重磅：生物信息的84个新晋网红应用

#重磅：生物信息的84个新晋网红应用| 来源: 网络整理| 查看: 265

生物信息的最高境界是什么，

是无招胜有招，还是人机合一

其实都不是，问一个做生信的高手，他会告诉你，生信的最高境界

是能手动，绝不编程。

每年核酸研究、生物信息等期刊都会盘点最新的网红级生物信息数据库和工具。这些工具往往涉及的都是最新的热点，也就是说往往你需要大篇幅编程的分析或者作图，在这些网上上，点点点，就搞定了。

速速收藏

The 2018 Nucleic Acids Research database issue and the online molecular biology database collection

Descriptions of new online databases in the 2018 NAR Database issueDatabase URL Brief descriptiona 3DIV http://kobic.kr/3div 3D-genome Interaction Viewer and database AAgMarker http://bioinfo.wilmer.jhu.edu/AAgMarker/index.jsp Serum autoantigen biomarkers from proteome microarrays aBiofilm http://bioinfo.imtech.res.in/manojk/abiofilm/ Anti-biofilm compounds ActiveDriverDB https://activedriverdb.org/ Genome variation mapped against post-translational modifications ADReCS-Target http://bioinf.xmu.edu.cn/ADReCS-Target Adverse Drug Reactions linked to proteins, genes and genetic variants AmyPro http://amypro.net Proteins with validated amyloidogenic regions anti-CRISPRdb http://cefg.uestc.edu.cn/anti-CRISPRdb/ anti-CRISPR proteins AraGWAS Catalog https://aragwas.1001genomes.org Arabidopsis Genome-Wide Association Studies ASpedia http://combio.snu.ac.kr/aspedia Alternative Splicing Encylopedia ChannelsDB http://ncbr.muni.cz/ChannelsDB Channels, pores and tunnels found in biomacromolecular structures CirGRDB http://cirgrdb.biols.ac.cn Regulation of RNAs in circadian rhythms ClusterCAD https://clustercad.jbei.org and http://clustercad.igb.uci.edu Engineering of type I modular polyketide synthases CR2Cancer http://cis.hku.hk/CR2Cancer Chromatin Regulators and Cancer CSCD http://gb.whu.edu.cn/CSCD Cancer-Specific cRNA Database dbCAN-seq http://cys.bios.niu.edu/dbCAN_seq Genome scale CAZymes and CAZyme gene clusters dbCoRC http://dbcorc.cam-su.org/ Core transcriptional Regulatory Circuit models DifferentialNET http://netbio.bgu.ac.il/diffnet Differential protein-protein interactions in human tissues DiseaseEnhancer http://biocc.hrbmu.edu.cn/DiseaseEnhancer/ Enhancer-disease associations DISNOR http://disnor.uniroma2.it/ Protein interaction networks linking disease genes DreamBASE http://rna.sysu.edu.cn/dreamBase Human expressed pseudogenes: DNA Modification, RNA Regulation and bound proteins ECOdrug http://www.ecodrug.org Evolutionary COnservation of Drug targets EpiDenovo http://61.148.58.210:8080/EpiDenovo/ The epigenome in mammalian embryonic development EPD https://peptracker.com/epd/ Encyclopedia of Protein Dynamics EVLncRNAs http://biophy.dzu.edu.cn/EVLncRNAs/ Experimentally Validated lncRNAs including disease indications eRAM http://www.unimd.org/eram/ Annotated rare diseases ExoRBase http://www.exoRBase.org Human blood exosome RNAs FlavorDB http://cosylab.iiitd.edu.in/flavordb Flavour molecules FusionDB http://services.bromberglab.org/fusiondb/ Functional-repertoire similarity-based organism network GVM http://bigd.big.ac.cn/gvm/ Genome Variation Map HCMDB http://hcmdb.i-sanger.com/index Human Cancer Metastasis DataBase HEDD http://zdzlab.einstein.yu.edu/1/hedd.php Human Enhancer Disease Database ICG http://icg.big.ac.cn Internal Control Genes for RT-qPCR normalization IMOTA https://ccb-web.cs.uni-saarland.de/imota/ Interactive Multi-Omics-Tissue Atlas iPTMnet http://research.bioinformatics.udel.edu/iptmnet/ Post-Translational Modification networks ITSoneDB http://itsonedb.cloud.ba.infn.it/ Eukaryotic ribosomal RNA Internal Transcribed Spacer 1 sequences jMorp https://jmorp.megabank.tohoku.ac.jp/ Metabolomics and proteomics of 1000 healthy Japanese people LINCS Data Portal http://lincsportal.ccs.miami.edu/dcic-portal/ Cell-based perturbation-response signatures LinkedOmics http://www.linkedomics.org Multi-omics analysis of 32 cancers Lnc2Meth http://www.bio-bigdata.com/Lnc2Meth lncRNAs and DNA methylation m6AVar http://m6avar.renlab.org/ Human variants affecting m6A sites MeDReaders http://medreader.org/ Transcription factors binding methylated DNA microbiomeDB http://microbiomeDB.org Mining and analysing microbiome data MINTbase https://cm.jefferson.edu/MINTbase/ Mitochondrial and nuclear tRNA fragments miRCarta https://mircarta.cs.uni-saarland.de/ miRNAs and precursors mirTrans http://mcube.nju.edu.cn/jwang/lab/soft/mirtrans/ Cell-specific