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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1187
total RNA-seq
1155
ChIP-seq
369
ATAC-seq
366
single cell RNA-seq
87
RNA microarray
81
snATAC-seq
74
WGBS
39
pCHi-C
22
Hi-C
21
RRBS
18
small RNA-seq
6
DNase-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1571
Transcription
1155
DNA binding
461
DNA accessibility
96
DNA methylation
22
3D chromatin structure
Target of assay
850
histone modification
849
histone
431
narrow histone mark
418
broad histone mark
219
control
91
transcription factor
36
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
592
February, 2021
340
May, 2020
317
August, 2017
270
October, 2019
244
May, 2021
230
August, 2021
199
May, 2022
February, 2023
168
July, 2018
120
May, 2019
104
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
39
March, 2020
31
June, 2019
25
February, 2020
23
October, 2017
19
April, 2020
18
November, 2018
16
January, 2021
15
May, 2023
9
November, 2020
9
September, 2017
8
December, 2019
7
August, 2020
7
December, 2018
7
January, 2019
5
March, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2516
bam
2385
bigWig
1328
tsv
1216
bed narrowPeak
710
fastq
670
bigBed narrowPeak
338
tagAlign
262
bed broadPeak
bed bed3+
225
bigBed broadPeak
153
txt
153
zippedFastqFolder
64
xls
35
bed bedMethyl
35
bigBed bedMethyl
17
hic
14
bedpe bed3+
8
csv
4
hdf5
3
cool
1
bed bed3
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3429
Homo sapiens
Biosample type
2475
tissue
963
primary cell
653
cell line
357
in vitro differentiated cells
7
stem cell
Organ
769
pancreas
571
connective tissue
483
adipose tissue
363
liver
349
epithelium
260
heart
257
kidney
250
brain
151
bone element
122
vasculature
118
blood vessel
86
limb
62
musculature of body
41
nerve
36
artery
26
eye
24
spleen
20
lung
20
vein
8
blood
8
bodily fluid
8
skeleton
5
gonad
5
ovary
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2906
AMP
248
HPAP
217
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2131
hg19
2126
GRCh38
Lab
2618
AMP-T2D consortium
271
Kyle Gaulton, UCSD
248
Klaus Kaestner, Upenn
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:
135
inconsistent ontology term
39
audit script error
27
inconsistent control
Audit category:
56
missing controlled_by
Audit category:
11
inconsistent control read length
3
inconsistent assembly
1
inconsistent control run_type
files.file_type!
bed bed3+
month_released!
February, 2023
organ_slims!
intestine
BIOSAMPLE
ASSAY
3438 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
small RNA-seq
DNase-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
287
50
57
6
5
4
3
1
1
1
4
adipose tissue
382
2
2
3
1
liver
167
142
20
1
3
1
1
1
1
kidney
49
27
75
64
6
1
1
1
bone element
84
+ See 152 more…
primary cell
monocyte
54
85
15
1
1
Langerhans cell
85
48
pancreatic alpha cell
25
13
35
12
31
1
pancreatic beta cell
11
13
23
12
16
1
CD8-positive, alpha-beta T cell
2
33
2
1
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