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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
972
total RNA-seq
907
ChIP-seq
260
ATAC-seq
167
single cell RNA-seq
160
DNase-seq
27
WGBS
27
snATAC-seq
25
pCHi-C
16
Hi-C
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
RNA microarray
3
snDrop-seq
Assay category
1139
Transcription
907
DNA binding
451
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
broad histone mark
187
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
456
February, 2021
284
August, 2017
242
October, 2019
193
May, 2020
172
August, 2021
145
June, 2019
120
July, 2018
115
May, 2019
91
February, 2023
82
November, 2017
80
April, 2019
74
October, 2018
61
July, 2019
59
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
26
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
8
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
1873
bam
1738
bigWig
1060
tsv
966
bed narrowPeak
543
bigBed narrowPeak
377
fastq
238
tagAlign
195
bed broadPeak
187
bed bed3+
158
bigBed broadPeak
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
2577
Homo sapiens
Biosample type
2586
tissue
1086
primary cell
661
cell line
391
in vitro differentiated cells
stem cell
Organ
545
connective tissue
497
pancreas
486
adipose tissue
358
liver
312
heart
261
brain
236
kidney
133
blood vessel
133
vasculature
122
limb
80
musculature of body
73
artery
70
bone element
56
eye
43
nerve
25
spleen
20
lung
ureter
15
epithelium
12
skeleton
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
2489
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1825
GRCh38
1720
hg19
Lab
2297
AMP-T2D consortium
85
Katalin Susztak, Upenn
47
KPMP
46
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:
27
inconsistent control
7
inconsistent ontology term
3
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
small RNA-seq
biosample_type!
stem cell
files.file_type!
txt
organ_slims!
ureter
BIOSAMPLE
ASSAY
2586 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
WGBS
snATAC-seq
pCHi-C
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
RNA microarray
snDrop-seq
tissue
islet of Langerhans
286
71
68
6
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
1
2
3
1
1
1
kidney
27
75
51
13
6
1
1
1
heart left ventricle
3
35
2
18
3
4
1
1
1
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