Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Arabidopsis thaliana

ABSTRACT: Genome-wide mapping of the Arabidopsis thaliana heat shock transcription factor A1b binding sites under non-stress and heat stress conditions [RNA-seq]

PROVIDER: PRJNA339001 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR4033020_1.fastq.gz	Fastqsanger.gz
	SRR4033020_2.fastq.gz	Fastqsanger.gz
	SRR4033021_1.fastq.gz	Fastqsanger.gz
	SRR4033021_2.fastq.gz	Fastqsanger.gz
	SRR4033022_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

E-GEOD-85653

Project description:Genome-wide mapping of the Arabidopsis thaliana heat shock transcription factor A1b binding sites under non-stress and heat stress conditions [RNA-seq]

2020-04-14 | E-GEOD-85653 | ExpressionAtlas

Genome-wide mapping of the Arabidopsis thaliana heat shock transcription factor A1b binding sites under non-stress and heat stress conditions

Project description:Genome-wide mapping of the Arabidopsis thaliana heat shock transcription factor A1b binding sites under non-stress and heat stress conditions

| PRJNA339003 | ENA

Arabidopsis thaliana

Project description:Genome-wide mapping of the Arabidopsis thaliana heat shock transcription factor A1b binding sites under non-stress and heat stress conditions [ChIP-seq]

| PRJNA339000 | ENA

Tiling Array HSF immunopurification

Project description:Mapping of in vivo Heat Shock Factor binding sites in drosophila embryos with genomic tiling arrays Keywords: repeat sample

2005-05-30 | GSE2423 | GEO

Tiling Array HSF immunopurification

Project description:Mapping of in vivo Heat Shock Factor binding sites in drosophila embryos with genomic tiling arrays

2010-06-09 | E-GEOD-2423 | biostudies-arrayexpress

Genome-wide maps of HSF1 and HSF2 binding sites in cycling and mitotic human K562 cells in optimal growth conditions and upon heat stress

Project description:Genome-wide characterization of binding sites for heat shock transcription factors HSF1 and HSF2 in freely cycling and mitotic K562 cells in optimal growth conditions and upon 30 min heat stress at 42C

2013-08-04 | GSE43579 | GEO

Transcriptional Profiles of Human Epithelial Cells in Response to Heat

Project description:We hypothesized that broad-scale expression profiling would provide insight into the regulatory pathways that control gene expression in response to stress, and potentially identify novel heat-responsive genes. HEp2 cells were heated at 37 to 43 °C for 60 min to gauge the heat shock response, using as a proxy inducible HSP-70 quantified by western blot analysis. Based on these results, microarray experiments were conducted at 37, 40, 41, 42 and 43°C (3 replicates/temperature x 5 groups = 15 U95Aver2 GeneChips). Using linear modeling, we compared the sets of microarrays at 40, 41, 42 and 43°C with the 37°C baseline temperature and took the union of the genes exhibiting differential gene expression signal to create two sets of “heat shock response” genes, each set reflecting either increased or decreased RNA abundance. Leveraging human and mouse orthologous alignments, we used the two lists of co-expressed genes to predict transcription factor binding sites in silico, including those for heat shock factor 1 (HSF1) and heat shock factor 2 (HSF2) transcription factors. We discovered HSF1 and HSF2 binding sites in 15 genes not previously associated with the heat shock response. We conclude that microarray experiments coupled with upstream promoter analysis can be used to identify novel genes that respond to heat shock. Additional experiments are required to validate these putative heat shock proteins and facilitate a deeper understanding of the mechanisms involved during the stress response. Keywords: stress response, temperature, human epithelial cells

2007-04-10 | GSE7458 | GEO

Whole-genome analysis of heat shock factor binding sites in Drosophila melanogaster at room temperature

Project description:Whole-genome analysis of heat shock factor binding sites in Drosophila melanogaster. Heat shock factor IP DNA from non-shock (room temperature) Kc 167 cells compared to whole cell extract on Agilent 2x244k tiling arrays.

2011-01-05 | GSE22335 | GEO

Mapping and dynamics of regulatory DNA and transcription factor networks in A. thaliana

Project description:We mapped DNaseI hypersensitive sites (DHSs) and applied genomic footprinting to define in vivo transcription factor (TF) occupancy at nucleotide resolution across the A. thaliana genome in whole seedlings during heat- and light-response states. We find that trait-associated variation localizes within DHSs, and that extensive TF occupancy within protein-coding exons has shaped A. thaliana codon usage. Analysis of >700,000 TF footprints disclosed an extensive cis-regulatory lexicon, and enabled construction of large-scale TF cross-regulatory networks. Although the cis- and trans-regulatory repertoire is markedly distinct from mammals, the architecture of A. thaliana TF networks is strikingly similar to those of human. Analysis of the DHS landscape and TF network dynamics during heat shock and photomorphogenesis revealed thousands of conditionally-sensitive elements and enabled mapping of key regulatory circuits. Our results provide an extensive resource for understanding and enabling diverse aspects of A. thaliana biology. Chromatin accessibility profiling (Dnase I-seq) and RNA-seq of 7-day-old dark-grown seedlings exposed to 0hr light, 30min light, 3hr light or 24hr LD conditions. Chromatin accessibility profiling (Dnase I-seq) and RNA-seq of 7-day-old LD-grown seedlings treated with a brief sever heat shock or kept under control conditions. Replicates are included when available; controls and read-normalized samples (samples that were subsampled to the same read-depth) are also included here.

2013-12-15 | E-GEOD-53322 | biostudies-arrayexpress

Drosophila melanogaster

Project description:Whole-genome analysis of heat shock factor binding sites in Drosophila melanogaster during heat shock

| PRJNA123995 | ENA