Ncbi Entrez

The CL!Psci Scientific Search Engine is a superfast and efficient, free Google-like software, designed to meet the specialized and intensive, web-based information need of the researcher scientist. * Customize a menu of your most commonly used scientific search engines * Right-click on a word or...

Perl Entrez Gene Parser project provides Perl parsers for NCBI's Entrez Gene based on regular expression, Parse::RecDescent, Parse::Yapp and Perl-byacc. Some can parse human genome annotations in minutes. Documentation and user guides are provided.

This program is a parser that abstract a data structure from a given Entrez Gene record, and users of the parser can decide what to do/extract from the data structure. Perl Entrez Gene Parser project provides Perl parsers for NCBI's Entrez Gene based on regular expression, Parse::RecDescent,...


Platforms: Windows, Mac, *nix, Perl, BSD Solaris

The Entrez Widget provides a quick access to the NCBI Databases. You just have to enter your search terms and the result will be displayed in a new browser window.


Platforms: Mac

WinBlast is a handy, easy to use application specially designed to offer you a graphical front-end for NCBI BLAST.


Platforms: Windows

This software is to help the those connected with Biology,Biotechnology,Bio Informatics.The user can select from the choices of proteins, nucleotides,etc(All those found on NCBI's website)and search for the specific results


Platforms: Windows, Mac, BSD, Linux

DNADynamo sequence analysis software is easy to use. It's user interface is focused on your DNA sequences, proteins and restriction enzyme sites. Sequencing data, oligonucleotide sequences, DNA/Protein annotations and notes can be added to each sequence. Information is accessible whenever it is...


Platforms: Mac

Blast Viewer gives you a graphic interface to view reports produced by search systems in NCBI and EBI BLAST databases.Blast Viewer is a simple to use software designed for the daily analysis of biological sequences. It lets you view and analyze the enormous quantities of data that come from a...


Platforms: Windows

The BLAST widget provides a quick access to the Basic Local Alignment Search Tool at NCBI. You just have to type or paste your sequence and to select the program to be used.


Platforms: Mac

Translated BLAST Widget provides a quick access to the Translated Basic Local Alignment Search Tool at NCBI. You just have to type or paste your sequence and to select the program to be used.


Platforms: Mac

Protein BLAST Widget provides a quick access to the Protein Basic Local Alignment Search Tool at NCBI. You just have to type or paste your sequence and to select the program to be used.


Platforms: Mac

Nucleotide BLAST Widget provides a quick access to the Nucleotide Basic Local Alignment Search Tool at NCBI. You just have to type or paste your sequence and to select the program to be used.


Platforms: Mac

TB antibiotic resistance mapper was developed as a specialized tool that can help you map sequencing reads with the MTB reference genome (H37Rv) using NCBI blast, in order to find out mutation sites. Now you can quickly discover mutations with the help of this instrument.


Platforms: Windows

EST Express is an open-source, cross-platform web server application that imports sequences from cDNA libraries and provides several layers of annotation based on Entrez Gene to allow the user to highlight useful genes and manage cDNA library projects.


Platforms: Windows, Mac, Linux

JAMBLAST: Java Application Manager for the ncbi BLAST results. It is a graphic application that allow the user to display, filter, sort, import/export, store/manage BLAST results produced with the NOBLAST (https://sourceforge.net/projects/noblast).


Platforms: Windows, Mac, Linux

ORFer reads the NCBI GenBank XML sequence format and extracts open reading frames for proteins. Sequences can be requested by GI or accession number. ORFprimer is an extended software package for high throughput PCR primer design for biological sequences


Platforms: Windows, Mac, BSD, Solaris, Linux

MGWT: Identification of protein coding regions using the ModifiedGabor-wavelet transform.Sequence of test:F56F11.4.fasta (included into the zip file)http://www.ncbi.nlm.nih.gov/entrez/viewer....de&val=AF099922http://www.vision.ime.usp.br/~jmena/projec...ome_results/F5/References:[1] J. P....


Platforms: Matlab

As part of implementation of CMS for Biomedical applications, it is often a requirement to display publications from well known databases. One such database is called PubMed which is provided National Center for Biotechnology Information, National Library of Medicine and National Institutes of...


Platforms: PHP

This module allows to import PubMed articles by ID and by Search term into the biblio database. Moderated mass retrieval per Batch API and cronjob as well as automatic updates in cron makes it a valuable addition to the biblio module.Built mostly by agaric on behalf of the Science Collaboration...


Platforms: PHP

PHLAWD (pronounced flawd) allows for the creation of large (mega) phylogenies using NCBI databases. There are binaries available for Linux and MacOSX in the downloads section. PHLAWD takes advantage (or at least part of it) of multi threaded computers and can produce matrices of more than 100,000...


Platforms: Mac