Similar studies for GEO DataSets (Select 200158427) - GEO DataSets

Select item 2001584271.

Comparative functional genome annotation of livestock species identifies core amniote regulatory features and avian enhancer versatility (H3K4me1 ChIP-Seq)

(Submitter supplied) Gene regulatory elements are central drivers of phenotypic variation and thus of critical importance towards understanding the genetics of complex traits. Here we present a genome-wide annotation of regulatory elements in a non-mammalian vertebrate, chicken (Gallus gallus), as well as two important agricultural mammalian species: pig (Sus scrofa) and cattle (Bos taurus), with chicken and pig in particular being important to human biology and medicine. more...

Organism:: Gallus gallus; Sus scrofa; Bos taurus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL22475 GPL23499 GPL23295
48 Samples

Download data: BED

Series

Accession:: GSE158427

ID:: 200158427

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001584302.

Comparative functional genome annotation of livestock species identifies core amniote regulatory features and avian enhancer versatility

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Bos taurus; Gallus gallus; Sus scrofa

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

9 related Platforms
334 Samples

Download data: BED, TXT

Series

Accession:: GSE158430

ID:: 200158430

PubMed Full text in PMC Similar studies

Select item 2001584293.

Comparative functional genome annotation of livestock species identifies core amniote regulatory features and avian enhancer versatility (H3K4me3 ChIP-Seq)

(Submitter supplied) Gene regulatory elements are central drivers of phenotypic variation and thus of critical importance towards understanding the genetics of complex traits. Here we present a genome-wide annotation of regulatory elements in a non-mammalian vertebrate, chicken (Gallus gallus), as well as two important agricultural mammalian species: pig (Sus scrofa) and cattle (Bos taurus), with chicken and pig in particular being important to human biology and medicine. more...

Organism:: Gallus gallus; Bos taurus; Sus scrofa

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL23499 GPL23295 GPL22475
48 Samples

Download data: BED

Series

Accession:: GSE158429

ID:: 200158429

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001584194.

Comparative functional genome annotation of livestock species identifies core amniote regulatory features and avian enhancer versatility (H3K27me3 ChIP-Seq)

(Submitter supplied) Gene regulatory elements are central drivers of phenotypic variation and thus of critical importance towards understanding the genetics of complex traits. Here we present a genome-wide annotation of regulatory elements in a non-mammalian vertebrate, chicken (Gallus gallus), as well as two important agricultural mammalian species: pig (Sus scrofa) and cattle (Bos taurus), with chicken and pig in particular being important to human biology and medicine. more...

Organism:: Sus scrofa; Bos taurus; Gallus gallus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL23499 GPL23295 GPL22475
48 Samples

Download data: BED

Series

Accession:: GSE158419

ID:: 200158419

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001584185.

Comparative functional genome annotation of livestock species identifies core amniote regulatory features and avian enhancer versatility (H3K27ac ChIP-Seq)

(Submitter supplied) Gene regulatory elements are central drivers of phenotypic variation and thus of critical importance towards understanding the genetics of complex traits. Here we present a genome-wide annotation of regulatory elements in a non-mammalian vertebrate, chicken (Gallus gallus), as well as two important agricultural mammalian species: pig (Sus scrofa) and cattle (Bos taurus), with chicken and pig in particular being important to human biology and medicine. more...

Organism:: Gallus gallus; Bos taurus; Sus scrofa

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL22475 GPL23499 GPL23295
48 Samples

Download data: BED

Series

Accession:: GSE158418

ID:: 200158418

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001584176.

Comparative functional genome annotation of livestock species identifies core amniote regulatory features and avian enhancer versatility (DNase-Hypersensitivity)

(Submitter supplied) Gene regulatory elements are central drivers of phenotypic variation and thus of critical importance towards understanding the genetics of complex traits. Here we present a genome-wide annotation of regulatory elements in a non-mammalian vertebrate, chicken (Gallus gallus), as well as two important agricultural mammalian species: pig (Sus scrofa) and cattle (Bos taurus), with chicken and pig in particular being important to human biology and medicine. more...

Organism:: Gallus gallus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19005
15 Samples

Download data: BED

Series

Accession:: GSE158417

ID:: 200158417

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001584167.

Comparative functional genome annotation of livestock species identifies core amniote regulatory features and avian enhancer versatility (CTCF ChIP-Seq)

(Submitter supplied) Gene regulatory elements are central drivers of phenotypic variation and thus of critical importance towards understanding the genetics of complex traits. Here we present a genome-wide annotation of regulatory elements in a non-mammalian vertebrate, chicken (Gallus gallus), as well as two important agricultural mammalian species: pig (Sus scrofa) and cattle (Bos taurus), with chicken and pig in particular being important to human biology and medicine. more...

