The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition.
The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition.
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DOI：
10.1093/nar/gkw936
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发表时间：
2017-01-04
影响因子：
14.9
通讯作者：
Vizcaíno JA
中科院分区：
文献类型：
--
作者：
Deutsch EW;Csordas A;Sun Z;Jarnuczak A;Perez-Riverol Y;Ternent T;Campbell DS;Bernal-Llinares M;Okuda S;Kawano S;Moritz RL;Carver JJ;Wang M;Ishihama Y;Bandeira N;Hermjakob H;Vizcaíno JA
ProteomeXchange(PX)蛋白质组学资源联盟(http://www.proteomexchange.org))于2011年正式成立，旨在标准化全球范围内的质谱学蛋白质组学数据的提交和传播。我们概述了目前的财团活动，并描述了过去几年的进展。为了扩大PX的创始成员(Pride和PeptideAtlas，包括Passel资源)，有两个新成员加入了该财团：MASK和JPost。ProteomeCentral仍然是通用的数据访问门户，提供在所有参与的px资源中搜索数据集的能力，现在具有增强的数据可视化组件。我们描述了更新后的提交指南，现在扩展到包括四名成员，而不是两名成员。正如数据提交统计数据所表明的那样，PX正在支持蛋白质组学领域的文化变化：公共数据共享现在是一种被接受的标准，并得到了期刊提交要求的支持，导致公共数据发布成为标准。自2012年以来，已向各种PX资源提交了4500多个数据集。人类是最具代表性的物种，拥有大约一半的数据集，紧随其后的是一些主要的模式生物和900多个不同物种的不断增长的名单。数据再处理活动正变得更加突出，海量和PeptideAtlas都公布了再处理数据集的结果。最后，我们概述了ProteomeXchange即将取得的进展。
The ProteomeXchange (PX) Consortium of proteomics resources (http://www.proteomexchange.org) was formally started in 2011 to standardize data submission and dissemination of mass spectrometry proteomics data worldwide. We give an overview of the current consortium activities and describe the advances of the past few years. Augmenting the PX founding members (PRIDE and PeptideAtlas, including the PASSEL resource), two new members have joined the consortium: MassIVE and jPOST. ProteomeCentral remains as the common data access portal, providing the ability to search for data sets in all participating PX resources, now with enhanced data visualization components. We describe the updated submission guidelines, now expanded to include four members instead of two. As demonstrated by data submission statistics, PX is supporting a change in culture of the proteomics field: public data sharing is now an accepted standard, supported by requirements for journal submissions resulting in public data release becoming the norm. More than 4500 data sets have been submitted to the various PX resources since 2012. Human is the most represented species with approximately half of the data sets, followed by some of the main model organisms and a growing list of more than 900 diverse species. Data reprocessing activities are becoming more prominent, with both MassIVE and PeptideAtlas releasing the results of reprocessed data sets. Finally, we outline the upcoming advances for ProteomeXchange.
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影响因子：
64.8
作者：
Kim, Min-Sik;Pinto, Sneha M.;Getnet, Derese;Nirujogi, Raja Sekhar;Manda, Srikanth S.;Chaerkady, Raghothama;Madugundu, Anil K.;Kelkar, Dhanashree S.;Isserlin, Ruth;Jain, Shobhit;Thomas, Joji K.;Muthusamy, Babylakshmi;Leal-Rojas, Pamela;Kumar, Praveen;Sahasrabuddhe, Nandini A.;Balakrishnan, Lavanya;Advani, Jayshree;George, Bijesh;Renuse, Santosh;Selvan, Lakshmi Dhevi N.;Patil, Arun H.;Nanjappa, Vishalakshi;Radhakrishnan, Aneesha;Prasad, Samarjeet;Subbannayya, Tejaswini;Raju, Rajesh;Kumar, Manish;Sreenivasamurthy, Sreelakshmi K.;Marimuthu, Arivusudar;Sathe, Gajanan J.;Chavan, Sandip;Datta, Keshava K.;Subbannayya, Yashwanth;Sahu, Apeksha;Yelamanchi, Soujanya D.;Jayaram, Savita;Rajagopalan, Pavithra;Sharma, Jyoti;Murthy, Krishna R.;Syed, Nazia;Goel, Renu;Khan, Aafaque A.;Ahmad, Sartaj;Dey, Gourav;Mudgal, Keshav;Chatterjee, Aditi;Huang, Tai-Chung;Zhong, Jun;Wu, Xinyan;Shaw, Patrick G.;Freed, Donald;Zahari, Muhammad S.;Mukherjee, Kanchan K.;Shankar, Subramanian;Mahadevan, Anita;Lam, Henry;Mitchell, Christopher J.;Shankar, Susarla Krishna;Satishchandra, Parthasarathy;Schroeder, John T.;Sirdeshmukh, Ravi;Maitra, Anirban;Leach, Steven D.;Drake, Charles G.;Halushka, Marc K.;Prasad, T. S. Keshava;Hruban, Ralph H.;Kerr, Candace L.;Bader, Gary D.;Iacobuzio-Donahue, Christine A.;Gowda, Harsha;Pandey, Akhilesh
通讯作者：
Pandey, Akhilesh
影响因子：
4.3
作者：
Roempp, Andreas;Wang, Rui;Albar, Juan Pablo;Urbani, Andrea;Hermjakob, Henning;Spengler, Bernhard;Vizcano, Juan Antonio
通讯作者：
Vizcano, Juan Antonio
影响因子：
14.9
作者：
Cochrane G;Karsch-Mizrachi I;Takagi T;International Nucleotide Sequence Database Collaboration
通讯作者：
International Nucleotide Sequence Database Collaboration
影响因子：
3.4
作者：
Farrah, Terry;Deutsch, Eric W.;Moritz, Robert L.
通讯作者：
Moritz, Robert L.
影响因子：
4.4
作者：
Craig, R;Cortens, JP;Beavis, RC
通讯作者：
Beavis, RC