GSE138252: Differential transcriptional responses in human cardiomyocytes

Gene Expression Data Explorer
Info Gene counts are sourced from ARCHS4, which provides uniform alignment of GEO samples. You can learn more about ARCHS4 and its pipeline here.
Enter gene symbol:

Select conditions below to toggle them from the plot:

GROUP CONDITION SAMPLES
Heart
GSM4103431 GSM4103432 GSM4103446 GSM4103447 GSM4103448 GSM4103449 GSM4103450 GSM4103451
GSM4103436
GSM4103452 GSM4103454 GSM4103455 GSM4103456
GSM4775487 GSM4775489 GSM4775491 GSM4775493 GSM4775495 GSM4775497 GSM4775499 GSM4775501 GSM4775503 GSM4775505
GSM4103441 GSM4103442 GSM4103443 GSM4103444 GSM4103445
GSM4103430 GSM4103437 GSM4103438 GSM4103439 GSM4103440
GSM4775488 GSM4775490 GSM4775492 GSM4775494 GSM4775496 GSM4775498 GSM4775500 GSM4775502 GSM4775504 GSM4775506
GSM4103429 GSM4103433 GSM4103434 GSM4103435
Description

Submission Date: Oct 01, 2019

Summary: We report the application of a pericentriolar material 1 (PCM-1) based cardiomyocyte-specific nuclear isolation protocol on human cardiac tissue to specifically ask what transcriptional changes occur in cardiomyocytes of humans with atrial fibrillation. We performed RNA-sequencing on the cardiomyocyte-specific nuclear RNA and found that there are more differentially dysregulated (1343) than similarly regulated transcripts (99) in the right versus left atria. This study is the first of its kind aimed at understanding the transcriptional changes that occur specifically in the left and right atrial cardiomyocytes of humans with atrial fibrillation.

GEO Accession ID: GSE138252

PMID: 32841220

Description

Submission Date: Oct 01, 2019

Summary: We report the application of a pericentriolar material 1 (PCM-1) based cardiomyocyte-specific nuclear isolation protocol on human cardiac tissue to specifically ask what transcriptional changes occur in cardiomyocytes of humans with atrial fibrillation. We performed RNA-sequencing on the cardiomyocyte-specific nuclear RNA and found that there are more differentially dysregulated (1343) than similarly regulated transcripts (99) in the right versus left atria. This study is the first of its kind aimed at understanding the transcriptional changes that occur specifically in the left and right atrial cardiomyocytes of humans with atrial fibrillation.

GEO Accession ID: GSE138252

PMID: 32841220

Visualize Samples

Info Visualizations are precomputed using the Python package scanpy on the top 5000 most variable genes.

Precomputed Differential Gene Expression

Info Differential expression signatures are automatically computed using the limma R package. More options for differential expression are available to compute below.

Signatures:

Select conditions:

Control Condition

Perturbation Condition

Only conditions with at least 1 replicate are available to select

Differential Gene Expression Analysis
Info Differential expression signatures can be computed using DESeq2 or characteristic direction.
Select differential expression analysis method:
Bulk RNA-seq Appyter

This pipeline enables you to analyze and visualize your bulk RNA sequencing datasets with an array of downstream analysis and visualization tools. The pipeline includes: PCA analysis, Clustergrammer interactive heatmap, library size analysis, differential gene expression analysis, enrichment analysis, and L1000 small molecule search.