Gene Expression Nebulas
A data portal of transcriptomic profiles analyzed by a unified pipeline across multiple species

Gene Expression Nebulas

A data portal of transcriptome profiles across multiple species
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GEND000014
Basic Information Samples Gene Expression Patterns Transcriptomic Profiles Visualization

GEND000014: RNA-sequencing of the brain transcriptome implicates dysregulation of neuroplasticity, circadian rhythms, and GTPase binding in bipolar disorder

BioProject ID:    PRJNA231202     Original Project ID:    GSE53239    

Strategy:
Species:
Homo sapiens
Tissue:
Healthy Condition:
Biological Context:
Baseline:
No
Genetic:
-
Phenotypic:
Disease
Environmental:
-
Spatial:
Tissue
Temporal:
-
Quality and Quantity:
RNA Type:
rRNA- RNA
Median Mapping Quality:
0.9789
Median Coverage:
9.02
Max Sequencing Length:
194
#Max Replicate:
11

Gene Expression Patterns

OR
Heatmap Boxplot

Transcriptomic Profiles

Note:
GENDX:
Gene Expression Profiles
GENDE:
RNA Editing Profiles
GENDS:
Alternative Splicing Profiles
GENDC:
CircRNA Expression Profiles
ID: GENDX000014 Download
Reference Genome: GRCh38 v99
Genome Annotation: GRCh38 v99
Data Processing:
  1. Read filtering: Fastp v0.20.0
  2. Strandness of RNA-seq library: RseQC v2.6.4
  3. Read mapping: STAR v2.7.1a
ID: GENDE000014 Download
Reference Genome: GRCh38 v99
Genome Annotation: GRCh38 v33 (GENCODE)
Data Processing:
  1. Parallel Strategy of REDItools 2.0
  2. Mismatched and multi-mapping reads deletion: Pblat
ID: GENDS000014 Download
Reference Genome: -
Genome Annotation: -
Data Processing:
  1. Alternative splicing identification: rMATS
ID: GENDC000014 Download
Reference Genome: GRCh38 v99
Genome Annotation: GRCh38 v32 (GENCODE)
Data Processing:
  1. Circular RNA candidates identification: CIRI2
  2. Alternative (back-)splicing events of circular RNAs: CIRCexplorer2

Samples

Display Columns
Basic Information:
Sample Characteristic:
Biological Condition:
Experimental Variables:
Protocol:
Sequencing:
Assessing Quality:
Analysis:
GEN Sample ID GEN Sample Name Sample ID Sample Name BioSample ID Sample Accession Experiment Accession Release Date Submission Date Update Date Species Race Ethnicity Age Age Unit Gender Source Name Tissue Cell Type Cell Subtype Cell Line Disease Disease State Development Stage Mutation Phenotype Case Detail Control Detail Growth Protocol Treatment Protocol Extract Protocol Library Construction Protocol Molecule Type Library Layout Strand-Specific Library Strand Spike-In Strategy Platform Instrument Model Cell Number Reads Number Gbases AvgSpotLen1 AvgSpotLen2 Uniq Mapping Rate Multiple Mapping Rate Coverage Rate