title: microRNA-seq from midbrain (ENCLB410GDL)

description:
https://www.encodeproject.org/experiments/ENCSR685OON/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq on embryonic 15.5 day mouse midbrain
experiment encode accession: ENCSR685OON
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-03-16
lab: Ali Mortazavi, UCI
library encode accession: ENCLB410GDL
size range: <30

value: Midbrain from 78 embryonic 15.5 day mice

value: healthy

value: ENCBS190ETJ at ENCODE; https://www.encodeproject.org/ENCBS190ETJ/


title: ChIP-seq from liver (ENCLB898YWC)

status: Public on Jun 22 2016

type: SRA

city: Stanford

first: ENCODE

last: DCC

state: CA

address: 300 Pasteur Dr

country: USA

institute: ENCODE DCC

description:
https://www.encodeproject.org/experiments/ENCSR693UWX/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 11.5 day mouse liver
experiment encode accession: ENCSR693UWX
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR573MJR
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB898YWC
size range: 300-500

library_source: genomic

data_processing: See GSM*_README.txt supplementary file linked below

molecule: genomic DNA

organism: Mus musculus

source_name: Mus musculus strain B6NCrl liver tissue mixed sex embryo (11.5 days)

tag: antibody

value: liver

value: tissue

tag: description

value: Liver from 109 embyronic 11.5 day mice

tag: biosample encode accession

tag: age

tag: dev stage

value: embryonic

tag: Sex

value: pooled male and female

tag: health state

tag: lab

value: Len Pennacchio, LBNL

tag: link

value: ENCBS746POP at ENCODE; https://www.encodeproject.org/ENCBS746POP/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from stomach (ENCLB075FHF)

description:
https://www.encodeproject.org/experiments/ENCSR684UWM/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 16.5 day mouse stomach
experiment encode accession: ENCSR684UWM
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR012BVY
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB075FHF
size range: 300-500

source_name: Mus musculus strain B6NCrl stomach tissue mixed sex embryo (16.5 days)

value: stomach

value: Stomach from 41 embyonic 16.5 day mice

value: ENCBS793TEW at ENCODE; https://www.encodeproject.org/ENCBS793TEW/


title: microRNA-seq from forebrain (ENCLB320KFF)

description:
https://www.encodeproject.org/experiments/ENCSR683JZO/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq  on postnatal 0 day mouse forbrain
experiment encode accession: ENCSR683JZO
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB320KFF
size range: <30

library_source: transcriptomic

molecule: total RNA

source_name: Mus musculus strain B6NCrl forebrain tissue postnatal (0 days)

value: forebrain

value: single forebrain from pup 1

value: 0 day

value: postnatal

value: not collected

value: Barbara Wold, Caltech

value: ENCBS033OJJ at ENCODE; https://www.encodeproject.org/ENCBS033OJJ/


title: microRNA-seq from forebrain (ENCLB508CZF)

description:
https://www.encodeproject.org/experiments/ENCSR683JZO/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq  on postnatal 0 day mouse forbrain
experiment encode accession: ENCSR683JZO
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB508CZF
size range: <30

value: tissue

value: single forebrain from pup 3

value: ENCBS804WMS at ENCODE; https://www.encodeproject.org/ENCBS804WMS/


title: ChIP-seq from stomach (ENCLB724LMH)

description:
https://www.encodeproject.org/experiments/ENCSR684UWM/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 16.5 day mouse stomach
experiment encode accession: ENCSR684UWM
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR012BVY
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB724LMH
size range: 300-500

value: Stomach pooled from embyonic 16.5 day mice

value: embryonic

value: pooled male and female

value: healthy

value: ENCBS243DCE at ENCODE; https://www.encodeproject.org/ENCBS243DCE/


title: microRNA-seq from midbrain (ENCLB186ILA)

description:
https://www.encodeproject.org/experiments/ENCSR680TRJ/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq on embryonic 13.5 day mouse midbrain
experiment encode accession: ENCSR680TRJ
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-02-18
lab: Ali Mortazavi, UCI
library encode accession: ENCLB186ILA
size range: <30

source_name: Mus musculus strain B6NCrl midbrain tissue mixed sex embryo (13.5 days)

value: midbrain

value: Midbrain from embryonic 13.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS725LVX at ENCODE; https://www.encodeproject.org/ENCBS725LVX/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: microRNA-seq from hindbrain (ENCLB606JXQ)

description:
https://www.encodeproject.org/experiments/ENCSR677GOF/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse hindbrain
experiment encode accession: ENCSR677GOF
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB606JXQ
size range: <30

source_name: Mus musculus strain B6NCrl hindbrain tissue mixed sex embryo (14.5 days)

value: hindbrain

value: single hindbrain from pup 1 pregnant 2 collected 7/30/2014

value: ENCBS233QWW at ENCODE; https://www.encodeproject.org/ENCBS233QWW/


title: microRNA-seq from midbrain (ENCLB727IOS)

description:
https://www.encodeproject.org/experiments/ENCSR680TRJ/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq on embryonic 13.5 day mouse midbrain
experiment encode accession: ENCSR680TRJ
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-02-18
lab: Ali Mortazavi, UCI
library encode accession: ENCLB727IOS
size range: <30

