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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1284
total RNA-seq
1186
ChIP-seq
460
ATAC-seq
361
single cell RNA-seq
209
DNase-seq
87
RNA microarray
84
snATAC-seq
74
WGBS
pCHi-C
23
Hi-C
21
RRBS
18
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1663
Transcription
1186
DNA binding
758
DNA accessibility
96
DNA methylation
23
3D chromatin structure
Target of assay
865
histone modification
864
histone
439
narrow histone mark
425
broad histone mark
222
control
104
transcription factor
38
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
592
February, 2021
343
August, 2017
340
May, 2020
272
October, 2019
233
August, 2021
229
May, 2021
218
June, 2019
200
May, 2022
183
February, 2023
168
July, 2018
120
May, 2019
108
July, 2019
91
November, 2017
80
April, 2019
76
October, 2018
73
September, 2018
59
September, 2020
49
April, 2018
48
December, 2017
47
September, 2023
40
May, 2024
40
November, 2019
27
November, 2018
25
February, 2020
23
October, 2017
21
March, 2020
19
April, 2020
16
January, 2021
15
May, 2023
11
September, 2017
10
November, 2020
8
December, 2019
7
August, 2020
7
December, 2018
7
January, 2019
5
March, 2019
3
August, 2018
3
June, 2018
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2515
bam
2385
bigWig
1326
tsv
1279
bed narrowPeak
786
fastq
670
bigBed narrowPeak
338
tagAlign
262
bed broadPeak
241
bed bed3+
225
bigBed broadPeak
157
txt
153
zippedFastqFolder
64
xls
35
bed bedMethyl
35
bigBed bedMethyl
14
hic
11
bedpe bed3+
8
csv
6
bed bed3
4
hdf5
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3811
Homo sapiens
Biosample type
2752
tissue
1068
primary cell
655
cell line
389
in vitro differentiated cells
6
stem cell
Organ
847
pancreas
583
connective tissue
489
adipose tissue
418
epithelium
374
liver
335
kidney
323
heart
284
brain
169
vasculature
163
blood vessel
158
bone element
122
limb
95
musculature of body
75
artery
57
eye
43
nerve
24
spleen
22
vein
19
lung
18
ureter
16
skeleton
8
blood
8
bodily fluid
4
gonad
4
ovary
2
pericardium
2
pituitary gland
1
lymph node
1
skin of body
1
spinal cord
Project
3214
AMP
321
HPAP
218
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2395
GRCh38
2379
hg19
Lab
2924
AMP-T2D consortium
321
Klaus Kaestner, Upenn
274
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
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
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
142
inconsistent ontology term
37
audit script error
27
inconsistent control
Audit category:
70
missing controlled_by
Audit category:
11
inconsistent control read length
3
inconsistent assembly
1
inconsistent control run_type
month_released!
October, 2022
assay_title!
pCHi-C
BIOSAMPLE
ASSAY
3820 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
298
71
68
1
7
3
1
1
4
adipose tissue
382
2
3
3
liver
167
145
20
1
2
3
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
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primary cell
monocyte
54
85
15
1
pancreatic alpha cell
52
13
35
12
31
Langerhans cell
85
48
pancreatic beta cell
21
13
23
12
16
CD8-positive, alpha-beta T cell
4
33
2
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