Experiments in searching bioinformatics databases and software
Database is the main content of bioinformatics, and various databases cover almost all fields of life sciences; the main functions of bioinformatics software are: analyzing and processing experimental data and public data, speeding up the progress of research, shortening the time of scientific research and so on. Content source: Guangdong Pharmaceutical University laboratory guidebook.
Operation method
Database and software manual search
Principle
Proficiency and skills in searching the Internet for bioinformatics databases and software.
Materials and Instruments
laptops Move I. Searching bioinformatics databases or software For more product details, please visit Aladdin Scientific website.
Databases are the mainstay of bioinformatics, and a variety of databases cover almost every area of the life sciences.
Nucleic acid sequence databases include GenBank, EMBL, DDB, and so on.
Protein sequence databases include SWISS-PROT, PIR, OWL, NRL3D, TrEMBL and so on.
Protein fragment databases include PROSITE, BLOCKS, PRINTS, etc.
Three-dimensional structure databases, such as PDB, NDB, BioMagResBank, CCSD, etc..
Protein structure-related databases include SCOP, CATH, FSSP, 3D-ALI, DSSP, and so on.
Genome-related databases include ESTdb, OMIM, GDB, GSDB, and so on.
Literature databases include Medline, Uncover and so on.
In addition, some companies have developed commercial databases, such as MDL.
Bioinformatics databases cover a wide range of scattered and non-uniform format, so some bio-computing centers will integrate multiple databases together to provide comprehensive services, such as EBI's SRS (Sequence Retrieval System) contains nucleic acid sequence libraries, protein sequence libraries, three-dimensional structure libraries and other more than 30 databases and CLUSTALW, PROSITESEARCH and other powerful search tools, the user can carry out a variety of queries for multiple databases.
Second, search bioinformatics software
The main functions of bioinformatics software include: analyzing and processing experimental data and public data, accelerating the research progress and shortening the research time; prompting, guiding and replacing the experimental operation, designing the next stage of experiments by using the conclusions obtained from the analysis of experimental data; searching for and predicting the new genes and predicting their structures and functions; and predicting the high-level structure of proteins. Such as: nucleic acid sequence analysis software BioEdit, DNAClub, etc.; sequence similarity search BLAST; multiple series comparison software Clustalx; the construction of the phylogenetic tree software Phylip, MEGA, etc.; PCR primer design software Primer premier6.0, oligo6.0, etc.; protein secondary and tertiary structure prediction and three-dimensional molecular browsing tools and so on.