value: ENCBS185VNZ at ENCODE; https://www.encodeproject.org/ENCBS185VNZ/


title: ChIP-seq from hindbrain (ENCLB248FXI)

description:
https://www.encodeproject.org/experiments/ENCSR685UUM/
***************
biological replicate number: 2
technical replicate number: 1,2
description: Control ChIP-seq on embryonic 15.5 day mouse hindbrain
experiment encode accession: ENCSR685UUM
assay title: ChIP-seq
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB248FXI
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 4000

source_name: Mus musculus strain B6NCrl hindbrain tissue mixed sex embryo (15.5 days)

value: Control

value: tissue

value: Hindbrain from 62 embryonic 15.5 day mice

value: ENCBS948UKU at ENCODE; https://www.encodeproject.org/ENCBS948UKU/


title: ChIP-seq from heart (ENCLB723BHM)

description:
https://www.encodeproject.org/experiments/ENCSR675HDX/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on postnatal 0 day mouse heart
experiment encode accession: ENCSR675HDX
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR334IOH
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB723BHM
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap heart tissue mixed sex postnatal (0 days)

value: heart

value: Heart from 15 postnatal 0 day mice

value: 0 day

value: postnatal

value: ENCBS041AAA at ENCODE; https://www.encodeproject.org/ENCBS041AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: microRNA-seq from hindbrain (ENCLB709YRH)

description:
https://www.encodeproject.org/experiments/ENCSR677GOF/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse hindbrain
experiment encode accession: ENCSR677GOF
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB709YRH
size range: <30

value: single hindbrain from pup 1 pregnant 2 collected 7/24/2014

value: embryonic

value: pooled male and female

value: Barbara Wold, Caltech

value: ENCBS909QXI at ENCODE; https://www.encodeproject.org/ENCBS909QXI/


title: ChIP-seq from kidney (ENCLB720OTM)

description:
https://www.encodeproject.org/experiments/ENCSR674PZU/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on postnatal 0 day mouse kidney
experiment encode accession: ENCSR674PZU
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR178MLS
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB720OTM
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap kidney tissue mixed sex postnatal (0 days)

value: kidney

value: Kidney from pooled postnatal 0 day mice

value: healthy

value: Len Pennacchio, LBNL

value: ENCBS562AAA at ENCODE; https://www.encodeproject.org/ENCBS562AAA/


title: ChIP-seq from midbrain (ENCLB006ZFU)

description:
https://www.encodeproject.org/experiments/ENCSR672ZXY/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on postnatal 0 day mouse midbrain
experiment encode accession: ENCSR672ZXY
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR889XXJ
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB006ZFU
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap midbrain tissue mixed sex postnatal (0 days)

value: midbrain

value: tissue

value: Midbrain from 15 postnatal 0 day mice

value: ENCBS039AAA at ENCODE; https://www.encodeproject.org/ENCBS039AAA/


title: ChIP-seq from heart (ENCLB903SMA)

description:
https://www.encodeproject.org/experiments/ENCSR675HDX/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on postnatal 0 day mouse heart
experiment encode accession: ENCSR675HDX
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR334IOH
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB903SMA
size range: 300-500

value: heart

value: Heart from pooled postnatal 0 day mice

value: 0 day

value: postnatal

value: ENCBS557AAA at ENCODE; https://www.encodeproject.org/ENCBS557AAA/


title: ChIP-seq from midbrain (ENCLB195ZKF)

description:
https://www.encodeproject.org/experiments/ENCSR671NSS/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 13.5 day mouse midbrain
experiment encode accession: ENCSR671NSS
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR359ETU
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB195ZKF
size range: 300-500

value: Midbrain from embryonic 13.5 day mice

value: embryonic

value: pooled male and female

value: ENCBS185VNZ at ENCODE; https://www.encodeproject.org/ENCBS185VNZ/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from liver (ENCLB738RWJ)

description:
https://www.encodeproject.org/experiments/ENCSR670YXP/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K36me3 ChIP-seq on embryonic 14.5 day mouse liver
experiment encode accession: ENCSR670YXP
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR742WLX
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB738RWJ
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap liver tissue mixed sex embryo (14.5 days)

value: liver

value: Liver from embryonic 14.5 day mice

value: healthy

value: ENCBS096GAJ at ENCODE; https://www.encodeproject.org/ENCBS096GAJ/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: microRNA-seq from limb (ENCLB422KGA)

description:
https://www.encodeproject.org/experiments/ENCSR669XBU/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse limb
experiment encode accession: ENCSR669XBU
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB422KGA
size range: <30

source_name: Mus musculus strain B6NCrl limb tissue mixed sex embryo (14.5 days)

value: limb

value: tissue

value: 4 limbs from pup 1 pregnant 2 collected 7/15/2014

value: Barbara Wold, Caltech

value: ENCBS300NIO at ENCODE; https://www.encodeproject.org/ENCBS300NIO/


title: ChIP-seq from heart (ENCLB831CHU)

description:
https://www.encodeproject.org/experiments/ENCSR663VWL/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on embryonic 13.5 day mouse heart
experiment encode accession: ENCSR663VWL
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR077QRY
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB831CHU
size range: 300-500

source_name: Mus musculus strain B6NCrl heart tissue mixed sex embryo (13.5 days)

