sekine, Jose Norberto S Vargas, Zhe Zhang, Alice M Youle, Catherine L Nezich, Xufeng Wu, John A Hammer,[...]. J Cell Biol 2017
198
50

MitoCarta3.0: an updated mitochondrial proteome now with sub-organelle localization and pathway annotations.
Sneha Rath, Rohit Sharma, Rahul Gupta, Tslil Ast, Connie Chan, Timothy J Durham, Russell P Goodman, Zenon Grabarek, Mary E Haas, Wendy H W Hung,[...]. Nucleic Acids Res 2021
78
50


A "proteomic ruler" for protein copy number and concentration estimation without spike-in standards.
Jacek R Wiśniewski, Marco Y Hein, Jürgen Cox, Matthias Mann. Mol Cell Proteomics 2014
282
50

Mitochondrial dysfunction in neurodegenerative diseases.
Ashu Johri, M Flint Beal. J Pharmacol Exp Ther 2012
365
50

Skyline: an open source document editor for creating and analyzing targeted proteomics experiments.
Brendan MacLean, Daniela M Tomazela, Nicholas Shulman, Matthew Chambers, Gregory L Finney, Barbara Frewen, Randall Kern, David L Tabb, Daniel C Liebler, Michael J MacCoss. Bioinformatics 2010
50

Spatiotemporal Control of ULK1 Activation by NDP52 and TBK1 during Selective Autophagy.
Jose Norberto S Vargas, Chunxin Wang, Eric Bunker, Ling Hao, Dragan Maric, Giampietro Schiavo, Felix Randow, Richard J Youle. Mol Cell 2019
161
50


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.