Human Disease

Management

Introduction of the BioStaCs Group


BioStaCs
2010
Nov 27
SMESE  ( Unpublish data )
SMESE (seed type, seed match number, hybrid energy, mRNA structure and expression data are used as the parameters for the prediction tools) is developed to find the relationship between miRNAs and their targeted genes... More
2011
May 15
miRD  ( Bioinformatics )
High-throughput deep-sequencing technology has generated an unprecedented number of expressed short sequence reads, presenting not only an opportunity but also a challenge for prediction of novel microRNAs. To verify the existence of candidate microRNAs... More
2012
Jul 15
CPSS  ( Bioinformatics )
Non-coding ribonucleic acids (RNAs), which do not encode proteins, include ribosomal RNAs, transfer RNAs, microRNAs (miRNA), piwi-interacting RNAs (piRNAs) and other RNA species. These RNAs participate in a surprisingly diverse collection of regulatory events (Moazed 2009)... More
2013
Jan 12
SpermatogenesisOnline  ( Nucleic Acids Res )
SpermatogenesisOnline 1.0, using manual curation from 30 233 articles published before 1 May 2012. It provides detailed information for 1666 genes reported to participate in spermatogenesis in 37 organisms... More
2015
Apr 29
FollicleOnline  ( Database (Oxford) )
Follicle Online is a web-based database system for storing and retrieving folliculogenesis-related experimental data. It provides detailed information for 580 genes/proteins (from 23 model organisms, including Homo sapiens, Mus musculus, Rattus norvegicus, Mesocricetus auratus, Bos Taurus, Drosophila and Xenopus laevis) that have been reported to be involved in folliculogenesis... More
Jul 1
DeAnnCNV  ( Nucleic Acids Res )
DeAnnCNV, an online tool, designed for precise Detection and Annotation of Copy Number Variations (CNVs) from whole-exome sequencing (WES) data. DeAnnCNV can accurately infer the CNVs of each subject based on the methodology, we described in our previously published algorithm GPHMM.It can also extract CNVs shared among multiple subjects and can further copiously annotate them based on several supporting sources including known CNVs in dbVar... More
2016
Jul 1
IsomiR Bank  ( Bioinformatics )
IsomiR Bank has been created to integrate isomiRs detected by our previously published algorithm CPSS. In total, 2727 samples (Small RNA NGS data downloaded from ArrayExpress) from eight species (Arabidopsis thaliana, Drosophila melanogaster, Danio rerio, Homo sapiens, Mus musculus, Oryza sativa, Solanum lycopersicum and Zea mays) are analyzed... More
Jul 8
DeAnnIso  ( Nucleic Acids Res )
DeAnnIso can detect all the isomiRs in an uploaded sample, and can extract the differentially expressing isomiRs from paired or multiple samples. Once the isomiRs detection is accomplished, detailed annotation information, including isomiRs expression, isomiRs classification, SNPs in miRNAs and tissue specific isomiR expression are provided to users... More
Jul 1
COMXCNA  ( Ongoing Project )
COMXCNA is a tool designed for detecting and annotating somatic copy number alterations (CNAs) by integrating four state-of-the-art CNA-calling methods: ExomeCNV, FREEC, ADTEx and EXCAVATOR. In the framework of COMXCNA, configurations of all methods and CNA-calling procedures are automatically done, which is very convenient for non-professional users... More
Jul 8
SNVfilter  ( Ongoing Project )
SNVfilter is a tool for removing sequencing errors and estimating the pathogenicity of variants generated from WES data which could: 1) filter out variants generated by sequencing or systematical error of the variants using linear regression model; 2) estimate the pathogenicity of variants based on a model constructed upon Support Vector Machine (SVM)... More
Jul 1
MeiosisOnline  ( ICIBM Conference. 2016 Dec )
Meiosis is an elaborately regulated cell division process that halves the number of chromosomes in reproductive cells from diploid to haploid. It is an essential and conservative stage in gamete formation in all sexually reproducing organisms (Figure below). Around meiosis studies, the key issues embrace meiosis initiation, synapsis & homologous recombination in both sexes... More

 
Jul 8
CPSS 2.0  ( Ongoing Project )
Development of large-scale sequencing technique leads to an increasing production of datasets, among which small RNA sequencing data is one of the most straightforward types of NGS data to analyze. Lots of small RNA analysis tools have been developed accordingly. Such as Chimira (Vitsios and Enright, 2015)... More