value: heart

value: Heart from embryonic 13.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS814PLT at ENCODE; https://www.encodeproject.org/ENCBS814PLT/


title: microRNA-seq from limb (ENCLB892OTH)

description:
https://www.encodeproject.org/experiments/ENCSR669XBU/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse limb
experiment encode accession: ENCSR669XBU
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB892OTH
size range: <30

value: 4 limbs from pup 1 pregnant 2 collected 7/17/2014

value: embryonic

value: pooled male and female

value: ENCBS471PIU at ENCODE; https://www.encodeproject.org/ENCBS471PIU/


title: ChIP-seq from kidney (ENCLB894MZU)

description:
https://www.encodeproject.org/experiments/ENCSR669AQL/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 14.5 day mouse kidney
experiment encode accession: ENCSR669AQL
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR091DHJ
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB894MZU
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap kidney tissue mixed sex embryo (14.5 days)

value: kidney

value: Kidney from pooled embryonic 14.5 day mice

value: ENCBS569AAA at ENCODE; https://www.encodeproject.org/ENCBS569AAA/


title: ChIP-seq from liver (ENCLB731OIO)

description:
https://www.encodeproject.org/experiments/ENCSR670YXP/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K36me3 ChIP-seq on embryonic 14.5 day mouse liver
experiment encode accession: ENCSR670YXP
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR742WLX
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB731OIO
size range: 300-500

value: liver

value: Liver from embryonic 14.5 day mice

value: healthy

value: ENCBS194VTP at ENCODE; https://www.encodeproject.org/ENCBS194VTP/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from forebrain (ENCLB098UCB)

description:
https://www.encodeproject.org/experiments/ENCSR658BBG/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27me3 ChIP-seq on embryonic 16.5 day mouse forebrain
experiment encode accession: ENCSR658BBG
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR587JRQ
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB098UCB
size range: 300-500

source_name: Mus musculus strain B6NCrl forebrain tissue mixed sex embryo (16.5 days)

value: forebrain

value: tissue

value: Forebrain from 41 embyonic 16.5 day mice

value: ENCBS512LKA at ENCODE; https://www.encodeproject.org/ENCBS512LKA/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from liver (ENCLB016UFL)

description:
https://www.encodeproject.org/experiments/ENCSR653AVN/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on postnatal 0 day mouse liver
experiment encode accession: ENCSR653AVN
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR617RDY
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB016UFL
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap liver tissue mixed sex postnatal (0 days)

value: Liver from pooled postnatal 0 day mice

value: 0 day

value: postnatal

value: Len Pennacchio, LBNL

value: ENCBS559AAA at ENCODE; https://www.encodeproject.org/ENCBS559AAA/


title: ChIP-seq from forebrain (ENCLB010BMG)

description:
https://www.encodeproject.org/experiments/ENCSR668BBX/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9me3 ChIP-seq on embryonic 15.5 day mouse forebrain
experiment encode accession: ENCSR668BBX
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR880HDV
encode release date: 2016-03-16
lab: Bing Ren, UCSD
library encode accession: ENCLB010BMG
size range: 300-500

source_name: Mus musculus strain B6NCrl forebrain tissue mixed sex embryo (15.5 days)

value: Forebrain from 62 embryonic 15.5 day mice

value: embryonic

value: pooled male and female

value: ENCBS841GER at ENCODE; https://www.encodeproject.org/ENCBS841GER/


title: ChIP-seq from intestine (ENCLB333DLJ)

description:
https://www.encodeproject.org/experiments/ENCSR645QSY/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control ChIP-seq on embryonic 14.5 day mouse intestine
experiment encode accession: ENCSR645QSY
assay title: ChIP-seq
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB333DLJ
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap intestine tissue mixed sex embryo (14.5 days)

value: Control

value: intestine

value: Intestine from 24 embryonic 14.5 day mice

value: healthy

value: ENCBS008AAA at ENCODE; https://www.encodeproject.org/ENCBS008AAA/


title: ChIP-seq from forebrain (ENCLB594CEI)

description:
https://www.encodeproject.org/experiments/ENCSR668BBX/
***************
biological replicate number: 1
technical replicate number: 2,1
description: H3K9me3 ChIP-seq on embryonic 15.5 day mouse forebrain
experiment encode accession: ENCSR668BBX
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR880HDV
encode release date: 2016-03-16
lab: Bing Ren, UCSD
library encode accession: ENCLB594CEI
size range: 300-500

value: forebrain

value: tissue

value: Forebrain from 78 embryonic 15.5 day mice

value: ENCBS811RMD at ENCODE; https://www.encodeproject.org/ENCBS811RMD/


title: ChIP-seq from kidney (ENCLB398PQI)

description:
https://www.encodeproject.org/experiments/ENCSR642DUV/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control ChIP-seq on embryonic 16.5 day mouse kidney
experiment encode accession: ENCSR642DUV
assay title: ChIP-seq
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB398PQI
size range: 300-500

source_name: Mus musculus strain B6NCrl kidney tissue mixed sex embryo (16.5 days)

value: kidney

value: Kidney pooled from embyonic 16.5 day mice

value: ENCBS519MUD at ENCODE; https://www.encodeproject.org/ENCBS519MUD/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: microRNA-seq from forebrain (ENCLB592QZM)

