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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
445
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
445
DNA binding
22
DNA accessibility
20
Transcription
3
3D chromatin structure
1
DNA methylation
Target of assay
333
transcription factor
88
recombinant protein
76
control
62
RNA binding protein
34
histone
34
histone modification
24
chromatin remodeller
18
broad histone mark
16
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
305
November, 2017
February, 2021
58
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
466
bam
414
fastq
405
bigWig
364
bed narrowPeak
343
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
505
Homo sapiens
Biosample type
1977
tissue
992
primary cell
509
cell line
320
in vitro differentiated cells
10
stem cell
Organ
355
liver
64
pancreas
61
blood
61
bodily fluid
51
epithelium
17
kidney
1
mammary gland
Project
498
AMP
9
T1D
2
community
Genome assembly (visualization)
402
hg19
359
GRCh38
Lab
496
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:
missing controlled_by
Audit category:
21
inconsistent control read length
2
inconsistent control run_type
1
inconsistent assembly
audit.NOT_COMPLIANT.category!
missing controlled_by
month_released!
August, 2021
February, 2021
BIOSAMPLE
ASSAY
509 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
347
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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