免疫生物信息学数据库汇总||Immunoinformatics Databases

通过信息技术的进步而产生的大量生物技术数据,正在促进生物系统知识的扩大。 这些创新改变了生物医学研究、开发和应用的方式。 临床数据补充了生物数据,能够详细描述各种他 健康和疾病的状态,进展和对治疗的反应。 表示各种生物状态、过程及其时间依赖性的数据量使得能够研究生物系统 EMS在不同层次的组织,从分子到有机体,甚至在种群水平。 多种数据来源支持迅速增长的生物医学知识;然而,我们分析和解释这些数据的能力远远落后于数据的生成和存储能力。

近年来,数据库资源已成为免疫学研究的一个基本工具,这是由于先进的生物技术产生了大量生物数据。 在免疫学研究中获取现有信息、规划实验和分析实验的途径越来越广泛 结果。 免疫学数据包括生物序列,抗原和表位结构,免疫遗传学性质和免疫相互作用的特异性.免疫数据库包括生物信息资源,其中免疫数据被存储,计算方法适合于信息数据的提取和分析。

A summary list of the best-known and recent databases relevant in immunology research

Databases Description References
AAgAtlas http://aagatlas.ncpsb.org Human autoantigen database Wang et al. (2017)
ALPSbase http://www.niaid.nih.gov/topics/alps/Pages/default.asp Autoimmune lymphoproliferative syndrome database Puck (2005)
AntigenDB http://www.imtech.res.in/raghava/antigend Sequence, structure and other data on pathogen antigens Ansari et al. (2010)
AntiJen http://www.ddg-pharmfac.net/antijen/AntiJen/antijenhomepage.htm Quantitative binding data for peptides and proteins of immunological interest Toseland et al. (2005)
BCIpep http://www.imtech.res.in/raghava/bcipep/ Database of experimentally determined B-cell epitopes of antigenic proteins Saha et al. (2005)
bNAber http://bnaber.org/ A database of broadly neutralizing HIV 1 antibodies Eroshkin et al. (2014)
dbMHC http://www.ncbi.nlm.nih.gov/gv/mhc/ dbMHC provides access to HLA sequences, tools to support genetic testing of HLA loci, HLA allele and haplotype frequencies of over 90 populations worldwide Helmberg et al. (2004)
DIGIT http://circe.med.uniroma1.it/digit Database of immunoglobulin variable domain sequences annotated with the type of antigen, the germline sequences and pairing information between light and heavy chains Chailyan et al. (2012)
EPIMHC http://imed.med.ucm.es/epimhc/ A curated database of MHC-binding peptides for customized computational vaccinology Reche et al. (2005)
Epitome http://rostlab.org/services/epitome/ Database of all known antigenic residues and the antibodies that interact with them Schlessinger et al. (2006)
GPX-Macrophage Expression Atlas http://gpxmea.gti.ed.ac.uk/ An online resource for expression based studies of a range of macrophage cell types following treatment with pathogens and immune modulators Grimes et al. (2005)
HaptenDB http://www.imtech.res.in/raghava/haptendb Database of hapten molecules, small molecule not immunogenic by itself, that can react with antibodies of appropriate specificity Singh et al. (2006)
HPTAA http://www.bioinfo.org.cn/hptaa/ Database of potential tumor-associated antigens that uses expression data from various expression platforms, including carefully chosen publicly available microarray expression data, GEO SAGE data and Unigene expression data Wang et al. (2006)
IEDB http://www.iedb.org/ The Immune Epitope Database (IEDB) provides a catalog of experimentally characterised B and T cell epitopes, as well as data on MHC binding and MHC ligand elution experiments Vita et al. (2015)
EDB 3D http://www.immuneepitope.org/bb_structure.php Structural data within the Immune Epitope Database Ponomarenko et al. (2011)
IL2Rgbase http://research.nhgri.nih.gov/scid/ X-linked severe combined immunodeficiency mutations Puck (1996)
