Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: INGI variation catalogue

PROVIDER: PRJEB33648 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	1.INGI_sites.vcf.gz	Vcf
	1.INGI_sites.vcf.gz.tbi	Vcf
	10.INGI_sites.vcf.gz	Vcf
	10.INGI_sites.vcf.gz.tbi	Vcf
	11.INGI_sites.vcf.gz	Vcf

Items per page:

1 - 5 of 44

Similar Datasets

Project description:Qatar variation catalogue

| PRJEB51505 | ENA

Comparative genomic hybridization of 269 individuals from three geographically distinct human populations to investigate copy number variation

Project description:We conducted comparative genome hybridization experiments to catalogue the common copy number variation evident between 269 individuals from three geographically distinct human populations (Yoruban, Chinese/Japanese, European) against a single reference individual.

2006-07-31 | E-TABM-107 | biostudies-arrayexpress

MAP3K8 is a major regulator of inflammation in human airway epithelial cells

Project description:In this experiment we catalogue temporal variation in transcription occurring during IL1B stimulation under control (non-targeting siRNA control) conditions and partial MAP3K8 siRNA knockdown in the A549 cell line. We measure global gene transcription at 0, 1, 2, 4, 6, 8, and 12 hours using Affymetrix HuGene 1.1 ST array. Nineteen genes demonstrated a distinct temporal response to Il1B stimulation following suppression of MAP3K8.

2023-09-09 | GSE103987 | GEO

RNA-Seq of mouse strains

Project description:The Mouse Genomes Project ( http://www.sanger.ac.uk/science/data/mouse-genomes-project ) uses using next-generation sequencing technologies to catalogue molecular variation in the common laboratory mouse strains, and a selected set of wild-derived inbred strains. Access to complete sequence of multiple inbred strains will add to these resources and will become a permanent foundation for a systems biology approach to phenotypic variation in the mouse. In this particular study, we have sequenced the transcriptome of whole-brain tissue from 16 laboratory mouse strains to examine differences in gene expression levels, differential RNA-editing, and for use in de novo gene prediction.

2011-03-29 | E-MTAB-615 | biostudies-arrayexpress

A comprehensive, cell specific microRNA catalogue of human peripheral blood

Project description:A comprehensive, cell specific microRNA catalogue of human peripheral blood

2017-08-02 | GSE100467 | GEO

Saccharum officinarum

Project description:The SUCAST catalogue

| PRJNA90637 | ENA

Oncogenic Enhancers from Small Genomic Insertions

Project description:The noncoding regions of tumor cell genomes harbor a considerable fraction of total variation, but the functional contribution of such variants to tumorigenesis is ill-defined. Among these noncoding variants, somatic insertions are among the least well-characterized due to challenges with interpreting short-read DNA sequences. To address this, we have identified enhancer-associated small insertion variants across a spectrum of tumor cells by using ChIP-seq to enrich and sequence enhancer DNA, and a computational approach with multiple alignment procedures to identify small insertions. Among the 82 tumor genomes studied here, small insertions were frequently observed in enhancer DNA sequences located near known oncogenes. Further study of one such insertion, found in primary leukemia tumor genomes, revealed that it nucleates formation of an active enhancer that drives expression of the LMO2 oncogene. The catalogue of enhancer-associated small insertion variants described here provides a foundation for further investigating the functions of this class of variants across a range of human cancers.

2016-07-08 | GSE76783 | GEO

Transcriptomic Insights into Genetic Diversity of Protein-Coding Genes in X. laevis

Project description:We characterize the genetic diversity of Xenopus laevis strains using allele-specific RNA-seq data analysis and provide a catalogue of coding variation which can be used for improving the genomic sequence, as well as for better sequence alignment, probe design, and proteomic analysis. In addition, we paint a broad picture of the genetic landscape of the species by functionally annotating different classes of mutations with a well-established prediction tool (PolyPhen-2). Further, we specifically compare the variation in the progeny of a cross from the inbred genomic (J)-strain, a cross from the popular occasionally outbred albino (B)-strain, and two hybrid crosses. We use the comparison to identify a subset of mutations specific to the B-strain, which allows us to investigate the specific selection pressures affecting duplicated genes in this pseudo-tetraploid. We find the ratio of non-synonymous to synonymous mutations is lower in duplicated genes, which therefore appear to be under greater purifying selection. Surprisingly, we also find that function-altering ("damaging") mutations constitute a greater fraction of the non-synonymous variants in this group, which may suggest a role for subfunctionalization in coding variation affecting duplicated genes.

2017-03-15 | GSE74470 | GEO

HoloFood Chicken Ileum MAG catalogue

Project description:HoloFood Chicken Ileum MAG catalogue

| PRJEB55375 | ENA

mouse gut metagenome

Project description:Comprehensive mouse microbiome genome catalogue

| PRJNA646353 | ENA