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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1326
ChIP-seq
1144
total RNA-seq
289
ATAC-seq
180
DNase-seq
180
single cell RNA-seq
87
RNA microarray
31
pCHi-C
28
WGBS
28
snATAC-seq
19
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
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
1
whole genome sequencing assay
Assay category
1342
Transcription
1326
DNA binding
501
DNA accessibility
39
DNA methylation
19
3D chromatin structure
1
DNA sequencing
Target of assay
657
histone modification
656
histone
425
transcription factor
338
narrow histone mark
318
broad histone mark
270
control
90
RNA binding protein
88
recombinant protein
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
641
February, 2021
376
November, 2017
273
August, 2021
272
October, 2019
262
August, 2017
194
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
February, 2023
80
April, 2019
79
November, 2018
77
July, 2019
74
October, 2018
66
May, 2022
61
May, 2021
56
November, 2019
51
March, 2020
47
September, 2023
46
December, 2017
40
May, 2024
33
December, 2018
25
February, 2020
24
January, 2019
19
April, 2020
19
October, 2017
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
4
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2425
bam
2231
bigWig
1346
bed narrowPeak
1195
tsv
875
bigBed narrowPeak
739
fastq
266
bed broadPeak
254
tagAlign
231
bigBed broadPeak
194
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3360
Homo sapiens
Biosample type
2748
tissue
1043
primary cell
625
cell line
385
in vitro differentiated cells
10
stem cell
Organ
733
liver
586
pancreas
535
connective tissue
476
adipose tissue
379
heart
318
kidney
261
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
94
epithelium
82
musculature of body
56
eye
51
blood
51
bodily fluid
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
3265
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2267
GRCh38
2221
hg19
Lab
2975
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
37
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:
183
inconsistent ontology term
25
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
missing controlled_by
Audit category:
21
inconsistent control read length
2
inconsistent assembly
audit.NOT_COMPLIANT.category!
missing controlled_by
files.file_type!
bedpe
target.investigated_as!
chromatin remodeller
BIOSAMPLE
ASSAY
3373 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
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
...and 4 more
tissue
islet of Langerhans
61
292
68
1
6
4
7
2
1
4
1
adipose tissue
2
382
3
1
3
liver
143
167
20
2
1
1
3
1
1
1
kidney
27
49
75
13
64
6
1
1
1
bone element
84
+ See 175 more…
cell line
HepG2
351
14
1
2
1
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
50
1
Panc1
13
1
1
+ See 14 more…
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