TY - JOUR
T1 - AAgMarker 1.0
T2 - A resource of serological autoantigen biomarkers for clinical diagnosis and prognosis of various human diseases
AU - Pan, Jianbo
AU - Liu, Sheng
AU - Zhu, Heng
AU - Qian, Jiang
N1 - Funding Information:
National Institutes of Health [R01GM111514 to J.Q., R01EY024580 to J.Q.]. Funding for open access charge: National Institutes of Health [R01GM111514 to J.Q., R01EY024580 to J.Q.]. Conflict of interest statement. None declared.
Publisher Copyright:
© The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.
PY - 2018/1/1
Y1 - 2018/1/1
N2 - Autoantibodies are produced to target an individual's own antigens (e.g. proteins). They can trigger autoimmune responses and inflammation, and thus, cause many types of diseases. Many high-throughput autoantibody profiling projects have been reported for unbiased identification of serological autoantigen-based biomarkers. However, a lack of centralized data portal for these published assays has been a major obstacle to further data mining and cross-evaluate the quality of these datasets generated from different diseases. Here, we introduce a user-friendly database, AAgMarker 1.0, which collects many published raw datasets obtained from serum profiling assays on the proteome microarrays, and provides a toolbox for mining these data. The current version of AAgMarker 1.0 contains 854 serum samples, involving 136 092 proteins. A total of 7803 (4470 non-redundant) candidate autoantigen biomarkers were identified and collected for 12 diseases, such as Alzheimer's disease, Bechet's disease and Parkinson's disease. Seven statistical parameters are introduced to quantitatively assess these biomarkers. Users can retrieve, analyse and compare the datasets through basic search, advanced search and browse. These biomarkers are also downloadable by disease terms. The AAgMarker 1.0 is now freely accessible at http://bioinfo.wilmer.jhu.edu/AAgMarker/. We believe this database will be a valuable resource for the community of both biomedical and clinical research.
AB - Autoantibodies are produced to target an individual's own antigens (e.g. proteins). They can trigger autoimmune responses and inflammation, and thus, cause many types of diseases. Many high-throughput autoantibody profiling projects have been reported for unbiased identification of serological autoantigen-based biomarkers. However, a lack of centralized data portal for these published assays has been a major obstacle to further data mining and cross-evaluate the quality of these datasets generated from different diseases. Here, we introduce a user-friendly database, AAgMarker 1.0, which collects many published raw datasets obtained from serum profiling assays on the proteome microarrays, and provides a toolbox for mining these data. The current version of AAgMarker 1.0 contains 854 serum samples, involving 136 092 proteins. A total of 7803 (4470 non-redundant) candidate autoantigen biomarkers were identified and collected for 12 diseases, such as Alzheimer's disease, Bechet's disease and Parkinson's disease. Seven statistical parameters are introduced to quantitatively assess these biomarkers. Users can retrieve, analyse and compare the datasets through basic search, advanced search and browse. These biomarkers are also downloadable by disease terms. The AAgMarker 1.0 is now freely accessible at http://bioinfo.wilmer.jhu.edu/AAgMarker/. We believe this database will be a valuable resource for the community of both biomedical and clinical research.
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U2 - 10.1093/nar/gkx770
DO - 10.1093/nar/gkx770
M3 - Article
C2 - 28977551
AN - SCOPUS:85040917439
SN - 0305-1048
VL - 46
SP - D886-D893
JO - Nucleic acids research
JF - Nucleic acids research
IS - D1
ER -