Tag: BASE

GPKB – Genomic and Proteomic Knowledge Base

GPKB

:: DESCRIPTION

GPKB integrates several of the most relevant sources of such dispersed information (including Entrez Gene, UniProt, IntAct, Expasy Enzyme, GO, GOA, BioCyc, KEGG, Reactome, and OMIM).

::DEVELOPER

GPKB team

:: SCREENSHOTS

n/a

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Masseroli M, Canakoglu A, Ceri S.
Integration and Querying of Genomic and Proteomic Semantic Annotations for Biomedical Knowledge Extraction.
IEEE/ACM Trans Comput Biol Bioinform. 2016 Mar-Apr;13(2):209-19. doi: 10.1109/TCBB.2015.2453944. PMID: 27045824.

BASE 3.18.2 – Microarray Data Management & Analysis

BASE 3.18.2

:: DESCRIPTION

BASE (BioArray Software Environment) is a comprehensive free web-based database solution for the massive amounts of data generated by microarray analysis.

::DEVELOPER

Jari Häkkinen @ Lund University

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

BASE

:: MORE INFORMATION

Citation:

Johan Vallon-Christersson, Nicklas Nordborg, Martin Svensson and Jari Häkkinen  ,
BASE – 2nd generation software for microarray data management and analysis
BMC Bioinformatics 2009, 10:33

TADKB – Topologically Associating Domain Knowledge Base

TADKB

:: DESCRIPTION

TADKB is an integrated resource for exploring topologically associating domains (TADs)

::DEVELOPER

Z. WANG LAB

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Liu T, Porter J, Zhao C, Zhu H, Wang N, Sun Z, Mo YY, Wang Z.
TADKB: Family classification and a knowledge base of topologically associating domains.
BMC Genomics. 2019 Mar 14;20(1):217. doi: 10.1186/s12864-019-5551-2. PMID: 30871473; PMCID: PMC6419456.

B3 3.31 – Bibliography Base for Biologists

B3 3.31

:: DESCRIPTION

B3 (Bibliography Base for Biologists)  is a XML-based Bibliography Base Manager written in Java. It uses XSLT stlysheets to output bibliographies in several formats, including BibTex and HTML. It is also possible to export data toward a SQL database, and to process OpenDocument files.

::DEVELOPER

Dr Julien Y. Dutheil

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / MacOsX / Linux
  • Java

:: DOWNLOAD

B3

:: MORE INFORMATION