HS3D: Homo Sapiens Splice Sites Dataset
HS3D (Homo Sapiens Splice Sites Dataset) is a data set of Homo Sapiens Exon, Intron and Splice regions extracted from GenBank Rel.123. The aim of this data set is to give standardized material to train and to assess the prediction accuracy of computational approaches for gene identification and c...Tags: HS3D, Homo, Sapiens, Splice, Sites, Dataset, Human
1441 days ago
Tags: ENCODE, Project, Genome, Reference, Data, Ftp, Download, Human
981 days ago
Tags: Human, Complete, Genome, T2T
687 days ago
Public Databases for Bioinformatics !
https://www.nature.com/articles/s41467-020-17155-yServer Infrastructure: File Server: dhara: Synology 3614 Storage Appliance 4 Core Xeon 108TB disk storage 10Gb ethernet to SCG3 Access atx: dhara:5000 Has btsync server (try it - its much better than dropbox) Compute Servers: nand...Tags: public, database, test, genome, human
1157 days ago
Tags: TelomereHunter, tool, telomere, human, whole-genome, sequencing
2302 days ago
TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions
TRRUST contains 8,444 and 6,552 TF-target regulatory relationships of 800 human TFs and 828 mouse TFs, respectively. They have been derived from 11,237 pubmed articles, which describe small-scale experimental studies of transcriptional regulations. To efficiently search for regulatory relationshi...Tags: TF, human, mouse
2345 days ago
Carefully opt for human reference genome
Heng Li posted several issues with the human reference genomes given in these resources and suggests the following compressed FASTA file to be used as hg38/GRCh38 human reference genome. if you map reads to GRCh38 or hg38, use the following: ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/00...Tags: Carefully, opt, human, reference, genome
1556 days ago
HumCFS: a database of fragile sites in human chromosomes
Fragile sites are specific chromosomal region that exhibit an increased frequency of chromosdomal breakge when cells are exposed to replicative stress. Since from the discovery of chromosomal fragile sites/regions (CFS), several line of evidence suggests their involvement in human pathologies and...Tags: HumCFS, database, fragile, human, chromosomes
1859 days ago
SeqMule: Automated human exome/genome variants detection
SeqMule takes single-end or paird-end FASTQ or BAM files, generates a script consisting of more than 10 popular alignment, analysis tools and runs the script line by line. Users can change the pipeline or fine-tune the parameters by modifying its configuration file.Tags: SeqMule, Automated, human, exome, genome, variants, detection
1556 days ago
PLAR: Pipeline for lncRNA annotation from RNA-seq data
Due to several requests, we are releasing an assingment of orthologs, determined using the same methods used in Hezroni et al. (BLAST, Whole Genome Alignment (WGA), and synteny). One is comparing human GENCODE genes (from GENCODE v30) to lncRNAs from other species identified by PLAR. Available&nb...Tags: lncRNA, data, human, genome, plar
867 days ago