Organism:: Bos taurus; Sus scrofa; Gallus gallus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL23295 GPL22475 GPL23499
48 Samples

Download data: BED

Series

Accession:: GSE158416

ID:: 200158416

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001584148.

Comparative functional genome annotation of livestock species identifies core amniote regulatory features and avian enhancer versatility (ATAC-Seq)

(Submitter supplied) Gene regulatory elements are central drivers of phenotypic variation and thus of critical importance towards understanding the genetics of complex traits. Here we present a genome-wide annotation of regulatory elements in a non-mammalian vertebrate, chicken (Gallus gallus), as well as two important agricultural mammalian species: pig (Sus scrofa) and cattle (Bos taurus), with chicken and pig in particular being important to human biology and medicine. more...

Organism:: Bos taurus; Sus scrofa

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL29175 GPL27907
31 Samples

Download data: BED

Series

Accession:: GSE158414

ID:: 200158414

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001584129.

Comparative functional genome annotation of livestock species identifies core amniote regulatory features and avian enhancer versatility (RNA-Seq)

(Submitter supplied) Gene regulatory elements are central drivers of phenotypic variation and thus of critical importance towards understanding the genetics of complex traits. Here we present a genome-wide annotation of regulatory elements in a non-mammalian vertebrate, chicken (Gallus gallus), as well as two important agricultural mammalian species: pig (Sus scrofa) and cattle (Bos taurus), with chicken and pig in particular being important to human biology and medicine. more...

Organism:: Bos taurus; Gallus gallus; Sus scrofa

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL22626 GPL24486 GPL21659
48 Samples

Download data: TXT

Series

Accession:: GSE158412

ID:: 200158412

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20020673610.

Dynamics of regulatory elements in the liver during ruminant evolution

(Submitter supplied) To investigate the evolutionary changes of regulatory elements in ruminants, we then performed regulatory elements profiling analysis using ChIP-seq datasets (H3K27ac and H3K4me3) of liver from three ruminants.

Organism:: Bos taurus; Capra hircus; Ovis aries

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL19778 GPL19172 GPL19149
26 Samples

Download data: BW, NARROWPEAK

Series

Accession:: GSE206736

ID:: 200206736

PubMed Full text in PMC Similar studies

Select item 20020651111.

Comparative analyses of DNA methylomes in the liver among three ruminants

(Submitter supplied) This study is the first to report a genome-wide comparative DNA methylation map of liver in three ruminants using WGBS technology.

Organism:: Bos taurus; Capra hircus; Ovis aries

Type:: Methylation profiling by high throughput sequencing

Platforms:: GPL23810 GPL24230 GPL25639
9 Samples

Download data: TXT

Series

Accession:: GSE206511

ID:: 200206511

PubMed Full text in PMC Similar studies

Select item 20020618412.

Dynamic changes of gene expression in the liver during ruminant evolution

(Submitter supplied) To investigate the evolutionary changes of gene expression in ruminants, we performed gene expression profiling analysis using RNA-seq data of liver from three ruminants.

Organism:: Bos taurus; Capra hircus; Ovis aries

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL24230 GPL25639 GPL23810
9 Samples

Download data: TXT

Series

Accession:: GSE206184

ID:: 200206184

PubMed Full text in PMC Similar studies

Select item 20012942313.

Systematic Discovery and Characterization of Chromatin States and Butyrate-induced Variations for Cattle Genome Functional Annotation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Bos taurus

Type:: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL19172 GPL23055
54 Samples

Download data: BED, TXT

Series

Accession:: GSE129423

ID:: 200129423

PubMed Full text in PMC Similar studies

Select item 20012942214.

Systematic Discovery and Characterization of Chromatin States and Butyrate-induced Variations for Cattle Genome Functional Annotation [dataset 7]

(Submitter supplied) In this study, we generated genome-wide data sets for four histone modifications, including H3K9ac, H3K27ac, RNA pol II, H3K9me3, which were collected from MDBK cell line before and after (24h) Butyrate treatment. By combining other types of data sets collected in Rumen Epithelial Primary Cells (REPC) , inclduing four histone codes, CTCF, DNA accessibility, DNA methylation, and RNA-seq, we established and validated the first global map of regulatory elements (15 chromatin states) and defined their coordinated activities in cattle. more...

