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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1030
total RNA-seq
834
ChIP-seq
222
ATAC-seq
173
DNase-seq
168
single cell RNA-seq
87
RNA microarray
24
pCHi-C
20
snATAC-seq
16
small RNA-seq
15
Hi-C
10
WGBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
RRBS
Assay category
1214
Transcription
834
DNA binding
419
DNA accessibility
15
3D chromatin structure
12
DNA methylation
Target of assay
574
histone modification
573
histone
306
narrow histone mark
267
broad histone mark
171
control
91
transcription factor
25
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
279
August, 2017
223
August, 2021
216
October, 2019
193
May, 2020
160
June, 2019
120
July, 2018
82
November, 2017
80
April, 2019
74
October, 2018
66
May, 2022
65
May, 2019
60
February, 2023
57
July, 2019
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
40
November, 2019
37
March, 2020
23
October, 2017
22
February, 2020
20
November, 2018
19
April, 2020
15
May, 2023
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1820
bam
1702
bigWig
1062
tsv
884
bed narrowPeak
499
bigBed narrowPeak
377
fastq
238
tagAlign
208
bed broadPeak
200
bed bed3+
171
bigBed broadPeak
157
txt
64
xls
bed bedMethyl
24
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2603
Homo sapiens
Biosample type
2612
tissue
1039
primary cell
595
cell line
394
in vitro differentiated cells
10
stem cell
Organ
545
connective tissue
491
pancreas
486
adipose tissue
360
liver
306
heart
298
kidney
264
brain
158
bone element
blood vessel
132
vasculature
121
limb
79
musculature of body
73
artery
56
eye
43
nerve
23
spleen
20
lung
18
ureter
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2523
AMP
47
KPMP
23
T1D
19
LungMap
Genome assembly (visualization)
1739
GRCh38
1676
hg19
Lab
2268
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
44
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
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
organ_slims!
blood vessel
files.file_type!
bed bedMethyl
month_released!
January, 2021
BIOSAMPLE
ASSAY
2612 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
snATAC-seq
small RNA-seq
Hi-C
WGBS
FAIRE-seq
MeRIP-seq
snDrop-seq
RRBS
tissue
islet of Langerhans
298
71
68
1
4
3
3
1
4
adipose tissue
382
2
3
1
1
liver
167
145
20
2
1
1
1
1
3
kidney
49
27
75
13
64
6
1
1
bone element
84
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