免疫生物信息學(xué)數(shù)據(jù)庫匯總||Immunoinformatics Databases

通過信息技術(shù)的進(jìn)步而產(chǎn)生的大量生物技術(shù)數(shù)據(jù)今野,正在促進(jìn)生物系統(tǒng)知識(shí)的擴(kuò)大。 這些創(chuàng)新改變了生物醫(yī)學(xué)研究队腐、開發(fā)和應(yīng)用的方式。 臨床數(shù)據(jù)補(bǔ)充了生物數(shù)據(jù)薪前,能夠詳細(xì)描述各種他 健康和疾病的狀態(tài)润努,進(jìn)展和對(duì)治療的反應(yīng)。 表示各種生物狀態(tài)示括、過程及其時(shí)間依賴性的數(shù)據(jù)量使得能夠研究生物系統(tǒng) EMS在不同層次的組織铺浇,從分子到有機(jī)體,甚至在種群水平垛膝。 多種數(shù)據(jù)來源支持迅速增長的生物醫(yī)學(xué)知識(shí)鳍侣;然而,我們分析和解釋這些數(shù)據(jù)的能力遠(yuǎn)遠(yuǎn)落后于數(shù)據(jù)的生成和存儲(chǔ)能力吼拥。

近年來倚聚,數(shù)據(jù)庫資源已成為免疫學(xué)研究的一個(gè)基本工具,這是由于先進(jìn)的生物技術(shù)產(chǎn)生了大量生物數(shù)據(jù)凿可。 在免疫學(xué)研究中獲取現(xiàn)有信息惑折、規(guī)劃實(shí)驗(yàn)和分析實(shí)驗(yàn)的途徑越來越廣泛 結(jié)果。 免疫學(xué)數(shù)據(jù)包括生物序列枯跑,抗原和表位結(jié)構(gòu)惨驶,免疫遺傳學(xué)性質(zhì)和免疫相互作用的特異性.免疫數(shù)據(jù)庫包括生物信息資源,其中免疫數(shù)據(jù)被存儲(chǔ)敛助,計(jì)算方法適合于信息數(shù)據(jù)的提取和分析粗卜。

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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