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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1354
ChIP-seq
1090
total RNA-seq
214
ATAC-seq
116
single cell RNA-seq
111
DNase-seq
85
RNA microarray
29
pCHi-C
28
WGBS
22
snATAC-seq
18
Hi-C
15
small RNA-seq
10
MeRIP-seq
10
RRBS
3
CRISPR genome editing followed by DNA sequencing
3
FAIRE-seq
3
STARR-seq
2
Capture-C
2
HiChIP
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
1354
DNA binding
1223
Transcription
350
DNA accessibility
38
DNA methylation
18
3D chromatin structure
1
DNA sequencing
Target of assay
646
histone modification
645
histone
447
transcription factor
333
narrow histone mark
312
broad histone mark
261
control
92
RNA binding protein
82
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
633
February, 2021
397
November, 2017
284
August, 2017
252
October, 2019
194
May, 2020
143
August, 2021
120
July, 2018
115
May, 2019
101
February, 2023
95
June, 2019
87
November, 2018
74
October, 2018
73
July, 2019
66
May, 2022
61
May, 2021
57
April, 2019
56
November, 2019
49
March, 2020
48
December, 2017
40
May, 2024
35
December, 2018
30
January, 2019
25
February, 2020
23
October, 2017
19
April, 2020
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
May, 2023
1
October, 2022
Available data
2376
bam
2191
bigWig
1227
bed narrowPeak
1177
tsv
828
bigBed narrowPeak
804
fastq
258
tagAlign
204
bed broadPeak
167
bigBed broadPeak
140
bed bed3+
96
txt
25
bed bedMethyl
25
bigBed bedMethyl
12
bedpe bed3+
12
hic
6
bed bed3
3
tar
1
bedpe
1
csv
hdf5
1
tagAlign bed3+
1
vcf
Organism
3107
Homo sapiens
Biosample type
2478
tissue
1048
primary cell
642
cell line
394
in vitro differentiated cells
10
stem cell
Organ
762
liver
596
pancreas
547
connective tissue
488
adipose tissue
379
heart
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
94
epithelium
82
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
3059
AMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2180
hg19
2145
GRCh38
Lab
2912
AMP-T2D consortium
57
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
36
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
168
inconsistent ontology term
28
inconsistent control
2
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
hdf5
organ_slims!
kidney
BIOSAMPLE
ASSAY
3120 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
MeRIP-seq
RRBS
CRISPR genome editing followed by DNA sequencing
FAIRE-seq
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
...and 3 more
tissue
islet of Langerhans
71
292
68
6
1
4
7
3
4
1
1
adipose tissue
2
382
3
1
3
liver
145
167
20
1
2
1
3
1
1
1
bone element
84
heart left ventricle
35
3
2
18
3
1
4
1
1
+ See 161 more…
cell line
HepG2
378
14
1
2
1
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
+ See 8 more…
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