Data Retrieval

Data Retrieval
• Nearly all biological
databases are
available for download
as simple text (flat) files
• A local version of the
database allows one
greater freedom in
processing the data
Data Retrieval
Entrez
• is an integrated search
engine which allows
users to search and
retrieve different data
from the NCBI
• It can be accessed from
the site
www.ncbi.nlm.nih.gov/
Entrez/
Data Retrieval
Entrez
• integrates PubMed and
39 other scientific
literatures, nucleotide
and protein databases
• protein domain data,
population studies,
expression data,
pathways, genome
details and taxonomic
information
Data Retrieval
Data Retrieval
Data Retrieval
Bulk Data Retrieval
• The best option is to use
ftp (File transfer protocol)
• The File Transfer
Protocol (FTP) is a
standard network
protocol used to transfer
files
• Via command line or
application programs like
FTP clients
Data Retrieval
Bulk Data Retrieval
• Data needs to be
transformed or
processed using
programming languages
• PERL and Python are
good for processing
Biological data
Data Retrieval
Conclusions
• Data is transferred over
the internet
• Data needs to be
transformed or
processed