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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
71
ChIP-seq
42
ATAC-seq
18
total RNA-seq
6
Hi-C
6
MeRIP-seq
5
STARR-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
3
pCHi-C
2
HiChIP
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
71
DNA binding
42
DNA accessibility
22
Transcription
6
3D chromatin structure
1
DNA sequencing
Target of assay
36
histone
36
histone modification
24
transcription factor
20
broad histone mark
16
narrow histone mark
14
control
6
RNA binding protein
3
nucleotide modification
Date released
63
May, 2021
41
August, 2021
22
February, 2023
14
August, 2017
March, 2020
6
November, 2020
5
February, 2021
5
January, 2018
5
October, 2019
2
December, 2019
2
March, 2023
1
August, 2018
1
December, 2018
1
May, 2020
1
November, 2017
1
November, 2019
1
October, 2022
Available data
bam
772
bigWig
568
fastq
535
bed narrowPeak
372
bigBed narrowPeak
237
tsv
60
bed broadPeak
60
bigBed broadPeak
60
tagAlign
28
bed bed3+
7
bed bedgraph
6
bed bed3
5
bedpe bed3+
4
hic
4
txt
3
tar
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
167
Homo sapiens
Biosample type
838
tissue
478
primary cell
97
in vitro differentiated cells
74
cell line
3
stem cell
Organ
38
connective tissue
35
liver
27
pancreas
26
epithelium
2
kidney
1
adipose tissue
1
blood
1
bodily fluid
1
embryo
Project
164
AMP
5
T1D
2
community
Genome assembly (visualization)
48
hg19
4
hg18
1
GRCh38
Lab
70
AMP-T2D consortium
52
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
35
inconsistent ontology term
2
audit script error
Audit category:
1
inconsistent assembly
files.file_type!
bam
month_released!
March, 2020
organ_slims!
nerve
BIOSAMPLE
ASSAY
171 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
Hi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
pCHi-C
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
in vitro differentiated cells
embryonic stem cell
37
6
5
adipocyte
14
8
1
1
chondrocyte
5
immature adipocyte
2
2
cardiomyocytes (cardiac muscle cell)
1
2
+ See 11 more…
cell line
HepG2
19
9
2
2
2
1
EndoC_BH1
16
1
6
2
3
2
1
EndoC-BH1
1
1
HEK293T
2
GM12878
1
+ See 3 more…
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