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E-MTAB-7032

ABSTRACT: Bulk RNA-seq of of human dermal fibroblasts from up to 66 individuals (supplementary)

PROVIDER: E-MTAB-7032 | ExpressionAtlas | 2020-01-28

REPOSITORIES: ExpressionAtlas

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			Action	DRS
	E-MTAB-7032-analysis-methods.tsv	Tabular
	E-MTAB-7032-analytics.tsv	Tabular
	E-MTAB-7032-atlasExperimentSummary.Rdata	Rdata
	E-MTAB-7032-configuration.xml	Xml
	E-MTAB-7032-g1_g2-mvaPlot.png	Other

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Bulk RNA-seq of of human dermal fibroblasts from up to 66 individuals (supplementary)

Project description:Bulk RNA-seq of of human dermal fibroblasts from up to 66 individuals (supplementary)

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Single-cell RNA-seq of of dermal fibroblasts using microfluidic droplet capture (unstimulated cells)

Project description:The innate immune response - the expression programme that is initiated once a pathogen is sensed - is known to be variable among responding cells, as well as to rapidly evolve in the course of mammal evolution. To study the transcriptional divergence and cell-to-cell variability of this response, we stimulated dermal fibroblast cells from two primates (human and macaque) and two rodents (mouse and rat) with dsRNA - a mimic of viral RNA that elicits a rapid innate immune response. Subsequently, we profiled the response using bulk RNA-seq, scRNA-seq and ChIP-seq across the four species and across different time points. This experiment contains data of dermal fibroblasts from 3 human individuals, unstimulated, sequenced by 10X Genomics technology. Corresponding data from stimulated cells are found under ArrayExpress accession <a href="/arrayexpress/experiments/E-MTAB-5989">E-MTAB-5989</a>.

2018-07-06 | E-MTAB-5988 | biostudies-arrayexpress

Single-cell RNA-seq of of dermal fibroblasts using microfluidic droplet capture (stimulated cells)

Project description:The innate immune response - the expression programme that is initiated once a pathogen is sensed - is known to be variable among responding cells, as well as to rapidly evolve in the course of mammal evolution. To study the transcriptional divergence and cell-to-cell variability of this response, we stimulated dermal fibroblast cells from two primates (human and macaque) and two rodents (mouse and rat) with dsRNA - a mimic of viral RNA that elicits a rapid innate immune response. Subsequently, we profiled the response using bulk RNA-seq, scRNA-seq and ChIP-seq across the four species and across different time points. This experiment contains data of dermal fibroblasts from 3 human individuals, stimulated with dsRNA (poly I:C) for 6 hours, sequenced by 10X Genomics technology. Corresponding data from unstimulated cells are found under ArrayExpress accession <a href="/arrayexpress/experiments/E-MTAB-5988">E-MTAB-5988</a>.

2018-07-06 | E-MTAB-5989 | biostudies-arrayexpress

Single-cell RNA-seq of dermal fibroblasts (5 human individuals - IFNB stimulation)

Project description:Single-cell RNA-seq of dermal fibroblasts (5 human individuals - IFNB stimulation)

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Project description:Dermal fibroblasts from human, rhesus macaque, mouse and rat, stimulated with dsRNA (poly I:C), interferon and controls. The innate immune response - the expression programme that is initiated once a pathogen is sensed - is known to be variable among responding cells, as well as to rapidly evolve in the course of mammal evolution. To study the transcriptional divergence and cell-to-cell variability of this response, we stimulated dermal fibroblast cells from two primates (human and macaque) and two rodents (mouse and rat) with dsRNA - a mimic of viral RNA that elicits a rapid innate immune response. Subsequently, we profiled the response using bulk RNA-seq, scRNA-seq and ChIP-seq across the four species and across different time points.

2018-07-06 | E-MTAB-5919 | biostudies-arrayexpress

ChIP-seq of H3K4me3 and H3K27ac of dermal fibroblasts

Project description:Dermal fibroblasts from human, rhesus macaque, mouse and rat with and without dsRNA (poly I:C) stimulation (1ug/mL for 4 hours). The innate immune response - the expression programme that is initiated once a pathogen is sensed - is known to be variable among responding cells, as well as to rapidly evolve in the course of mammal evolution. To study the transcriptional divergence and cell-to-cell variability of this response, we stimulated dermal fibroblast cells from two primates (human and macaque) and two rodents (mouse and rat) with dsRNA - a mimic of viral RNA that elicits a rapid innate immune response. Subsequently, we profiled the response using bulk RNA-seq, scRNA-seq and ChIP-seq across the four species and across different time points.

2018-07-06 | E-MTAB-5918 | biostudies-arrayexpress

single-cell RNA-seq of of dermal fibroblasts

Project description:Dermal fibroblasts from human, rhesus macaque, mouse and rat, stimulated with dsRNA (poly I:C) in a time course of 0,2,4 and 8 hours, profiled using the Smart-seq2 protocol. The innate immune response - the expression programme that is initiated once a pathogen is sensed - is known to be variable among responding cells, as well as to rapidly evolve in the course of mammal evolution. To study the transcriptional divergence and cell-to-cell variability of this response, we stimulated dermal fibroblast cells from two primates (human and macaque) and two rodents (mouse and rat) with dsRNA - a mimic of viral RNA that elicits a rapid innate immune response. Subsequently, we profiled the response using bulk RNA-seq, scRNA-seq and ChIP-seq across the four species and across different time points.

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Project description:Dermal fibroblasts from human, rhesus macaque, mouse and rat, stimulated with dsRNA (poly I:C) in a time course of 0,4 and 8 hours, profiled using the Smart-seq2 protocol. The innate immune response - the expression programme that is initiated once a pathogen is sensed - is known to be variable among responding cells, as well as to rapidly evolve in the course of mammal evolution. To study the transcriptional divergence and cell-to-cell variability of this response, we stimulated dermal fibroblast cells from two primates (human and macaque) and two rodents (mouse and rat) with dsRNA - a mimic of viral RNA that elicits a rapid innate immune response. Subsequently, we profiled the response using bulk RNA-seq, scRNA-seq and ChIP-seq across the four species and across different time points.

2018-07-06 | E-MTAB-6066 | biostudies-arrayexpress

Single-cell RNA-seq of dermal fibroblasts derived from healthy human donors

Project description:Dermal fibroblasts from human individuals - unstimulated.

2019-11-17 | E-MTAB-7167 | biostudies-arrayexpress

RNA-seq of fibroblasts from two bat species stimulated by dsRNA to trigger antiviral response

Project description:Dermal fibroblasts from megabat and microbat, stimulated with dsRNA (poly(I:C)) and controls. Bats can harbor some of the most deadliest viruses to humans while rarely displaying pathogenicity themselves. To study their innate immune response - the expression program that is initiated once a pathogen is senseds, we stimulated dermal fibroblast cells from two species (Rousettus aegyptiacus and Pipistrellus kuhlii) for four hours with dsRNA - a viral RNA mimic that triggers a rapid innate immune response. Subsequently, we profiled the response using bulk RNA-seq.

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