WebPropagate – Web Server for Network Propagation

WebPropagate

:: DESCRIPTION

WebPropagate is a web-server that implements variants of network propagation on up-to-date PPI networks. Starting from a seed set of proteins that are known to be associated with a process of interest, WebPropagate outputs additional candidate proteins that are significantly associated with the seed set.

::DEVELOPER

Prof. Roded Sharan

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

NO

:: MORE INFORMATION

Citation

WebPropagate: A Web Server for Network Propagation.
Biran H, Almozlino T, Kupiec M, Sharan R.
J Mol Biol. 2018 Jul 20;430(15):2231-2236. doi: 10.1016/j.jmb.2018.02.025.

BNW – Bayesian Network Web Server

BNW

:: DESCRIPTION

BNW is a comprehensive web server for Bayesian network modeling of biological data sets. It is designed so that users can quickly and seamlessly upload a dataset, learn the structure of the network model that best explains the data, and use the model to understand and make predictions about relationships between the variables in the model.

::DEVELOPER

Yan Cui’s Lab at University of Tennessee Health Science Center

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 BNW

:: MORE INFORMATION

Citation:

Bioinformatics. 2013 Nov 1;29(21):2801-3. doi: 10.1093/bioinformatics/btt472. Epub 2013 Aug 21.
Bayesian Network Webserver: a comprehensive tool for biological network modeling.
Ziebarth JD1, Bhattacharya A, Cui Y.

GWAB – Web Server for Network-based Boosting of Human Genome-wide Association data

GWAB

:: DESCRIPTION

GWAB (genome-wide Association Boosting) is a web server for the network-based boosting of human GWAS data.

::DEVELOPER

Network Biomedicine Laboratory at Yonsei University, Korea

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2017 Jul 3;45(W1):W154-W161. doi: 10.1093/nar/gkx284.
GWAB: a web server for the network-based boosting of human genome-wide association data.
Shim JE, Bang C, Yang S, Lee T, Hwang S, Kim CY, Singh-Blom UM, Marcotte EM, Lee I.

ASEB 1.31.0 – A Web Server for KAT-specific Acetylation Site Prediction

ASEB 1.31.0

:: DESCRIPTION

ASEB (Acetylation Set Enrichment-Based) is a method to predict the KAT families responsible for a given protein.

::DEVELOPER

ASEB team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/ Windows/MacOsX
  • R package

:: DOWNLOAD

 ASEB

:: MORE INFORMATION

Citation

ASEB: a web server for KAT-specific acetylation site prediction.
Wang L, Du Y, Lu M, Li T.
Nucleic Acids Res. 2012 Jul;40(Web Server issue):W376-9. doi: 10.1093/nar/gks437.

PepPSy – A Web Server to prioritize Gene Products in Experimental and Biocuration Workflows

PepPSy

:: DESCRIPTION

PepPSy has been developed as a user-friendly gene expression-based prioritization system, to help investigators to determine in which human tissues they should look for an unseen protein and curators to quickly look at available transcriptomics/proteomics data for a list of proteins.

::DEVELOPER

PepPSy team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

PepPSy: a web server to prioritize gene products in experimental and biocuration workflows.
Sallou O, Duek PD, Darde TA, Collin O, Lane L, Chalmel F.
Database (Oxford). 2016 May 12;2016. pii: baw070.

ChemiRs – Web Server for microRNAs and Chemicals

ChemiRs

:: DESCRIPTION

ChemiRs is a creditable online web server for predicting interactions and relations among miRNAs, chemicals and pathways.

::DEVELOPER

NTNU BISBE

:: SCREENSHOTS

N/A

::REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

ChemiRs: a web application for microRNAs and chemicals.
Su EC, Chen YS, Tien YC, Liu J, Ho BC, Yu SL, Singh S.
BMC Bioinformatics. 2016 Apr 18;17(1):167. doi: 10.1186/s12859-016-1002-0.

miRQuest – Integration of tools on a Web Server for microRNA Research

miRQuest

:: DESCRIPTION

miRQuest is a webserver that enables to the end-user a friendly and standardized software to use the many ab initio tools for miRNA investigation.

::DEVELOPER

miRQuest team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

miRQuest: integration of tools on a Web server for microRNA research.
Aguiar RR, Ambrosio LA, Sepúlveda-Hermosilla G, Maracaja-Coutinho V, Paschoal AR.
Genet Mol Res. 2016 Mar 28;15(1). doi: 10.4238/gmr.15016861.

myPhyloDB v.1.1.2 – A Local Web Server for the Storage and Analysis of Metagenomic Data

myPhyloDB v.1.1.2

:: DESCRIPTION

myPhyloDB is an open-source software package aimed at developing a user-friendly web-interface for accessing and analyzing all of your laboratory’s microbial ecology data.

::DEVELOPER

Daniel Manter

: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / WIndows/ MacOsX
  • Python

:: DOWNLOAD

 myPhyloDB

:: MORE INFORMATION

Citation

myPhyloDB: a local web server for the storage and analysis of metagenomic data.
Manter DK, Korsa M, Tebbe C, Delgado JA.
Database (Oxford). 2016 Mar 28;2016. pii: baw037. doi: 10.1093/database/baw037.

SequenceServer 1.0.6 – Set up a Local BLAST Web Server to Search & Share Sequence data

SequenceServer 1.0.6

:: DESCRIPTION

SequenceServer lets you rapidly set up a BLAST+ server with an intuitive user interface for use locally or over the web.

::DEVELOPER

Wurm Lab

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 SequenceServer

:: MORE INFORMATION

Citation

Sequenceserver: a modern graphical user interface for custom BLAST databases
Anurag Priyam, Ben J Woodcroft, Vivek Rai, Alekhya Munagala, Ismail Moghul, Filip Ter, Mark Anthony Gibbins, HongKee Moon, Guy Leonard, Wolfgang Rumpf, Yannick Wurm
doi: http://dx.doi.org/10.1101/033142

MetExplore 2.5 – Web Server to Link Metabolomic Experiments and Genome-scale Metabolic Networks

MetExplore 2.5

:: DESCRIPTION

MetExplore is a web server to link metabolomic experiments and genome-scale metabolic networks.

::DEVELOPER

MetExplore Team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W132-7. doi: 10.1093/nar/gkq312. Epub 2010 May 5.
MetExplore: a web server to link metabolomic experiments and genome-scale metabolic networks.
Cottret L, Wildridge D, Vinson F, Barrett MP, Charles H, Sagot MF, Jourdan F.