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国际生物信息学资源 (International bioinformatic resources)
- 核酸数据库及序列分析工具(nucleotide databases and tools)
01. 核酸数据库（nucleotide database)
- GENBANK
(NCBI)
- EMBL
(EBI)
- DDBJ
(DNA Data Bank of Japan)
02. 序列查询工具（sequence
retrieval)
- ENTREZ
(NCBI)
- SRS at
EMBL-EBI, Hinxton (UK)
- DBGET
(GenomeNet, Japan)
03. 序列处理工具（sequence format
conversion and manipulations)
- inverse, complement, inverse complement (Colorado State University)
- JustBIO SeqCLEANER (Cleans up your sequences from database marks)
- SeqCheck (sequence output, GC-content)
- Random sequence generator and scrambler (molbiol.ru)
- The Sequence Manipulation Suite
- Sequence Massager
- Secret Coder Tool
04. 重叠群装配（contig
assembly)
- CAP Sequence Assembly at BCM Search Launcher
- CAP Sequence assembly at Infobiogen
05. 开放读码框架分析（Open
reading frame analysis)
- ORF
finder (NCBI)
- ORF Finder + translation (Molecular Toolkit, US)
- PLOTORF (Emboss)
- FgenesV (SoftBerry)
06. ORF翻译（Translation)
- TRANSLATION JustBIO (US)
- TRANSLATION ExPASy (Switzerland)
- TRANSLATION (Infobiogen, France)
- TRANSLATION REMAP (Bioweb, Pasteur, France)
- Six Frames Translation (UCDavis)
07. 限制性内切酶分析
(Restriction enzyme)
- NEBcutter
- Webcutter 2.0 (USA)
- Restriction Maps (Colorado) (US)
- JustBIO-SeqCUTTER
- New England Biolabs Enzyme Finder
-
08. 模式识别（Pattern
recognition)
- Improbizer
(EM algorithm)
- PatScan
09. 重复序列分析（Repeats
analysis)
- Reputer
- TRF Tandem Repeats Finder
- REPFIND
- SSR Simple Sequence Repeats Extractor
- RepeatMasker
- Form for Oligonucleotids repeats finder
10. PCR引物分析（Primer
analysis)
- OligoAnalyzer 3.0 (IDT BioTools)
- PrimerQuest (IDT BioTools)
- Oligo Calculation GENSET
- CODEHOP (based on multiple protein alignment)
- BioTools (Integrated DNA Technologies)
- NCBI Blast short sequence
- NetPrimer (US)
- netprlaunch
- Oligonucleotide Calculator (USA)
- PCR Amplification Assistant (Promega)
- PCR Box Titration Calculator
- pDRAW32 - freeware DNA cloning, sequence analysis and plasmid_DNA plotting software
- Primer Selection (Image) (ALCES)
- Tavi's PCR protocols
- Tm Determination (ALCES) - simple
- Web Primer_ DNA and Purpose Entry
- WWW GeneFisher
(Primer design) ___
11. 启动子预测（Promoter
prediction）
- Genomatix Software GmbH - GEMS Launcher
12. 密码子（Codon usage)
- Codon Usage Database
- Graphical Codon Usage Analyser
14. 基因表达（gene
expression)
- Genie at Berkeley (US)
- WebGeneMark
- GENSCAN at MIT (US)
- GEO Gene Expression Omnibus
- Huge Index Database
16. 基因调控（Gene regulation）
- POSSUM detects cis-elements
- TFSEARCH Transcription Factor Binding Sites
- Cluster Buster
- Cis-elements Nucleotide Count Matrices
- MotifViz
- McPromoter promoter prediction
- CISTER Cis-element Cluster Finder
17. RNA结构预测（RNA structure prediction)
- RNA
folding
- RNA
movies
-
-
18. 载体筛选工具(vector
screening)
- VecScreen
(NCBI)
- Vector
Scanning (EBI)
19. 序列提交工具(sequence
submission)
- GENBANK
BankIt
- GENBANK
Sequin
- EMBL
Webin
- DDBJ
Sakura
01. 人类基因组工程（human genome
project)
- NCBI
Map Viewer (NCBI)
- Human
Genome Resources(NCBI)
- dbSNP
Home Page(NCBI)
- Human genome sequencing progress(NCBI)
- Ensembl
Genome Server(EMBL)
- GeneCard
- DDBJ_CIB Human Genomics Studio
- OMIM（Online
Mendelian Inheritance in Man）
- HUGO homepage
- HGSC(Human genome sequencing
center)
- Human Genome Landmarks Poster
- Human
Genome Project Information
- Genome Online database
- PEDANT
complete genomes
- GenomeAtlas
02. 真核生物基因组工程（eukaryotic
genome project)
- Entrez
Genome Project
- C.
