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Experiment matrix

Enter search terms to filter the experiments included in the matrix.

Assay
  • RAMPAGE
    167
  • CAGE
    68
Assay category
  • Transcription
    235
Date released
  • August, 2016
    60
  • May, 2012
    32
  • June, 2014
    22
  • December, 2011
    21
  • August, 2015
    19
  • April, 2015
    16
  • October, 2016
    16
  • March, 2011
    15
  • October, 2017
    12
  • November, 2014
    11
  • March, 2016
    4
  • May, 2016
    4
  • September, 2014
    3
Available data
  • fastq
    10025
  • bam
    9250
  • bigWig
    8162
  • bed narrowPeak
    4068
  • bigBed narrowPeak
    4060
  • tsv
    2110
  • bed broadPeak
    1909
  • bigBed broadPeak
    1455
  • tagAlign
    1272
  • bed bed3+
    892
  • sra
    496
  • tar
    479
  • bed bedRnaElements
    288
  • bigBed bedRnaElements
    288
  • bed bedMethyl
    277
  • bigBed bedMethyl
    277
  • idat
    275
  • gtf
    269
  • bed tss_peak
    235
  • bigBed tss_peak
    235
  • gff gff3
    235
  • bed idr_peak
    134
  • bigBed idr_peak
    134
  • bed bed6+
    115
  • bigBed bed6+
    115
  • rcc
    115
  • bed bedLogR
    64
  • bigBed bedLogR
    63
  • sam
    59
  • wig
    59
  • bed bed12
    35
  • bigBed bed12
    35
  • bed bedGraph
    30
  • bed bedExonScore
    27
  • bigBed bedExonScore
    27
  • csfasta
    24
  • hdf5
    20
  • bed bed9
    17
  • bigBed bed9
    17
  • hic
    16
  • bigBed bed3+
    13
  • csqual
    12
  • vcf
    12
  • bed peptideMapping
    8
  • bigBed peptideMapping
    8
  • bed modPepMap
    6
  • bed pepMap
    6
  • bigBed modPepMap
    6
  • bigBed pepMap
    6
  • bedpe
    5
  • CEL
    4
  • bed bed3
    4
  • bigBed bed3
    4
  • fasta
    1
Experiment status
  • released
    235
Organism
  • Homo sapiens
    235
Biosample type
  • tissue
    104
  • cell line
    68
  • primary cell
    56
  • in vitro differentiated cells
    7
Organ
  • epithelium
    41
  • skin of body
    37
  • connective tissue
    28
  • musculature of body
    19
  • blood
    17
  • bodily fluid
    17
  • lung
    17
  • brain
    16
  • intestine
    13
  • penis
    13
  • blood vessel
    11
  • vasculature
    11
  • heart
    10
  • liver
    10
  • large intestine
    9
  • limb
    9
  • stomach
    9
  • uterus
    9
  • adipose tissue
    8
  • esophagus
    8
  • vein
    6
  • embryo
    5
  • extraembryonic component
    5
  • thyroid gland
    5
  • adrenal gland
    4
  • gonad
    4
  • kidney
    4
  • lymphoid tissue
    4
  • mammary gland
    4
  • spleen
    4
  • arterial blood vessel
    3
  • breast
    3
  • nerve
    3
  • placenta
    3
  • prostate gland
    3
  • bone element
    2
  • ovary
    2
  • pancreas
    2
  • testis
    2
  • bone marrow
    1
  • bronchus
    1
  • eye
    1
  • mouth
    1
  • pericardium
    1
  • spinal cord
    1
  • tongue
    1
  • urinary bladder
    1
  • vagina
    1
Cell
  • epithelial cell
    49
  • cancer cell
    40
  • keratinocyte
    18
  • fibroblast
    15
  • stem cell
    12
  • endothelial cell
    10
  • lymphoblast
    7
  • neuroblastoma cell
    7
  • hematopoietic cell
    5
  • cardiocyte
    3
  • B cell
    2
  • leukocyte
    2
  • melanocyte
    2
  • pericyte
    2
  • smooth muscle cell
    2
  • induced pluripotent stem cell
    1
  • monocyte
    1
  • myeloid cell
    1
  • myoblast
    1
  • neural cell
    1
Project
  • ENCODE
    223
  • GGR
    12
Genome assembly
  • GRCh38
    235
  • hg19
    223
Lab
  • Thomas Gingeras, CSHL
    155
  • Piero Carninci, RIKEN
    68
  • Michael Snyder, Stanford
    12
Audit category:
  • unreplicated experiment
    9
  • missing controlled_by
    1
Audit category:
  • inconsistent control read length
    68
  • missing analysis_step_run
    20
  • inconsistent platforms
    3
target.investigated_as!
  • transcription factor
BIOSAMPLE
ASSAY

235 results

Clear Filters
RAMPAGE
CAGE
tissue
stomach5
thyroid gland5
Peyer's patch4
adrenal gland4
esophagus muscularis mucosa4
cell line
GM1287816
HeLa-S35
HepG25
K56214
SK-N-SH4
primary cell
foreskin keratinocyte12
endothelial cell of umbilical vein5
keratinocyte5
melanocyte of skin2
B cell1
in vitro differentiated cells
cardiac muscle cell1
hematopoietic multipotent progenitor cell1
hepatocyte1
myotube1
neural cell1
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