description:
https://www.encodeproject.org/experiments/ENCSR665JCF/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse forebrain
experiment encode accession: ENCSR665JCF
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB592QZM
size range: <30

source_name: Mus musculus strain B6NCrl forebrain tissue mixed sex embryo (14.5 days)

value: single forebrain from pup1 pregnant 2 collected 7/24/2014

value: Barbara Wold, Caltech

value: ENCBS567ABO at ENCODE; https://www.encodeproject.org/ENCBS567ABO/


title: ChIP-seq from heart (ENCLB443WGM)

description:
https://www.encodeproject.org/experiments/ENCSR663VWL/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me1 ChIP-seq on embryonic 13.5 day mouse heart
experiment encode accession: ENCSR663VWL
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR077QRY
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB443WGM
size range: 300-500

value: heart

value: Heart from embryonic 13.5 day mice

value: embryonic

value: pooled male and female

value: Len Pennacchio, LBNL

value: ENCBS490ZWZ at ENCODE; https://www.encodeproject.org/ENCBS490ZWZ/


title: ChIP-seq from midbrain (ENCLB896WFU)

description:
https://www.encodeproject.org/experiments/ENCSR678FIT/
***************
biological replicate number: 2
technical replicate number: 1,2
description: H3K4me1 ChIP-seq on embryonic 16.5 day mouse midbrain
experiment encode accession: ENCSR678FIT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR817FFF
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB896WFU
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

source_name: Mus musculus strain B6NCrl midbrain tissue mixed sex embryo (16.5 days)

value: midbrain

value: Midbrain from 37 embryonic 16.5 day mice

value: healthy

value: ENCBS463JSE at ENCODE; https://www.encodeproject.org/ENCBS463JSE/


title: ChIP-seq from midbrain (ENCLB271ZPG)

description:
https://www.encodeproject.org/experiments/ENCSR678FIT/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me1 ChIP-seq on embryonic 16.5 day mouse midbrain
experiment encode accession: ENCSR678FIT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR817FFF
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB271ZPG
size range: 300-500

value: tissue

value: Midbrain pooled from embyonic 16.5 day mice

value: ENCBS684MLE at ENCODE; https://www.encodeproject.org/ENCBS684MLE/


title: ChIP-seq from liver (ENCLB290PKE)

description:
https://www.encodeproject.org/experiments/ENCSR653AVN/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on postnatal 0 day mouse liver
experiment encode accession: ENCSR653AVN
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR617RDY
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB290PKE
size range: 300-500

value: liver

value: Liver from 15 postnatal 0 day mice

value: 0 day

value: postnatal

value: ENCBS043AAA at ENCODE; https://www.encodeproject.org/ENCBS043AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: microRNA-seq from forebrain (ENCLB273SQU)

description:
https://www.encodeproject.org/experiments/ENCSR665JCF/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse forebrain
experiment encode accession: ENCSR665JCF
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB273SQU
size range: <30

value: forebrain

value: single forebrain from pup1 pregnant 2 collected 7/30/2014

value: embryonic

value: Barbara Wold, Caltech

value: ENCBS295MUN at ENCODE; https://www.encodeproject.org/ENCBS295MUN/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from midbrain (ENCLB686VOV)

description:
https://www.encodeproject.org/experiments/ENCSR671NSS/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 13.5 day mouse midbrain
experiment encode accession: ENCSR671NSS
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR359ETU
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB686VOV
size range: 300-500

source_name: Mus musculus strain B6NCrl midbrain tissue mixed sex embryo (13.5 days)

value: midbrain

value: Midbrain from embryonic 13.5 day mice

value: pooled male and female

value: healthy

value: Len Pennacchio, LBNL

value: ENCBS725LVX at ENCODE; https://www.encodeproject.org/ENCBS725LVX/


title: ChIP-seq from limb (ENCLB384SWI)

description:
https://www.encodeproject.org/experiments/ENCSR639IQR/
***************
biological replicate number: 2
technical replicate number: 2,1
description: H3K36me3 ChIP-seq on embryonic 13.5 day mouse limb
experiment encode accession: ENCSR639IQR
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR465WTL
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB384SWI
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

source_name: Mus musculus strain B6NCrl limb tissue mixed sex embryo (13.5 days)

value: limb

value: tissue

value: Limb from embryonic 13.5 day mice

value: ENCBS896ZED at ENCODE; https://www.encodeproject.org/ENCBS896ZED/


title: ChIP-seq from heart (ENCLB560HCE)

description:
https://www.encodeproject.org/experiments/ENCSR650UAC/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 13.5 day mouse heart
experiment encode accession: ENCSR650UAC
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR077QRY
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB560HCE
size range: 300-500

value: heart

value: Heart from embryonic 13.5 day mice

value: ENCBS490ZWZ at ENCODE; https://www.encodeproject.org/ENCBS490ZWZ/


title: microRNA-seq from forebrain (ENCLB858IMJ)

description:
https://www.encodeproject.org/experiments/ENCSR638RNH/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq on embryonic 13.5 day mouse forebrain
experiment encode accession: ENCSR638RNH
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-03-01
lab: Ali Mortazavi, UCI
library encode accession: ENCLB858IMJ
size range: <30

