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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1346
ChIP-seq
1150
total RNA-seq
289
ATAC-seq
180
DNase-seq
174
single cell RNA-seq
87
RNA microarray
31
pCHi-C
28
WGBS
28
snATAC-seq
20
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-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
1346
DNA binding
1342
Transcription
501
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
631
histone modification
630
histone
450
transcription factor
328
narrow histone mark
302
broad histone mark
270
control
89
recombinant protein
88
RNA binding protein
32
chromatin remodeller
5
nucleotide modification
5
other context
other post-translational modification
Date released
641
February, 2021
395
November, 2017
284
August, 2017
273
August, 2021
272
October, 2019
194
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
February, 2023
84
November, 2018
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
61
May, 2021
56
November, 2019
51
March, 2020
48
December, 2017
47
September, 2023
35
December, 2018
30
January, 2019
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2484
bam
2249
bigWig
1343
bed narrowPeak
1195
tsv
911
bigBed narrowPeak
799
fastq
271
bed broadPeak
258
tagAlign
234
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3381
Homo sapiens
Biosample type
2734
tissue
1088
primary cell
660
cell line
394
in vitro differentiated cells
10
stem cell
Organ
760
liver
597
pancreas
547
connective tissue
488
adipose tissue
339
heart
318
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
22
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
3286
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2280
hg19
2278
GRCh38
Lab
3035
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
38
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:
183
inconsistent ontology term
28
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
target.investigated_as!
other post-translational modification
BIOSAMPLE
ASSAY
3394 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
...and 4 more
tissue
islet of Langerhans
71
298
68
1
4
7
3
1
4
1
adipose tissue
2
382
3
1
3
liver
145
167
20
2
1
1
3
1
1
1
kidney
27
49
75
13
64
6
1
1
1
bone element
84
+ See 176 more…
cell line
HepG2
376
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
1
+ See 14 more…
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