Tag: Development

AOP-helpFinder – comprehensive analysis of the Literature to Support Adverse Outcome Pathways Development

AOP-helpFinder

:: DESCRIPTION

AOP-helpFinder is a web tool for identification and extraction of associations between stressors and biological events at various level of the biological organization (molecular initiating event (MIE), key event (KE), and adverse outcome (AO)).

::DEVELOPER

AOP-helpFinder team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Jornod F, Jaylet T, Blaha L, Sarigiannis D, Tamisier L, Audouze K.
AOP-helpFinder webserver: a tool for comprehensive analysis of the literature to support adverse outcome pathways development.
Bioinformatics. 2021 Oct 30:btab750. doi: 10.1093/bioinformatics/btab750. Epub ahead of print. PMID: 34718414.

EmbryoMaker 1.0 – Computational Modeling of development by Epithelia, Mesenchyme and their Interactions

EmbryoMaker 1.0

:: DESCRIPTION

EmbryoMaker allows the user to simulate custom developmental processes by designing custom gene networks capable of regulating cell signaling and all animal basic cell behaviors.

::DEVELOPER

Salazar-Ciudad Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/ MacOsX

:: DOWNLOAD

 EmbryoMaker

:: MORE INFORMATION

Citation:

Computational modeling of development by epithelia, mesenchyme and their interactions: A unified model.
Marin-Riera M, Brun-Usan M, Zimm R, V?likangas T, Salazar-Ciudad I.
Bioinformatics. 2015 Sep 5. pii: btv527.

iLAP 1.3.3 – Laboratory Data Management, Analysis and Protocol Development

iLAP 1.3.3

:: DESCRIPTION

 iLAP (Laboratory data management, Analysis and Protocol development) combines experimental protocol development, wizard-based data acquisition and high-throughput data analysis into one single, integrated system.

::DEVELOPER

the Division of Bioinformatics, Innsbruck Medical University

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux / MacOsX
  • PostgreSQL
  • JEE
  • Apache Tomcat

:: DOWNLOAD

  iLAP

:: MORE INFORMATION

Citation

Stocker G, Fischer M, Rieder D, Bindea G, Kainz S, Oberstolz M, McNally JG and Trajanoski Z,
iLAP: a workflow-driven software for experimental protocol development, data acquisition and analysis,
BMC Bioinformatics, 2009 Nov 10(6)

SensSB 20120926 – Development and Sensitivity Analysis of Systems Biology Models

SensSB 20120926

:: DESCRIPTION

SensSB (Sensitivity Analysis for Systems Biology) is an easy to use, MATLAB-based software toolbox, which integrates several local and global sensitivity methods that can be applied to a wide variety of biological models.

::DEVELOPER

(Bio)Process Engineering group, IIM-CSIC

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows
  • Matlab

:: DOWNLOAD

SensSB

:: MORE INFORMATION

Citation:

M. Rodriguez-Fernandez and J. R. Banga (2010)
SensSB: a software toolbox for the development and sensitivity analysis of systems biology models.
Bioinformatics 26(13):1675-1676

WebSat 1.1.0 – MicroSatellite Marker Development

WebSat 1.1.0

:: DESCRIPTION

WebSat is a software for microsatellite molecular marker prediction and development.

::DEVELOPER

Wellington S. Martins

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Server

:: DOWNLOAD

 WebSat

:: MORE INFORMATION

Citation

Martins WS, Lucas DCS, Neves KFS, Bertioli DJ,
WebSat – A Web Software for MicroSatellite Marker Development,
Bioinformation 2009, 3(6):282-283.

protpy 1.0 – Development of Protein Descriptors using Python

protpy 1.0

:: DESCRIPTION

protpy (protein in python)is a software for calculating the widely used structural and physicochemical features of proteins and peptides from amino acid sequence.

::DEVELOPER

Research Center of Modernization of Traditional Chinese Medicines, Central South University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/ Linux / Mac OsX
  • Python

:: DOWNLOAD

 protpy

:: MORE INFORMATION

Citation

Bioinformatics (2013) 29 (7): 960-962.
propy: a tool to generate various modes of Chou’s PseAAC.
Cao DS, Xu QS, Liang YZ.

SNP2CAPS – SNP and INDEL Analysis Tool for CAPS Marker Development

SNP2CAPS

:: DESCRIPTION

SNP2CAPS facilitates the computational conversion of SNPs into CAPS markers. A simple algorithm involves the screening of multiply-aligned sequences for restriction sites followed by a selection pipeline that allows the deduction of CAPS candidates by the identification of putative alternative restriction sites.

::DEVELOPER

Thomas Thiel  at the IPK-Gatersleben

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux/  MacOSX
  • Perl

:: DOWNLOAD

 SNP2CAPS

:: MORE INFORMATION

Citation

T. Thiel, R. Kota, I. Grosse, N. Stein, and A. Graner.
SNP2CAPS: a SNP and INDEL analysis tool for CAPS marker development.
Nucleic Acids Research, 32(1):e5, 2004.