transcriptional information for human miRNAs MIST http://fgrtools.hms.harvard.edu/ProteinSearch/ Model organism molecular interaction data MGA http://ccg.vital-it.ch/mga/ Mass Genome Annotation MMP https://mmp.sfb.uit.no/databases/ Marine Metagenomics Portal MSDD http://www.bio-bigdata.com/msdd/ miRNA SNP Disease Database mSignatureDB http://tardis.cgu.edu.tw/msignaturedb Mutational signatures in human cancers MVP http://mvp.medgenius.info Microbe-phage interactions NPASS http://bidd2.nus.edu.sg/NPASS/ Natural Product quantitative Activities OverGeneDB http://overgenedb.amu.edu.pl Overlapping protein-coding genes PAMDB http://pseudomonas.umaryland.edu Pseudomonas aeruginosaMetabolome DataBase PancanQTL http://bioinfo.life.hust.edu.cn/PancanQTL/ Expression quantitative loci (eQTL) analysis of cancer samples PedAM http://www.unimd.org/pedam/ Pediatric Disease Annotation & Medicine PCSD http://systemsbiology.cau.edu.cn/chromstates Plant Chromatin State Database PGG.Population https://www.pggpopulation.org Genomic diversity of diverse human populations PharmacoDB http://pharmacodb.pmgenomics.ca Pharmacogenomics of cancer cell lines PICKLES http://pickles.hart-lab.org Pooled In-vitro Crispr Knockout Library Essentiality Screens PIT-DB http://pitdb.org Proteomics Informed by Transcriptomics Planteome http://www.planteome.org Portal for plant ontologies and annotations PopHuman http://pophuman.uab.cat Population genomics-oriented genome browser qPrimerDB http://biodb.swu.edu.cn/qprimerdb qPCR primers for 200 organisms RISE http://rise.zhanglab.net RNA-RNA interactions RNArchitecture http://iimcb.genesilico.pl/RNArchitecture/ Structural classification of RNAs SBCCDB http://sbcddb.moffitt.org Sleeping Beauty Cancer Driver DataBase SCPortalen http://single-cell.clst.riken.jp/ Human and mouse single-cell centric database SEECancer http://biocc.hrbmu.edu.cn/SEECancer Evolutionary-stage specific somatic events in cancer StemMapper http://stemmapper.sysbiolab.eu Stem cell gene expression STCRDab http://opig.stats.ox.ac.uk/webapps/stcrdab Structural T-Cell Receptor Database SysteMHC Atlas https://systemhcatlas.org/ Immunopeptidomics of MHC-bound peptides Tabloid Proteome http://iomics.ugent.be/tabloidproteome Protein associations inferred from Mass Spectrometry Target-Pathogen http://target.sbg.qb.fcen.uba.ar/patho Drug target optimisation in pathogens TC3A http://tc3a.org/ 3΄ untranslated regions, alternative polyadenylation and cancer TissGDB http://zhaobioinfo.org/TissGDB Tissue-specific Gene DataBase in cancer TranslatomeDB http://www.translatomedb.net/ Translatome data from RNC-Seq and Ribo-Seq TriForC database http://bioinformatics.psb.ugent.be/triforc/ Triterpene pathways TCSBN http://inetmodels.com Tissue and Cancer-Specific Biological Networks VarCards http://varcards.biols.ac.cn/ Interpretation of coding variants in the human genome VDJdb https://vdjdb.cdr3.net/. T-cell receptor sequences with known antigen specificity Virus Taxonomy http://ictv.global Taxonomy of viruses Updated descriptions of databases most recently published elsewhereDatabase URL Brief descriptiona BioMuta and BioExpress https://hive.biochemistry.gwu.edu/biomuta and https://hive.biochemistry.gwu.edu/bioxpress Cancer SNVs and gene expression BioStudies https://www.ebi.ac.uk/biostudies/ Data of all kinds relating to a single study iSyTE http://research.bioinformatics.udel.edu/iSyTE integrated Systems Tool for Eye gene discovery miRandola http://mirandola.iit.cnr.it/ Extracellular and circulating non-coding RNAs mirDIP http://ophid.utoronto.ca/mirDIP/ microRNA Data Integration Portal MNDR http://www.rna-society.org/mndr/ Mammal ncRNA-Disease Repository NLSdb https://rostlab.org/services/nlsdb/ Nuclear Localization Signals PAGER 2.0 http://discovery.informatics.uab.edu/PAGER/ Pathway, Annotated-list, and Gene-signature Electronic Repository ProteomicsDB https://www.ProteomicsDB.org Mass spectrometry of the human proteome PULDB http://www.cazy.org/PULDB_new/ Polysaccharide Utilization Loci in Bacteroidetes species ReMap http://remap.cisreg.eu Transcription factor ChIP-seq data RMDB http://rmdb.stanford.edu Structure mapping of RNA SuperDrug2

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