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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
760
ChIP-seq
358
total RNA-seq
229
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
21
pCHi-C
10
RRBS
9
Hi-C
6
MeRIP-seq
5
DNase-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
FAIRE-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
760
DNA binding
549
Transcription
291
DNA accessibility
59
DNA methylation
9
3D chromatin structure
1
DNA sequencing
Target of assay
371
transcription factor
272
histone
272
histone modification
140
broad histone mark
132
narrow histone mark
118
control
89
recombinant protein
75
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
324
November, 2017
225
May, 2021
148
May, 2020
142
February, 2021
134
May, 2022
94
February, 2023
73
September, 2018
62
November, 2018
60
October, 2019
59
August, 2017
59
September, 2020
48
July, 2018
45
August, 2021
43
April, 2018
31
June, 2019
28
December, 2018
27
July, 2019
23
January, 2019
16
November, 2019
12
March, 2020
11
November, 2020
8
January, 2021
7
August, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
Available data
1191
bam
1135
bigWig
836
fastq
699
bed narrowPeak
464
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
120
tagAlign
108
bed broadPeak
108
bigBed broadPeak
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1706
Homo sapiens
Biosample type
2572
tissue
1051
primary cell
659
cell line
369
in vitro differentiated cells
7
stem cell
Organ
464
epithelium
436
pancreas
408
liver
95
vasculature
91
blood vessel
76
heart
69
blood
69
bodily fluid
68
artery
45
kidney
31
connective tissue
20
vein
13
brain
13
musculature of body
8
embryo
4
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1170
AMP
324
HPAP
213
T1D
2
community
1
ITG
Genome assembly (visualization)
1125
hg19
968
GRCh38
Lab
1101
AMP-T2D consortium
324
Klaus Kaestner, Upenn
242
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
143
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
31
inconsistent control read length
9
inconsistent control run_type
2
inconsistent assembly
files.file_type!
bed bed3+
BIOSAMPLE
ASSAY
1710 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
RRBS
Hi-C
MeRIP-seq
DNase-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
FAIRE-seq
MPRA
...and 3 more
primary cell
monocyte
85
54
15
1
1
pancreatic alpha cell
13
52
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
13
21
23
12
16
1
exocrine cell
39
+ See 87 more…
cell line
HepG2
378
14
1
1
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
60
1
Panc1
13
+ See 14 more…
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