Biology / BLAST

Definition

In bioinformatics, Basic Local Alignment Search Tool, or BLAST, is an algorithm for comparing primary biological sequence information, such as the amino-acid sequences of different proteins or the nucleotides of DNA sequences. A BLAST search enables a researcher to compare a query sequence with a library or database of sequences, and identify library sequences that resemble the query sequence above a certain threshold. Different types of BLASTs are available according to the query sequences. For example, following the discovery of a previously unknown gene in the mouse, a scientist will typically perform a BLAST search of the human genome to see if humans carry a similar gene; BLAST will identify sequences in the human genome that resemble the mouse gene based on similarity of sequence. The BLAST program was designed by Eugene Myers, Stephen Altschul, Warren Gish, David J. Lipman and Webb Miller at the NIH and was published in J. Mol. Biol. in 1990.

http://www.ncbi.nlm.nih.gov/nuccore/NM_080827.1?report=fasta&log$=seqview

빨간색 부분에 Accession Number를 넣으면 Sequence 정보를 얻을 수 있다. 
Format은 FASTA

BLAST 사용법(http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastHome)

Query : 보고자 하는 Sequence Pattern
Subject : 비교하고자 하는 대상 Sequence

Test Code

http://www.ncbi.nlm.nih.gov/nuccore/NM_080827.1

http://www.ncbi.nlm.nih.gov/nuccore/22779935

http://www.ncbi.nlm.nih.gov/nuccore/NM_020398.3

http://www.ncbi.nlm.nih.gov/nuccore/NM_080827.1?report=fasta&log$=seqview

ACACCGGGGCAGGCAAAGTGCAGATGTAGGAGCTGCTGAGGAGCAGTTCTTAGTTTTGGTGCCATCAACC

AGGCCAGTACTTCCTAAAATGGGACTCTCAGGACTTCTGCCAATCCTGGTACCATTCATCCTTTTGGGGG

ACATCCAGGAACCTGGGCACGCTGAAGGCATCCTTGGCAAGCCGTGTCCCAAAATCAAAGTGGAATGCGA

AGTGGAAGAAATAGACCAGTGTACCAAACCCAGAGATTGCCCAGAAAACATGAAGTGTTGCCCGTTCAGC

CGTGGAAAGAAATGTTTAGACTTCAGAAAGGTCAGCCTTACTTTATACCATAAGGAGGAGCTTGAATAAC

CTCCAGGATTTGGCTCATAATCCAGGCCTCTCTCCACGTGTGCCTGATTGATGCTCCAAATTGGCTTCCA

CGGGCCAAACCTTGGCTGTTCCAGAAACTGAACCCCAGGAATTGCTTACACACTTTCTTCCAGCGTAGCA

TCTCTTCAAACACAATGCTCTTCCCCTTGACCACTTCTCAGTATGAAACTCTATGTCTTCAACTTTCAGA

CCCCCCATTTATTTGTATGAAGGCTTCAGTTGCCTTAATAAAGTGCTCTGTGGGGTCCG

TATATCCAAGGTGCAGCAGCTGAGCATTCCAAATTCGGGAACCACCAGAAAGGCTGGCCTCTCTTCAACA

TGGGATCTTCTGGACTTTTGAGCCTCCTGGTGCTATTCGTCCTCTTAGCGAATGTCCAGGGACCTGGTCT

GACTGATTGGTTATTTCCCAGGAGATGTCCCAAAATCAGAGAAGAATGTGAATTCCAAGAAAGGGATGTG

TGTACAAAGGACAGACAATGCCAGGACAACAAGAAGTGTTGTGTCTTCAGCTGCGGAAAAAAATGTTTAG

ATCTCAAACAAGATGTATGCGAAATGCCAAAAGAAACTGGCCCCTGCCTGGCTTATTTTCTTCATTGGTG

GTATGACAAGAAAGATAATACTTGCTCCATGTTTGTCTATGGTGGCTGCCAGGGAAACAATAACAACTTC

CAATCCAAAGCCAACTGCCTGAACACCTGCAAGAATAAACGCTTTCCCTGATTGGATAAGGATGCACTGG

AAGAACTGCCAGAATGTGGCTCATGCTCTGAGTACTGTTCCTGTACCTGACGGATGCTCCAGACTGGCTT

CCAGTTTCACTCTCAGCATTCCAAGATCTTAGCCCTTCCCAGAACAGAACGCTTGCATCTACCTCCTCTT

CCTCCATCTTTGGCTCTTTTGATGCACAATATCCATCCGTTTTGATTTCATCTTTATGTCCCCTTTATCT

CCAACTTCTAGAACTCCCAGTTTATACCTGTGTCACTCTCAATTTTTTCCAGTAAAGTACTTGATGTAGT

CCTGTGCCTTGAGGCTGAGTGATTGACATCTTTTTGGCACATTACACTTTGCAGAGTAAGGGATCATTGA

GGCTTCTGGTGACATCATTCAAGGGAGTGAAGACAATCAGAACTTTGAGAGTTCAGAGTTCCAGGAATAT

TGTTATTGTTATCTTCCTCTGTTTCTACAAAAGATTGTAAAACCCTTTTTAGGCAAGGGCCCAAGGACAG

TGCCTTAGTTTGGATCCTCTAGAAACTAACCCTGGGAAAAGGGCATGGGTGCAGGTAGTTTGTTTGAGAG

ATTTCCCAGGACATACAAGATGGGGAGTGAGATGAGTAATTCAGGGAAGAGAAGGGAAGAGAGAAGAGTC

TATTATGAGCTGGTTACTACTGTGGCTCAATCCTATTGGGGACCTTTTAAAGAATCATGTAAAACAGGCT

TACAAATTTTCTTTTTAAAAATATTTTATTTTATTTTACGTTCCGGGATACATGTGCAGGACCTGCAGGT

TTGTTACATAGGTAAGCCTGTGCCATGGTGGTTTGCTGCACCTATCAACCCATTACCTGGGTATTAAGCC

CCGCATGCATTAGCTATTTATCCTGATGCTTTCCCTCCCCCTGCCCCCTCAACAGTCCACGTGTTCTCAT

TGTTCATCTCCCACTTGCAAGTGAGAACATGTGGTATTTACTTTTGTTCCTGCGTTACTTTGCTGAGGAT

AACGGCTTCCAGCTTCATCCATGTCCCTGCAAAGGACGTGATCTCATTTCTTTTTATGGCTGCATAGTAT

TCCATGGCATATATGTACCACATTTTCTTTATCCAGCCTATCGTTGATGGATATTTGGTTTGATTCCATG

TTTTTGCTATTGTAAATAGTGCTGCAGTGAACATACACATGCATGTATCTTTATAAAAGAATGATTTATA

TTCCTTTGAGTGTATACCCAGTAATGGGATTGCTGGGTCAAATGGTATTTCTGGTTCTAGATCTTTCAGG

AATTGGCACACTCTCTTCCACAATGGTTGAACCAATTTACATTCCCAACAGTGTAAAAGCATTCATGTTT

CTCCACAGCTTTACCAGCATCTGTTGTTTCTGGACTTTTTAATAATCACCATTCTGACTGGCATGAGATG

GTATCTCATTGTGGTTTTGATTTGCATTTCTCTGATGATCACTGGTGTTGAGCTTTTTTTCATATGTTTG

TTGGCCGCATAAATGTCTTCTTTTGAGAAAAAAAAAAA