IMGT http://www.imgt.org/ The international ImMunoGeneTics information system (iMGT) is a high-quality integrated knowledge resource specialized in IG, T cell receptors and MHC of human and other vertebrate species and related proteins of the immune system (RPI) Lefranc et al. (2005)
IMGT/GENE-DB http://www.imgt.org/IMGT_GENE-DB/GENElect?livret=0/ IMGT/GENE-DB is part of IMGT database and allows a search of IG and TR gene entries by locus, group, subgroup, based on the classification axiom of IMGT-ONTOLOGY Giudicelli and Lefranc (1999)
IMGT/HLA http://www.ebi.ac.uk/imgt/hla/ Database of recognized HLA alleles and their sequences for performing sequence alignments Robinson et al. (2000)
IMGT/LIGM-DB http://www.imgt.org/ligmdb/ IMGT/LIGM-DB is a database of immunoglobulin and T cell receptor nucleotide sequences Giudicelli et al. (2006)
IMGT/mAb-DB http://www.imgt.org Database for therapeutic monoclonal antibodies Lefranc et al. (2015)
ImmuNet http://immunet.princeton.edu Database of immunological networks and functional relationships between molecular entities, able to predict disease-associated genes Gorenshteyn et al. (2015)
InnateDB http://www.innatedb.com/ Database of genes, proteins, experimentally-verified interactions and signalling pathways involved in the innate immune response of humans, mice and bovines to microbial infection Lynn et al. (2008)
Interferon Stimulated Gene Database http://www.lerner.ccf.org/labs/williams/xchip-html.cgi A database of interferon stimulated genes (ISGs) Samarajiwa et al. (2009)
IPD - Immuno Polymorphism Database http://www.ebi.ac.uk/ipd/ Databases of polymorphic genes in the immune system Robinson et al. (2003)
IPD-ESTDAB http://www.ebi.ac.uk/ipd/estdab/ IPD-ESTDAB is a database of immunologically characterised melanoma cell lines Robinson et al. (2003)
IPD-HPA - Human Platelet Antigens http://www.ebi.ac.uk/ipd/hpa/ IPD-HPA is a database of alloantigens expressed only on platelets Robinson et al. (2003)
IPD-KIR - Killer-cell Immunoglobulin-like Receptors http://www.ebi.ac.uk/ipd/kir/ IPD-KIR contains the allelic sequences of Killer-cell Immunoglobulin-like Receptors Robinson et al. (2003)
IPD-MHC http://www.ebi.ac.uk/ipd/mhc/ IPD-MHC is a database of sequences of the major histocompatibility complex of different species Robinson et al. (2003)
MHCBN http://www.imtech.res.in/raghava/mhcbn/ MHCBN is a comprehensive database comprising over 23000 peptids sequences, whose binding affinity with MHC or TAP molecules has been assayed experimentally. Bhasin et al. (2003)
MPID-T2 http://biolinfo.org/mpid-t2/ MPID-T2 is a highly curated database for sequence-structurefunction information on MHC-peptide interactions Kangueane et al. (2001)
MUGEN Mouse Database http://www.mugennoe.org/database/ Murine models of immune processes and immunological diseases Aidinis et al. (2008)
Protegen http://www.violinet.org/protegen/ Protective antigen database and analysis system Yang et al. (2011)
SAbDab http://opig.stats.ox.ac.uk/webapps/sabdab Structural Antibody Database Dunbar et al. (2014)
SYFPEITHI http://www.syfpeithi.de/ A database of MHC ligands and motifs Rammensee et al. (1995)
SuperHapten http://bioinformatics.charite.de/superhapten/ Database integrating information from literature and web resources about haptens Günther et al. (2007)
VBASE2 http://www.vbase2.org/ Database of germ-line V genes from the immunoglobulin loci of human and mouse Retter et al. (2005)
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