Organism:: Bos taurus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19172
9 Samples

Download data: BED

Series

Accession:: GSE129422

ID:: 200129422

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012942115.

Systematic Discovery and Characterization of Chromatin States and Butyrate-induced Variations for Cattle Genome Functional Annotation [dataset 6]

(Submitter supplied) In this study, we generated genome-wide data sets for four histone modifications, including H3K9ac, H3K27ac, RNA pol II, H3K9me3,, which were collected from rumen tissues before and after Butyrate treatment. By combining other types of data sets collected in Rumen Epithelial Primary Cells (REPC) , inclduing four histone codes, CTCF, DNA accessibility, DNA methylation, and RNA-seq, we established and validated the first global map of regulatory elements (15 chromatin states) and defined their coordinated activities in cattle. more...

Organism:: Bos taurus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19172
9 Samples

Download data: BED

Series

Accession:: GSE129421

ID:: 200129421

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012942016.

Systematic Discovery and Characterization of Chromatin States and Butyrate-induced Variations for Cattle Genome Functional Annotation [dataset 5]

(Submitter supplied) In this study, we generated genome-wide data sets for four histone modifications, including H3K9ac, H3K27ac, RNA pol II, H3K9me3, which were collected from rumen tissues before and after weaning. By combining other types of data sets collected in Rumen Epithelial Primary Cells (REPC) , inclduing four histone codes, CTCF, DNA accessibility, DNA methylation, and RNA-seq, we established and validated the first global map of regulatory elements (15 chromatin states) and defined their coordinated activities in cattle. more...

Organism:: Bos taurus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19172
9 Samples

Download data: BED

Series

Accession:: GSE129420

ID:: 200129420

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012941917.

Systematic Discovery and Characterization of Chromatin States and Butyrate-induced Variations for Cattle Genome Functional Annotation [dataset 4]

(Submitter supplied) In this study, we generated CTCF and four histone modifications, including H3K27ac, H3K27m3, H3K4m1, H3K4m3, which were collected from Rumen Epithelial Primary Cells (REPC) before and after (24h) butytate treatment. By combining other types of data sets, inclduing RNA polymerase II, DNA accessibility, and RNA-seq, we established the first global map of regulatory elements (15 chromatin states) and defined their coordinated activities in cattle. more...

Organism:: Bos taurus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23055
11 Samples

Download data: XLSX

Series

Accession:: GSE129419

ID:: 200129419

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012941818.

Systematic Discovery and Characterization of Chromatin States and Butyrate-induced Variations for Cattle Genome Functional Annotation [dataset 3]

(Submitter supplied) In this study, we generated four ATAC-seq data that were colloced from Rumen Epithelial Primary Cells (REPC) before and after (24h) butytate treatment. By combining other types of data sets, inclduing six histone modifications, RNA polymerase II, CTCF-binding sites, DNA methylation and RNA-seq, we established the first global map of regulatory elements (15 chromatin states) and defined their coordinated activities in cattle. more...

Organism:: Bos taurus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL23055
4 Samples

Download data: XLSX

Series

Accession:: GSE129418

ID:: 200129418

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012941719.

Systematic Discovery and Characterization of Chromatin States and Butyrate-induced Variations for Cattle Genome Functional Annotation [dataset 2]

(Submitter supplied) In this study, we generated six whole-genome bisufite sequencing (WGBS) data that were colloced from Rumen Epithelial Primary Cells (REPC) before and after (24h) butytate treatment. By combining other types of data sets, inclduing six histone modifications, RNA polymerase II, CTCF-binding sites, DNA accessibility, and RNA-seq, we established the first global map of regulatory elements (15 chromatin states) and defined their coordinated activities in cattle. more...

Organism:: Bos taurus

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL19172
6 Samples

Download data: TXT

Series

Accession:: GSE129417

ID:: 200129417

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012941620.

Systematic Discovery and Characterization of Chromatin States and Butyrate-induced Variations for Cattle Genome Functional Annotation [dataset 1]

(Submitter supplied) In this study, we generated six RNA-seq data that were collected from Rumen Epithelial Primary Cells (REPC) before and after (24h) butytate treatment. By combining other types of data sets, inclduing six histone modifications, RNA polymerase II, CTCF-binding sites, DNA accessibility, and DNA methylation, we established the first global map of regulatory elements (15 chromatin states) and defined their coordinated activities in cattle. more...

Organism:: Bos taurus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL19172
6 Samples

Download data: TXT

Series

Accession:: GSE129416

ID:: 200129416

PubMed Full text in PMC Similar studies SRA Run Selector

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