source_name: Mus musculus strain B6NCrl forebrain tissue mixed sex embryo (13.5 days)

value: forebrain

value: Forebrain from embryonic 13.5 day mice

value: embryonic

value: ENCBS273RVL at ENCODE; https://www.encodeproject.org/ENCBS273RVL/


title: ChIP-seq from forebrain (ENCLB829BPC)

description:
https://www.encodeproject.org/experiments/ENCSR658BBG/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27me3 ChIP-seq on embryonic 16.5 day mouse forebrain
experiment encode accession: ENCSR658BBG
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR587JRQ
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB829BPC
size range: 300-500

value: Forebrain pooled from embyonic 16.5 day mice

value: ENCBS156DHU at ENCODE; https://www.encodeproject.org/ENCBS156DHU/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from intestine (ENCLB442NKR)

description:
https://www.encodeproject.org/experiments/ENCSR645QSY/
***************
biological replicate number: 2
technical replicate number: 1
description: Input control ChIP-seq on embryonic 14.5 day mouse intestine
experiment encode accession: ENCSR645QSY
assay title: ChIP-seq
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB442NKR
size range: 300-500

value: Control

value: intestine

value: Intestine from 34 embryonic 14.5 day mice

value: pooled male and female

value: healthy

value: ENCBS020AAA at ENCODE; https://www.encodeproject.org/ENCBS020AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from kidney (ENCLB566OBC)

description:
https://www.encodeproject.org/experiments/ENCSR642DUV/
***************
biological replicate number: 2
technical replicate number: 1
description: Input control ChIP-seq on embryonic 16.5 day mouse kidney
experiment encode accession: ENCSR642DUV
assay title: ChIP-seq
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB566OBC
size range: 300-500

value: kidney

value: tissue

value: Kidney from 41 embyonic 16.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS529OHA at ENCODE; https://www.encodeproject.org/ENCBS529OHA/


title: ChIP-seq from heart (ENCLB352NKO)

description:
https://www.encodeproject.org/experiments/ENCSR647OTD/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 15.5 day mouse heart
experiment encode accession: ENCSR647OTD
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR424WHM
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB352NKO
size range: 300-500

source_name: Mus musculus strain B6NCrl heart tissue mixed sex embryo (15.5 days)

value: heart

value: Heart from 78 embryonic 15.5 day mice

value: embryonic

value: ENCBS595EMK at ENCODE; https://www.encodeproject.org/ENCBS595EMK/


title: ChIP-seq from heart (ENCLB648JRE)

description:
https://www.encodeproject.org/experiments/ENCSR641EME/
***************
biological replicate number: 1
technical replicate number: 1,2
description: H3K36me3 ChIP-seq on embryonic 14.5 day mouse heart
experiment encode accession: ENCSR641EME
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR840PFW
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB648JRE
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap heart tissue mixed sex embryo (14.5 days)

value: Heart from pooled embryonic 14.5 day mice

value: ENCBS563AAA at ENCODE; https://www.encodeproject.org/ENCBS563AAA/


title: ChIP-seq from heart (ENCLB849DRZ)

description:
https://www.encodeproject.org/experiments/ENCSR647OTD/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 15.5 day mouse heart
experiment encode accession: ENCSR647OTD
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR424WHM
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB849DRZ
size range: 300-500

value: Heart from 62 embryonic 15.5 day mice

value: ENCBS909LOF at ENCODE; https://www.encodeproject.org/ENCBS909LOF/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from hindbrain (ENCLB016VEZ)

description:
https://www.encodeproject.org/experiments/ENCSR639KSW/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K9ac ChIP-seq on embryonic 15.5 day mouse hindbrain
experiment encode accession: ENCSR639KSW
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR685UUM
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB016VEZ
size range: 300-500

source_name: Mus musculus strain B6NCrl hindbrain tissue mixed sex embryo (15.5 days)

value: hindbrain

value: Hindbrain from 78 embryonic 15.5 day mice

value: pooled male and female

value: healthy

value: ENCBS958AHU at ENCODE; https://www.encodeproject.org/ENCBS958AHU/


title: ChIP-seq from heart (ENCLB828LGU)

description:
https://www.encodeproject.org/experiments/ENCSR641EME/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K36me3 ChIP-seq on embryonic 14.5 day mouse heart
experiment encode accession: ENCSR641EME
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR840PFW
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB828LGU
size range: 300-500

value: tissue

value: ENCBS566AAA at ENCODE; https://www.encodeproject.org/ENCBS566AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from heart (ENCLB105ESJ)

description:
https://www.encodeproject.org/experiments/ENCSR650UAC/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 13.5 day mouse heart
experiment encode accession: ENCSR650UAC
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR077QRY
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB105ESJ
size range: 300-500

value: heart

value: Heart from embryonic 13.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS814PLT at ENCODE; https://www.encodeproject.org/ENCBS814PLT/


title: ChIP-seq from limb (ENCLB357KQT)

description:
https://www.encodeproject.org/experiments/ENCSR631QAE/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 14.5 day mouse limb
experiment encode accession: ENCSR631QAE
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR232EOO
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB357KQT
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap limb tissue mixed sex embryo (14.5 days)

