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
Home Datasets Genes
Metadata
Species Projects Samples Publications
Tools
Online Analysis GEN Toolkit
Statistics Documentation Download Contact
Home Datasets
GEND000005
Basic Information Samples Gene Expression Patterns Transcriptomic Profiles Visualization

GEND000005: Transcriptome profiling of human keratoconus corneas through RNA sequencing identifies collagen synthesis disruption and downregulation of core elements of TGF-β, Hippo, and Wnt pathways

BioProject ID:    PRJNA312169     Original Project ID:    GSE077938    

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:
0.99275
Median Coverage:
4.13
Max Sequencing Length:
198
#Max Replicate:
25

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: GENDX000005 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: GENDC000005 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