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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1376
ChIP-seq
1108
total RNA-seq
258
ATAC-seq
180
single cell RNA-seq
179
DNase-seq
86
RNA microarray
31
pCHi-C
28
WGBS
28
snATAC-seq
19
Hi-C
16
small RNA-seq
11
RRBS
5
STARR-seq
4
FAIRE-seq
MeRIP-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
2
HiChIP
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1376
DNA binding
1306
Transcription
469
DNA accessibility
39
DNA methylation
19
3D chromatin structure
1
DNA sequencing
Target of assay
654
histone modification
653
histone
454
transcription factor
337
narrow histone mark
316
broad histone mark
263
control
92
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
other context
5
other post-translational modification
Date released
615
February, 2021
397
November, 2017
284
August, 2017
271
August, 2021
270
October, 2019
194
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
87
November, 2018
86
February, 2023
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
46
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
35
December, 2018
30
January, 2019
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
3
January, 2018
2
December, 2019
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2438
bam
2244
bigWig
1361
bed narrowPeak
1157
tsv
915
bigBed narrowPeak
804
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
12
hic
11
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3329
Homo sapiens
Biosample type
2758
tissue
682
primary cell
583
cell line
370
in vitro differentiated cells
9
stem cell
Organ
762
liver
587
pancreas
547
connective tissue
488
adipose tissue
379
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
epithelium
82
musculature of body
61
blood
61
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
3237
AMP
47
KPMP
36
T1D
19
LungMap
2
community
Genome assembly (visualization)
2274
GRCh38
2221
hg19
Lab
2952
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
Bing Ren, UCSD
19
Xin Sun, UCSD
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
107
inconsistent ontology term
28
inconsistent control
8
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
assay_title!
CRISPRi RNA-seq
MeRIP-seq
organ_slims!
epithelium
BIOSAMPLE
ASSAY
3341 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
HiChIP
MPRA
shRNA RNA-seq
siRNA RNA-seq
...and 1 more
tissue
islet of Langerhans
71
292
68
6
1
4
7
3
1
1
adipose tissue
2
382
3
1
3
liver
145
167
20
1
2
1
3
1
1
1
kidney
27
49
75
64
13
6
1
1
1
bone element
84
+ See 174 more…
cell line
HepG2
378
14
1
2
1
2
2
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
+ See 13 more…
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