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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1345
ChIP-seq
1134
total RNA-seq
288
ATAC-seq
180
DNase-seq
180
single cell RNA-seq
87
RNA microarray
31
pCHi-C
28
WGBS
28
snATAC-seq
16
small RNA-seq
11
RRBS
10
MeRIP-seq
7
Hi-C
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
1345
DNA binding
1332
Transcription
500
DNA accessibility
39
DNA methylation
7
3D chromatin structure
Target of assay
663
histone modification
662
histone
416
transcription factor
341
narrow histone mark
321
broad histone mark
266
control
92
RNA binding protein
89
recombinant protein
29
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
641
February, 2021
397
November, 2017
284
August, 2017
271
October, 2019
237
August, 2021
194
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
February, 2023
87
November, 2018
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
61
May, 2021
54
November, 2019
47
September, 2023
44
March, 2020
40
May, 2024
34
December, 2018
30
January, 2019
25
February, 2020
23
October, 2017
21
December, 2017
19
April, 2020
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
3
December, 2019
3
January, 2018
3
March, 2019
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2461
bam
2252
bigWig
1346
bed narrowPeak
1185
tsv
888
bigBed narrowPeak
776
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
11
hic
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
hdf5
1
tagAlign bed3+
Organism
3350
Homo sapiens
Biosample type
2737
tissue
1084
primary cell
626
cell line
387
in vitro differentiated cells
10
stem cell
Organ
703
liver
590
pancreas
547
connective tissue
488
adipose tissue
376
heart
316
kidney
265
brain
198
blood vessel
198
vasculature
158
bone element
139
artery
122
limb
93
epithelium
80
musculature of body
60
blood
60
bodily fluid
56
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
3255
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2294
GRCh38
2230
hg19
Lab
3002
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
181
inconsistent ontology term
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
audit.ERROR.category!
inconsistent control
files.file_type!
bedpe bed3+
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
3363 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
WGBS
snATAC-seq
small RNA-seq
RRBS
MeRIP-seq
Hi-C
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
...and 2 more
tissue
islet of Langerhans
71
291
67
1
6
4
7
1
4
1
adipose tissue
2
382
3
1
3
liver
118
167
20
2
1
1
3
1
1
kidney
27
49
75
13
64
6
1
1
1
bone element
84
+ See 176 more…
cell line
HepG2
360
5
1
2
1
1
EndoC_BH1
15
33
19
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
59
1
Panc1
13
1
1
+ See 12 more…
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