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Below are several lists of high-priority proteins from the various participating groups of the Biology/Disease-driven Human Proteome Project (B/D-HPP). Click on the search icon next to any list to bring up a tool that helps you select proteins to explore in PeptideAtlas or SRMAtlas. A template file for submitting a protein list can be downloaded here .
| Ascending Aortic Aneurysm Targets View list  | ||
| Contributors | Sarah Parker | |
| Number of Proteins | 109 | |
| A list of Targets implicated in ascending Aortic Aneurysm | ||
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| Detectable and Popular Plasma Proteins View list | ||
| Contributors | Jochen M Schwenk, Eric W Deutsch | |
| Number of Proteins | 1087 | |
| Reference | http://dx.doi.org/10.1021/acs.jproteome.7b00467 | |
| PubMed Link | 28938075 | |
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| Diabetes-Associated Proteins View list | ||
| Contributors | Jean-Charles Sanchez | |
| Number of Proteins | 1379 | |
| Reference | http://cms.unige.ch/medecine/hdpp.info/node/1 | |
| List of Diabetes-associated proteins from Jean-Charles Sanchez, from Geneva University | ||
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| Epigenetic proteins known to be associated with human chromatin View list | ||
| Contributors | Aled Edwards, University of Toronto and the SGC consortium | |
| Number of Proteins | 332 | |
| This list of epigenetic proteins was produced by extensive curation of the epigenetic and chromatin biochemistry literature. | ||
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| Ovarian Cancer-Related Proteins View list | ||
| Contributors | Ruth Huettenhain | |
| Number of Proteins | 1172 | |
| Reference | http://stm.sciencemag.org/content/4/142/142ra94 | |
| List of Ovarian-cancer related proteins from Ruth Huettenhain et. al | ||
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| Popular Proteins in the Heart View list | ||
| Contributors | Maggie P.Y. Lam, Vidya Venkatraman, T. Umut Dincer, Edward Lau, Peipei Ping, Jennifer E. Van Eyk | |
| Number of Proteins | 15 | |
| Reference | http://www.heartproteome.org/pubmed/ | |
| PubMed Link | 26160638 | |
| We performed a large-scale bibliometric analysis of the 24 million research papers curated on PubMed. We used the search terms heart [MeSH term/All fields] or cardiac [All fields] to retrieve cardiac-related articles, then tallied the occurrences of each protein being referenced to the retrieved papers on NCBI Gene using a new software tool (BD2KPubMed). | ||
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| Popular Proteins of the Cardiovascular, Cerebral, Hepatic, Renal, Pulmonary, and Intestinal Systems. View list | ||
| Contributors | Maggie Lam, Vidya Venkatraman, Edward Lau, Yi Xing, Andrew Su, Jennifer Van Eyk, Peipei Ping | |
| Number of Proteins | 120 | |
| Reference | https://heart.shinyapps.io/PubPular/ | |
| PubMed Link | 27356587 | |
| To estimate protein popularity within various fields, we interrogated tissue-specific publications from the >24 million literature records on PubMed using specific search terms (without restriction to the publication date) on the PubMed website between May and July of 2015. For instance, publications related to the cardiovascular system were queried with the search terms (heart or cardiac or cardiovascular), which was automatically resolved by PubMed to include any identified MeSH terms and synonyms such that the query reads ("heart"[MeSH Terms] OR "heart"[All Fields]) OR ("heart"[MeSH Terms] OR "heart"[All Fields] OR "cardiac"[All Fields]) OR ("blood vessels"[MeSH Terms] OR ("blood"[All Fields] AND "vessels"[All Fields]) OR "blood vessels"[All Fields] OR "vascular"[All Fields]) OR ("cardiovascular system"[MeSH Terms] OR ("cardiovascular"[All Fields] AND "system"[All Fields]) OR "cardiovascular system"[All Fields] OR "cardiovascular"[All Fields])). Cerebral system related publications were similarly queried, using the search term (brain or cerebral), pulmonary system with (lung or lungs or pulmonary), hepatic system with (liver or hepatic), renal system with (kidney or kidneys or renal), intestinal system with (gut or intestine or intestinal); the queries were similarly resolved by the PubMed query system to automatically include MeSH term definitions. We use the Gene2PubMed file from NCBI to match specific PubMed queries to GeneIDs, and count the number of publication records (PMIDs) matching to a unique, species-specific GeneID within a queried topic (e.g., all returned publications from brain or cerebral). The Gene2PubMed file was retrieved on the NCBI FTP server at the time of analysis (June 17th, 2015 release), which contained 8,022,914 gene-publication references and were manually curated by the National Library of Medicine (NLM) based on PubMed records as well as information from user submission. To determine the relevance between protein and topic, we derive the normalized co-publication distance (NCD). | ||
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| Potential Colon Cancer Biomarkers View list | ||
| Contributors | Juan Pablo Albar | |
| Number of Proteins | 161 | |
| Set of potential colon-cancer biomarkers from Juan Pablo Albar and Sam Hanash | ||
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| Potential Colorectal Cancer Biomarkers View list | ||
| Contributors | Ed Nice, Kui Wang, Susan Fanayan and William Hancock | |
| Number of Proteins | 383 | |
| A systematic literature search was conduct in Pubmed on 19 July, 2013 without limits to publication date. The searching strategy was as follow: (colon[title] or colonic[title] or rectum[title] or rectal[title] or colorectal[title]) AND (cancer[title] or carcino*[title] or tumor*[title] or tumour*[title] or neoplas*[title] or maglinan*[title or crc[title]) AND (marker*[title] or biomarker*[title] or prognos*[title] or diagnos*[title] or therapeutic target*[title]) Proteins of interest were only selected from studies in which protein expressions are validated in tissues, serum/plasma or faeces of patient cohort with statistical significance. | ||
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| Priorities and trends in the study of proteins in eye research View list | ||
| Contributors | Richard D. Semba, Maggie P. Y. Lam, Kai Sun, Pingbo Zhang, Debra A. Schaumberg, Luigi Ferrucci, Peipei Ping, Jennifer E. Van Eyk | |
| Number of Proteins | 50 | |
| Reference | http://www.heartproteome.org/pubmed/ | |
| PubMed Link | 26123431 | |
| We conducted a bibliometric analysis by merging gene lists for human and mouse from the National Center for Biotechnology Information FTP site and combining them with PubMed references that were retrieved with the search terms eye [MeSH Terms] OR eye [All Fields] OR eyes [All Fields]. | ||
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| Proteomic Architecture of Human Coronary and Aortic Atherosclerosis View list | ||
| Contributors | Herrington David M, Mao Chunhong, Parker Sarah, Fu Zongming, Yu Guoqiang, Chen Lulu, Venkatraman Vidya, Fu Yi, Wang Yizhi, Howard Tim, Goo Jun, Zhao CF, Liu Yongming, Saylor Georgia, Athas Grace, Troxclair Dana, Hixson James, Vander Heide Richard, Wang Yue,Van Eyk Jennifer | |
| Number of Proteins | 1925 | |
| Reference | http://www.biorxiv.org/content/early/2017/06/29/157248 | |
| Here we describe the human arterial proteome and the proteomic features strongly associated with early atherosclerosis based on mass-spectrometry analysis of coronary artery and aortic specimens from 100 autopsied young adults (200 arterial specimens) as well as a comparison with twelve prior studies that directly analyzed protein content of human arterial tissues. | ||
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| Type 1 Diabetes major implicated proteins View list | ||
| Contributors | Eric Deutsch | |
| Number of Proteins | 19 | |
| This schematic taken from Bluestone, Herold & Eisenbarth (2010) [Nature, 464, 1293] provides an overview of the pathogenesis of type 1 diabetes, highlighting a number of key pathways that are being targeted by current therapeutics. Although not exhaustive, this figure shows that both non-specific and antigen-specific therapies are being tested, which inhibit effector cells and antigen presentation as well as boost regulatory pathways. | |
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