elegans project
- Leishmania
Genome Network
- Malaria
Genome Project (NCBI)
- Trypanosoma
brucei Genome Project
- Malaria
Genetics & Genomics
-
03. 微生物基因组工程（Microbiology
genome project)
- NCBI
Completed Microbial Genomes
- NCBI
Microbial Genome Projects in progress
- TIGR
Microbial Database
- DDBJ
Genome Information Broker
- NCBI Viral Genomes Resource
- NCBI Retrovirus Resource
- NCBI SARS Coronavirus Resource
04. 比较基因组学（comparative genomics)
- COG Clusters of Orthologous Groups
- TaxPlot (NCBI)
- KEGG Kyoto Encyclopedia of Genes and Genomes
- HOBACGEN Homologous Bacterial Genes Database
01. 氨基酸基本信息（amino acid
information)
- amino acid structures
- genetic code table
- PROWL - Amino Acid Properties
- Physical-chemical AA classification (Venn diagram)
- Amino acid properties (Venn diagram)
- Reverse Translation (all possibilities) (Colorado, US)
- ExPASy - RandSeq tool
-
02. 蛋白质数据库（protein
database)
- GENBANK
(NCBI)
- EMBL
(EBI)
- DDBJ
(DNA Data Bank of Japan)
-
-
03. 序列查询工具（sequence
retrieval)
- ENTREZ
(NCBI)
- SRS at
EMBL-EBI, Hinxton (UK)
- DBGET
(GenomeNet, Japan)
-
-
04. 模体及模式识别（Motifs and
patterns searching)
- SMART - Simple Modular Architecture Research Tool
- Motif Scan (ISREC)
- Radar Repeats in proteins
- InterProScan
- MOTIF Searching Protein and Nucleic Acid Sequence Motifs
- PatScan
at Argonne (US)
- PRATT at EBI (input alignment) ___
- PROSITE at ExPASy (Switzerland)
- Protein Motifs at ALCES (US)
- PROTCOMP (SoftBerry)
- PSORT (Japan)
- Pfam
- TargetP Server
05. 跨膜蛋白（transmembrane
protein)
- TMHMM
Server
- TMpred Server (EMBnet)
- TOPO2 Transmembrane Protein Display
06. 疏水性图谱（hydrophobicity
plot)
- Hydropathicity Plots at Colorado (US)
- Antigenicity Plot
- drawhca Hydrophobic Cluster Analysis plot
01. Dot matrix方法（Dot matrix plot)
- Dot plot theory (RPI, US)
- DOT PLOT (Colorado State University)
-
02. 两序列比对（pairwise
sequence alignment)
- ALIGN (global) at Genestream
- Pairwise
sequence alignment
- ALION protein alignment (Stanford University)
- BCM Search Launcher Pairwise Sequence Alignment
- Blast 2 Sequences
(NCBI)
- LALIGN (local) at Genestream
-
03. 多重序列比对（Multiple
sequence alignment)
- CLUSTALW at BCM (USA)
- CLUSTALW
at institute of Microbiology, Chinese Academy of science
- CLUSTALW at EBI (UK)
- DIALIGN
- MGA Multiple Genome Aligner
- SAM_ Sequence Alignment and Modeling System
- 01. BoxShade Server (Switzerland)
- CINEMA
(Colour INteractive Editor for Multiple Alignments) (UK)
-
-
系统发生学及分类学（Phylogeny and
Taxonomy)
- Phylogeny Programs
- Phylogeny software
- rose random model of sequence evolution
- SplitsTree
- WebPhylip
- BIOSIS Resources Organism Names Search Form
- Introduction to Phylogeny
- NCBI Taxonomy project
- The Tree of Life Home Page
- NCBI PubMed
- ISI Web of Science
- ISI Journal Citation Reports
- AMEDEO The Medical Literature
Guide(The medical literature guide)
- PubMed Central Home
- The Free Medical Journals Site
- LabExplorer - The online resource for laboratory professionals
- 1911 encyclopedia
- ProQuest Digital Dissertations
- Scientific Portraits (Dibner Library of the History of Science and Technology)
- BiologyBrowser
- BioMedNet MEDLINE
- PubCrawler
- MedLibraryAlert
- SWISS-SHOP
alert server
-
-
01. 新闻（news)
- BionInform(bioinformatics
news service)
- BIOSCI_bionet Electronic Newsgroup Network for Biology
- BioWorld Online, The Worldwide Biotechnology News and Information Source
- NCBI News
- snowdeal.org > {bio,medical}informatics
- Subscribe to Genome Technology Today!
- The Scientist - The News Journal for the Life Scientist
-
02. BIOINFORMATICS COURSES & LECTURE NOTES
- a list of bioinformatics courses
- Biocomputing Course Resource List _ Course Syllabi
- Phylogeny
lecture
- S&A Bioinformatics (Uniformed Services University)
- The Gene Discovery Page
-
03. BIOINFORMATICS INSTITUTES
- EMBL - European Molecular Biology Laboratory
- GenomeNet (Kyoto)
- MIPS Munchen Information center for Protein Sequences
- TIGR The Institute for Genomic Research (Maryland)
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