:: DESCRIPTION
miRTarVIs is a visual analysis tool for miRNA-mRNA expression profile data.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
miRTarVis: an interactive visual analysis tool for microRNA-mRNA expression profile data.
Jung D, Kim B, Freishtat RJ, Giri M, Hoffman E, Seo J.
BMC Proc. 2015 Aug 13;9(Suppl 6 Proceedings of the 5th Symposium on Biological Data):S2. doi: 10.1186/1753-6561-9-S6-S2. eCollection 2015.
:: DESCRIPTION
eProS (Enery Profile Suite)is a database and toolbox for calculation, analysis, comparison and prediction of protein energy profiles
::DEVELOPER
BioInformatics Group Mittweida
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
eProS–a database and toolbox for investigating protein sequence-structure-function relationships through energy profiles.
Heinke F, Schildbach S, Stockmann D, Labudde D.
Nucleic Acids Res. 2013 Jan;41(Database issue):D320-6. doi: 10.1093/nar/gks1079.
:: DESCRIPTION
UPP addresses the problem of alignment of very large datasets, potentially containing fragmentary data.
::DEVELOPER
:: SCREENSHOTS
n/a
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Ultra-large alignments using phylogeny-aware profiles.
Nguyen NP, Mirarab S, Kumar K, Warnow T.
Genome Biol. 2015 Jun 16;16(1):124.
:: DESCRIPTION
MiRNA Profiling is a software to profile the content of a miRNA sequencing run.Given a set of aligned reads in 1 or more .sam files, produce an annotated version of the .sam where each read is given an annotation based on its coordinate. Additional summary information about the content of each sample is also generated, including miRNA species and other genomic features found.
::DEVELOPER
Canada’s Michael Smith Genome Sciences Centre
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Based on analysis software used in Morin et al.,
Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells.,
Genome Res. 2008.18: 610-621
:: DESCRIPTION
PredBF is a web server for robust prediction of B-factor profile from sequence using two-stage SVR based on random forest feature selection
::DEVELOPER
Computational Systems Biology Group, Shanghai Jiao Tong University
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation:
Protein Pept Lett. 2009;16(12):1447-54.
Robust prediction of B-factor profile from sequence using two-stage SVR based on random forest feature selection.
Pan XY1, Shen HB.
:: DESCRIPTION
SCUDO (Signature-based ClUstering for DiagnOstic purposes) is a tool for clustering gene expression profiles for diagnostic purposes using a new type of rank-based signatures
::DEVELOPER
The Microsoft Research – University of Trento Centre for Computational and Systems Biology
:: SCREENSHOTS
N/a
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
SCUDO: a tool for signature-based clustering of expression profiles.
Lauria M, Moyseos P, Priami C.
Nucleic Acids Res. 2015 May 9. pii: gkv449.
:: DESCRIPTION
eLSA (Extended local similarity analysis) is a software of Finding Time-Dependent Associations in Time Series Datasets.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Li C Xia, Joshua A Steele, Jacob A Cram, Zoe G Cardon, Sheri L Simmons, Joseph J Vallino, Jed A Fuhrman and Fengzhu Sun
Extended local similarity analysis (eLSA) of microbial community and other time series data with replicates
BMC Systems Biology 2011, 5(Suppl 2):S15
Quansong Ruan, Debojyoti Dutta, Michael S. Schwalbach, Joshua A. Steele, Jed A. Fuhrman, Fengzhu Sun (2006),
Local Similarity Analysis Reveals Unique Associations Among Marine Bacterioplankton Species and Environmental Factors.
Bioinformatics (2006) 22 (20): 2532-2538.
:: DESCRIPTION
HMMEditor (HMMVE) is a visual editor for profile Hidden Markov Model (pHMM)
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
J. Dai and J. Cheng.
HMMEditor: A Visual Editing Tool for Profile Hidden Markov Model.
BMC Genomics. 9(S1):S8, 2008.
:: DESCRIPTION
MulteeSum is a visualization system that supports inspection and curation of data sets showing gene expression over time, in conjunction with the spatial location of the cells where the genes are expressed — it is the first tool to support comparisons across multiple such datasets.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
IEEE Trans Vis Comput Graph. 2010 Nov-Dec;16(6):908-17. doi: 10.1109/TVCG.2010.137.
MulteeSum: a tool for comparative spatial and temporal gene expression data.
Meyer M, Munzner T, DePace A, Pfister H.
:: DESCRIPTION
SimCopy is an R package simulating the evolution of copy number profiles along a tree. It relies on the PhyloSim package for performing the simulations by encoding the genomic regions as sites in sequences and using modified processes acting on them.
::DEVELOPER
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
