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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
682
ChIP-seq
260
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
3
snDrop-seq
2
MeRIP-seq
Assay category
1227
Transcription
682
DNA binding
470
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
255
August, 2017
229
August, 2021
215
October, 2019
170
May, 2020
163
June, 2019
120
July, 2018
95
February, 2023
93
May, 2019
77
July, 2019
70
November, 2017
66
April, 2019
66
May, 2022
47
September, 2023
45
October, 2018
40
March, 2020
40
May, 2021
40
November, 2019
36
December, 2017
25
February, 2020
23
November, 2018
20
October, 2017
19
April, 2020
15
May, 2023
8
January, 2021
6
April, 2018
6
January, 2019
5
March, 2019
3
December, 2018
3
December, 2019
2
January, 2018
2
November, 2020
1
August, 2022
Available data
1740
bam
1732
bigWig
1076
tsv
944
bed narrowPeak
561
bigBed narrowPeak
310
fastq
213
bed broadPeak
202
bed bed3+
186
tagAlign
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2542
Homo sapiens
Biosample type
2550
tissue
1053
primary cell
576
cell line
357
in vitro differentiated cells
9
stem cell
Organ
523
connective tissue
476
pancreas
464
adipose tissue
315
liver
293
kidney
257
heart
240
brain
158
bone element
117
blood vessel
117
vasculature
105
limb
78
musculature of body
66
artery
56
eye
32
nerve
20
lung
18
ureter
17
spleen
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2453
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1816
GRCh38
1752
hg19
Lab
2240
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
2
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
CRISPR genome editing followed by DNA sequencing
target.investigated_as!
control
BIOSAMPLE
ASSAY
2550 results
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Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
snDrop-seq
MeRIP-seq
tissue
islet of Langerhans
298
58
68
1
7
4
3
1
1
2
adipose tissue
382
1
3
3
1
liver
167
102
20
2
1
3
1
1
1
1
kidney
49
21
75
13
64
6
1
1
1
bone element
84
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