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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
458
ChIP-seq
20
ATAC-seq
18
total RNA-seq
6
MeRIP-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
458
DNA binding
22
DNA accessibility
20
Transcription
3
3D chromatin structure
1
DNA methylation
Target of assay
345
transcription factor
89
recombinant protein
76
control
64
RNA binding protein
35
histone
35
histone modification
30
chromatin remodeller
18
broad histone mark
17
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
February, 2021
61
November, 2018
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
479
bam
427
fastq
417
bigWig
376
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
24
tsv
12
tagAlign
3
tar
2
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
518
Homo sapiens
Biosample type
1963
tissue
1036
primary cell
522
cell line
326
in vitro differentiated cells
10
stem cell
Organ
368
liver
64
pancreas
61
blood
61
bodily fluid
51
epithelium
17
kidney
1
mammary gland
Project
511
AMP
9
T1D
2
community
Genome assembly (visualization)
414
hg19
364
GRCh38
Lab
509
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
63
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
February, 2021
August, 2021
BIOSAMPLE
ASSAY
522 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
360
5
1
1
1
GM12878
60
1
EndoC_BH1
15
19
7
6
3
1
2
1
Panc1
13
1
1
RCC 7860 HIF1a re-expression
4
1
RCC 7860 vector
3
1
1
RCC 7860 HIF2a over-expression
3
1
EndoC-BH1
1
1
early embryonic cell
2
glomerular visceral epithelial cell
1
1
MCF-7
1
MIN6
1
RCC 7860 VHL
1
fibroblast cell line
1
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