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 +9 more
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The data suggest that the "typical" phosphoprotein is widely expressed yet displays variable, often tissue-specific phosphorylation that tunes protein activity to the specific needs of each tissue, and is offered as an online resource for the biological research community.About:
This article is published in Cell.The article was published on 2010-12-23 and is currently open access. It has received 1520 citations till now. The article focuses on the topics: Autophagy-related protein 13 & Phosphorylation.read more
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A draft map of the human proteome
Min-Sik Kim,Sneha M. Pinto,Derese Getnet,Raja Sekhar Nirujogi,Srikanth S. Manda,Raghothama Chaerkady,Anil K. Madugundu,Dhanashree S. Kelkar,Ruth Isserlin,Shobhit Jain,Joji Kurian Thomas,Babylakshmi Muthusamy,Pamela Leal-Rojas,Pamela Leal-Rojas,Praveen Kumar,Nandini A. Sahasrabuddhe,Lavanya Balakrishnan,Jayshree Advani,Bijesh George,Santosh Renuse,Lakshmi Dhevi N. Selvan,Arun H. Patil,Vishalakshi Nanjappa,Aneesha Radhakrishnan,Samarjeet Prasad,Tejaswini Subbannayya,Rajesh Raju,Manish Kumar,Sreelakshmi K. Sreenivasamurthy,Arivusudar Marimuthu,Gajanan Sathe,Sandip Chavan,Keshava K. Datta,Yashwanth Subbannayya,Apeksha Sahu,Soujanya D. Yelamanchi,Savita Jayaram,Pavithra Rajagopalan,Jyoti Sharma,Krishna R Murthy,Nazia Syed,Renu Goel,Aafaque Ahmad Khan,Sartaj Ahmad,Gourav Dey,Keshav Mudgal,Aditi Chatterjee,Tai-Chung Huang,Jun Zhong,Xinyan Wu,Patrick G. Shaw,Donald Freed,Muhammad Saddiq Zahari,Kanchan K Mukherjee,Subramanian Shankar,Anita Mahadevan,Henry H N Lam,Chris J. Mitchell,Susarla K. Shankar,Parthasarathy Satishchandra,John T. Schroeder,Ravi Sirdeshmukh,Anirban Maitra,Steven D. Leach,Charles G. Drake,Marc K. Halushka,T. S. Keshava Prasad,Ralph H. Hruban,Candace L. Kerr,Candace L. Kerr,Gary D. Bader,Christine A. Iacobuzio-Donahue,Harsha Gowda,Akhilesh Pandey +73 more
TL;DR: A draft map of the human proteome is presented using high-resolution Fourier-transform mass spectrometry to discover a number of novel protein-coding regions, which includes translated pseudogenes, non-c coding RNAs and upstream open reading frames.
Journal ArticleDOI
Identification of a unique TGF-β–dependent molecular and functional signature in microglia
Oleg Butovsky,Mark P. Jedrychowski,Craig S. Moore,Ron Cialic,Amanda J. Lanser,Galina Gabriely,Thomas Koeglsperger,Ben Dake,Pauline M. Wu,Camille Doykan,Zain Fanek,LiPing Liu,Zhuoxun Chen,Jeffrey D. Rothstein,Richard M. Ransohoff,Steven P. Gygi,Jack P. Antel,Howard L. Weiner +17 more
TL;DR: It is found that TGF-β was required for the in vitro development of microglia that express the microglial molecular signature characteristic of adultmicroglia and that microglian were absent in the CNS of TGF -β1–deficient mice.
Journal ArticleDOI
Systematic and Quantitative Assessment of the Ubiquitin-Modified Proteome
Woong Kim,Eric J. Bennett,Edward L. Huttlin,Ailan Guo,Jing Li,Anthony Possemato,Mathew E. Sowa,Ramin Rad,John Rush,Michael J. Comb,J. Wade Harper,Steven P. Gygi +11 more
TL;DR: The human ubiquitin-modified proteome is characterized using a monoclonal antibody that recognizes diglycine (diGly)-containing isopeptides following trypsin digestion and it is demonstrated that quantitative diGly proteomics can be utilized to identify substrates for cullin-RING ubiquitIn ligases.
Journal ArticleDOI
Mass-spectrometric exploration of proteome structure and function
TL;DR: Powerful mass-spectrometry-based technologies now provide unprecedented insights into the composition, structure, function and control of the proteome, shedding light on complex biological processes and phenotypes.
Journal ArticleDOI
Architecture of the human interactome defines protein communities and disease networks
Edward L. Huttlin,Raphael J. Bruckner,Joao A. Paulo,Joe R. Cannon,Lily Ting,Kurt Baltier,Greg Colby,Fana Gebreab,Melanie P. Gygi,Hannah Parzen,John Szpyt,Stanley Tam,Gabriela Zarraga,Laura Pontano-Vaites,Sharan Swarup,Anne E. White,Devin K. Schweppe,Ramin Rad,Brian K. Erickson,Robert A. Obar,Robert A. Obar,K. G. Guruharsha,Kejie Li,Spyros Artavanis-Tsakonas,Spyros Artavanis-Tsakonas,Steven P. Gygi,J. Wade Harper +26 more
TL;DR: With more than 56,000 candidate interactions, BioPlex 2.0 exceeds previous experimentally derived interaction networks in depth and breadth, and will be a valuable resource for exploring the biology of incompletely characterized proteins and for elucidating larger-scale patterns of proteome organization.
References
More filters
Journal ArticleDOI
Controlling the false discovery rate: a practical and powerful approach to multiple testing
Yoav Benjamini,Yosef Hochberg +1 more
TL;DR: In this paper, a different approach to problems of multiple significance testing is presented, which calls for controlling the expected proportion of falsely rejected hypotheses -the false discovery rate, which is equivalent to the FWER when all hypotheses are true but is smaller otherwise.
Journal ArticleDOI
A mathematical theory of communication
TL;DR: This final installment of the paper considers the case where the signals or the messages or both are continuously variable, in contrast with the discrete nature assumed until now.
Journal ArticleDOI
Gene Ontology: tool for the unification of biology
M Ashburner,Catherine A. Ball,Judith A. Blake,David Botstein,Heather Butler,J. M. Cherry,Allan Peter Davis,Kara Dolinski,Selina S. Dwight,J.T. Eppig,Midori A. Harris,David P. Hill,Laurie Issel-Tarver,Andrew Kasarskis,Suzanna E. Lewis,John C. Matese,Joel E. Richardson,M. Ringwald,Gerald M. Rubin,Gavin Sherlock +19 more
TL;DR: The goal of the Gene Ontology Consortium is to produce a dynamic, controlled vocabulary that can be applied to all eukaryotes even as knowledge of gene and protein roles in cells is accumulating and changing.
Journal ArticleDOI
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
Paul Shannon,Andrew Markiel,Owen Ozier,Nitin S. Baliga,Jonathan T. Wang,Daniel Ramage,Nada Amin,Benno Schwikowski,Trey Ideker +8 more
TL;DR: Several case studies of Cytoscape plug-ins are surveyed, including a search for interaction pathways correlating with changes in gene expression, a study of protein complexes involved in cellular recovery to DNA damage, inference of a combined physical/functional interaction network for Halobacterium, and an interface to detailed stochastic/kinetic gene regulatory models.
Journal ArticleDOI
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources.
TL;DR: By following this protocol, investigators are able to gain an in-depth understanding of the biological themes in lists of genes that are enriched in genome-scale studies.
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