value: limb

value: Limb from 34 embryonic 14.5 day mice

value: embryonic

value: ENCBS023AAA at ENCODE; https://www.encodeproject.org/ENCBS023AAA/


title: ChIP-seq from hindbrain (ENCLB582LTA)

description:
https://www.encodeproject.org/experiments/ENCSR617VBE/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on postnatal 0 day mouse hindbrain
experiment encode accession: ENCSR617VBE
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR066SPF
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB582LTA
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap hindbrain tissue mixed sex postnatal (0 days)

value: Hindbrain from pooled postnatal 0 day mice

value: 0 day

value: postnatal

value: ENCBS556AAA at ENCODE; https://www.encodeproject.org/ENCBS556AAA/


title: ChIP-seq from hindbrain (ENCLB518TFN)

description:
https://www.encodeproject.org/experiments/ENCSR639KSW/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9ac ChIP-seq on embryonic 15.5 day mouse hindbrain
experiment encode accession: ENCSR639KSW
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR685UUM
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB518TFN
size range: 300-500

value: hindbrain

value: Hindbrain from 62 embryonic 15.5 day mice

value: pooled male and female

value: healthy

value: ENCBS948UKU at ENCODE; https://www.encodeproject.org/ENCBS948UKU/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from midbrain (ENCLB629MOK)

description:
https://www.encodeproject.org/experiments/ENCSR637CCT/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 16.5 day mouse midbrain
experiment encode accession: ENCSR637CCT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR817FFF
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB629MOK
size range: 300-500

value: midbrain

value: tissue

value: Midbrain pooled from embyonic 16.5 day mice

value: ENCBS684MLE at ENCODE; https://www.encodeproject.org/ENCBS684MLE/


title: microRNA-seq from heart (ENCLB363CBV)

description:
https://www.encodeproject.org/experiments/ENCSR609EDL/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse heart
experiment encode accession: ENCSR609EDL
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB363CBV
size range: <30

source_name: Mus musculus strain B6NCrl heart tissue mixed sex embryo (14.5 days)

value: heart

value: single heart from pup 1 pregnant 2 collected 7/15/2014

value: Barbara Wold, Caltech

value: ENCBS824QSS at ENCODE; https://www.encodeproject.org/ENCBS824QSS/


title: microRNA-seq from heart (ENCLB983TTG)

description:
https://www.encodeproject.org/experiments/ENCSR609EDL/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse heart
experiment encode accession: ENCSR609EDL
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB983TTG
size range: <30

value: single heart from pup 1 pregnant 2 collected 7/17/2014

value: embryonic

value: ENCBS925AWF at ENCODE; https://www.encodeproject.org/ENCBS925AWF/


title: ChIP-seq from intestine (ENCLB611XJX)

description:
https://www.encodeproject.org/experiments/ENCSR639DND/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 16.5 day mouse intestine
experiment encode accession: ENCSR639DND
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR635JIC
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB611XJX
size range: 300-500

source_name: Mus musculus strain B6NCrl intestine tissue mixed sex embryo (16.5 days)

value: intestine

value: Intestine from 41 embyonic 16.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS072GMU at ENCODE; https://www.encodeproject.org/ENCBS072GMU/


title: ChIP-seq from limb (ENCLB823JKA)

description:
https://www.encodeproject.org/experiments/ENCSR639IQR/
***************
biological replicate number: 1
technical replicate number: 2,1
description: H3K36me3 ChIP-seq on embryonic 13.5 day mouse limb
experiment encode accession: ENCSR639IQR
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR465WTL
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB823JKA
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: limb

value: Limb from embryonic 13.5 day mice

value: pooled male and female

value: healthy

value: ENCBS176PGP at ENCODE; https://www.encodeproject.org/ENCBS176PGP/


title: ChIP-seq from intestine (ENCLB881ADL)

description:
https://www.encodeproject.org/experiments/ENCSR639DND/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 16.5 day mouse intestine
experiment encode accession: ENCSR639DND
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR635JIC
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB881ADL
size range: 300-500

value: tissue

value: Intestine pooled from embyonic 16.5 day mice

value: ENCBS856EWN at ENCODE; https://www.encodeproject.org/ENCBS856EWN/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from intestine (ENCLB382XUP)

description:
https://www.encodeproject.org/experiments/ENCSR635JIC/
***************
biological replicate number: 2
technical replicate number: 1
description: Input control ChIP-seq on embryonic 16.5 day mouse intestine
experiment encode accession: ENCSR635JIC
assay title: ChIP-seq
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB382XUP
size range: 300-500

value: Control


title: ChIP-seq from intestine (ENCLB443GPP)

description:
https://www.encodeproject.org/experiments/ENCSR635JIC/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control ChIP-seq on embryonic 16.5 day mouse intestine
experiment encode accession: ENCSR635JIC
assay title: ChIP-seq
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB443GPP
size range: 300-500


title: ChIP-seq from embryonic facial prominence (ENCLB885KZV)

description:
https://www.encodeproject.org/experiments/ENCSR606AJV/
***************
biological replicate number: 1
technical replicate number: 2,1
description: H3K36me3 ChIP-seq on embryonic 15.5 day mouse embryonic facial prominence
experiment encode accession: ENCSR606AJV
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR981PSX
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB885KZV
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

