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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