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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
96
total RNA-seq
87
ChIP-seq
19
ATAC-seq
6
MeRIP-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
98
Transcription
87
DNA binding
19
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
79
control
8
transcription factor
3
histone
3
histone modification
3
nucleotide modification
2
RNA binding protein
2
broad histone mark
1
narrow histone mark
Date released
82
February, 2021
66
November, 2017
August, 2021
20
May, 2021
15
October, 2019
10
March, 2020
8
January, 2019
6
February, 2023
6
November, 2020
4
November, 2018
4
November, 2019
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
561
bam
488
bigWig
414
fastq
bed narrowPeak
343
bigBed narrowPeak
102
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
223
Homo sapiens
Biosample type
1606
tissue
780
primary cell
239
in vitro differentiated cells
227
cell line
8
stem cell
Organ
75
liver
69
pancreas
62
epithelium
54
artery
54
blood vessel
54
heart
54
vasculature
9
kidney
7
blood
7
bodily fluid
1
mammary gland
Project
218
AMP
7
T1D
2
community
Genome assembly (visualization)
121
hg19
98
GRCh38
Lab
214
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
68
inconsistent ontology term
Audit category:
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
audit.NOT_COMPLIANT.category!
missing controlled_by
month_released!
August, 2021
files.file_type!
bed narrowPeak
BIOSAMPLE
ASSAY
227 results
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total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
5
66
2
1
1
EndoC_BH1
33
2
18
6
3
1
2
1
smooth muscle cell of the coronary artery
52
2
Panc1
7
1
GM12878
6
1
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