source_name: Mus musculus strain B6NCrl embryonic facial prominence tissue mixed sex embryo (15.5 days)

value: embryonic facial prominence

value: Embryonic facial prominence from 78 embryonic 15.5 day mice

value: ENCBS543BPM at ENCODE; https://www.encodeproject.org/ENCBS543BPM/


title: ChIP-seq from stomach (ENCLB319XKZ)

description:
https://www.encodeproject.org/experiments/ENCSR599PKR/
***************
biological replicate number: 1
technical replicate number: 2,1
description: H3K36me3 ChIP-seq on embryonic 15.5 day mouse stomach
experiment encode accession: ENCSR599PKR
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR240XQT
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB319XKZ
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

source_name: Mus musculus strain B6NCrl stomach tissue mixed sex embryo (15.5 days)

value: stomach

value: Stomach from 78 embryonic 15.5 day mice

value: embryonic

value: ENCBS915SZN at ENCODE; https://www.encodeproject.org/ENCBS915SZN/


title: ChIP-seq from midbrain (ENCLB480UJQ)

description:
https://www.encodeproject.org/experiments/ENCSR637CCT/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 16.5 day mouse midbrain
experiment encode accession: ENCSR637CCT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR817FFF
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB480UJQ
size range: 300-500

value: midbrain

value: Midbrain from 37 embryonic 16.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS463JSE at ENCODE; https://www.encodeproject.org/ENCBS463JSE/


title: ChIP-seq from intestine (ENCLB041RVK)

description:
https://www.encodeproject.org/experiments/ENCSR604AMS/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 15.5 day mouse intestine
experiment encode accession: ENCSR604AMS
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR872UEE
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB041RVK
size range: 300-500

source_name: Mus musculus strain B6NCrl intestine tissue mixed sex embryo (15.5 days)

value: intestine

value: Intestine from 78 embryonic 15.5 day mice

value: pooled male and female

value: healthy

value: ENCBS401LLS at ENCODE; https://www.encodeproject.org/ENCBS401LLS/


title: ChIP-seq from intestine (ENCLB239LMB)

description:
https://www.encodeproject.org/experiments/ENCSR599GVS/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 15.5 day mouse intestine
experiment encode accession: ENCSR599GVS
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR872UEE
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB239LMB
size range: 300-500

value: tissue

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from intestine (ENCLB748GQI)

description:
https://www.encodeproject.org/experiments/ENCSR599GVS/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 15.5 day mouse intestine
experiment encode accession: ENCSR599GVS
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR872UEE
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB748GQI
size range: 300-500

value: Intestine from 62 embryonic 15.5 day mice

value: ENCBS836WEU at ENCODE; https://www.encodeproject.org/ENCBS836WEU/


title: ChIP-seq from limb (ENCLB495DQJ)

description:
https://www.encodeproject.org/experiments/ENCSR631QAE/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 14.5 day mouse limb
experiment encode accession: ENCSR631QAE
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR232EOO
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB495DQJ
size range: 300-500

value: limb

value: Limb from 24 embryonic 14.5 day mice

value: ENCBS011AAA at ENCODE; https://www.encodeproject.org/ENCBS011AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: microRNA-seq from forebrain (ENCLB682VYR)

description:
https://www.encodeproject.org/experiments/ENCSR638RNH/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq on embryonic 13.5 day mouse forebrain
experiment encode accession: ENCSR638RNH
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-03-01
lab: Ali Mortazavi, UCI
library encode accession: ENCLB682VYR
size range: <30

value: forebrain

value: Forebrain from embryonic 13.5 day mice

value: embryonic

value: ENCBS793ZRY at ENCODE; https://www.encodeproject.org/ENCBS793ZRY/


title: microRNA-seq from lung (ENCLB513UHF)

description:
https://www.encodeproject.org/experiments/ENCSR631JEQ/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq on embryonic 15.5 day mouse lung
experiment encode accession: ENCSR631JEQ
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-03-16
lab: Ali Mortazavi, UCI
library encode accession: ENCLB513UHF
size range: <30

source_name: Mus musculus strain B6NCrl lung tissue mixed sex embryo (15.5 days)

value: lung

value: Lung from 78 embryonic 15.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS467HSM at ENCODE; https://www.encodeproject.org/ENCBS467HSM/


title: ChIP-seq from stomach (ENCLB949SPN)

description:
https://www.encodeproject.org/experiments/ENCSR581FAT/
***************
biological replicate number: 1
technical replicate number: 1,2
description: H3K36me3 ChIP-seq on embryonic 14.5 day mouse stomach
experiment encode accession: ENCSR581FAT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR497YBQ
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB949SPN
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap stomach tissue mixed sex embryo (14.5 days)

value: stomach

value: Stomach pooled from embryonic 14.5 day mice

value: pooled male and female

value: healthy

value: ENCBS564AAA at ENCODE; https://www.encodeproject.org/ENCBS564AAA/


title: microRNA-seq from lung (ENCLB975ITA)

description:
https://www.encodeproject.org/experiments/ENCSR631JEQ/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq on embryonic 15.5 day mouse lung
experiment encode accession: ENCSR631JEQ
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-03-16
lab: Ali Mortazavi, UCI
library encode accession: ENCLB975ITA
size range: <30

value: tissue

value: Lung from 62 embryonic 15.5 day mice

value: ENCBS217WPC at ENCODE; https://www.encodeproject.org/ENCBS217WPC/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from embryonic facial prominence (ENCLB793VMO)

description:
https://www.encodeproject.org/experiments/ENCSR606AJV/
***************
biological replicate number: 2
technical replicate number: 3,2,1
description: H3K36me3 ChIP-seq on embryonic 15.5 day mouse embryonic facial prominence
experiment encode accession: ENCSR606AJV
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR981PSX
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB793VMO
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: embryonic facial prominence

value: Embryonic facial prominence from 62 embryonic 15.5 day mice

value: ENCBS900XQR at ENCODE; https://www.encodeproject.org/ENCBS900XQR/


title: ChIP-seq from embryonic facial prominence (ENCLB021TAX)

description:
https://www.encodeproject.org/experiments/ENCSR604DCI/
***************
biological replicate number: 1
technical replicate number: 1,2
description: H3K36me3 ChIP-seq on embryonic 14.5 day mouse embryonic facial prominence
experiment encode accession: ENCSR604DCI
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR329ZEN
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB021TAX
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap embryonic facial prominence tissue mixed sex embryo (14.5 days)

value: Craniofacial prominence from 24 embryonic 14.5 day mice

value: embryonic

value: ENCBS012AAA at ENCODE; https://www.encodeproject.org/ENCBS012AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from neural tube (ENCLB316ZXB)

description:
https://www.encodeproject.org/experiments/ENCSR580MEU/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27me3 ChIP-seq on embryonic 13.5 day mouse neural tube
experiment encode accession: ENCSR580MEU
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR295GGT
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB316ZXB
size range: 300-500

source_name: Mus musculus strain B6NCrl neural tube tissue mixed sex embryo (13.5 days)

value: neural tube

value: Neural tube from embryonic 13.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS549OYR at ENCODE; https://www.encodeproject.org/ENCBS549OYR/


title: ChIP-seq from intestine (ENCLB823TBA)

description:
https://www.encodeproject.org/experiments/ENCSR604AMS/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 15.5 day mouse intestine
experiment encode accession: ENCSR604AMS
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR872UEE
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB823TBA
size range: 300-500

value: intestine

value: Intestine from 62 embryonic 15.5 day mice

value: pooled male and female

value: healthy

value: ENCBS836WEU at ENCODE; https://www.encodeproject.org/ENCBS836WEU/


title: ChIP-seq from stomach (ENCLB770CCR)

description:
https://www.encodeproject.org/experiments/ENCSR581FAT/
***************
biological replicate number: 2
technical replicate number: 1,2
description: H3K36me3 ChIP-seq on embryonic 14.5 day mouse stomach
experiment encode accession: ENCSR581FAT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR497YBQ
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB770CCR
size range: 300-500

value: stomach

value: tissue

value: Stomach pooled from embryonic 14.5 day mice

value: ENCBS568AAA at ENCODE; https://www.encodeproject.org/ENCBS568AAA/


title: microRNA-seq from intestine (ENCLB529EZC)

description:
https://www.encodeproject.org/experiments/ENCSR580VUW/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse intestine
experiment encode accession: ENCSR580VUW
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB529EZC
size range: <30

source_name: Mus musculus strain B6NCrl intestine tissue mixed sex embryo (14.5 days)

value: single intestine from pup 1 pregnant 2 collected 7/17/2014

value: Barbara Wold, Caltech

value: ENCBS110AZU at ENCODE; https://www.encodeproject.org/ENCBS110AZU/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from liver (ENCLB726FDL)

description:
https://www.encodeproject.org/experiments/ENCSR577SDJ/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 15.5 day mouse liver
experiment encode accession: ENCSR577SDJ
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR274AQL
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB726FDL
size range: 300-500

source_name: Mus musculus strain B6NCrl liver tissue mixed sex embryo (15.5 days)

value: liver

value: Liver from 78 embryonic 15.5 day mice

value: embryonic

value: ENCBS734ENZ at ENCODE; https://www.encodeproject.org/ENCBS734ENZ/


title: ChIP-seq from neural tube (ENCLB462ZRM)

description:
https://www.encodeproject.org/experiments/ENCSR571HOT/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K9ac ChIP-seq on embryonic 15.5 day mouse neural tube
experiment encode accession: ENCSR571HOT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR351BDM
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB462ZRM
size range: 300-500

source_name: Mus musculus strain B6NCrl neural tube tissue mixed sex embryo (15.5 days)

value: neural tube

value: Neural tube from 78 embryonic 15.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS944KEZ at ENCODE; https://www.encodeproject.org/ENCBS944KEZ/


title: ChIP-seq from heart (ENCLB561MDW)

description:
https://www.encodeproject.org/experiments/ENCSR574VME/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 15.5 day mouse heart
experiment encode accession: ENCSR574VME
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR424WHM
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB561MDW
size range: 300-500

source_name: Mus musculus strain B6NCrl heart tissue mixed sex embryo (15.5 days)

value: heart

value: Heart from 78 embryonic 15.5 day mice

value: pooled male and female

value: healthy

value: ENCBS595EMK at ENCODE; https://www.encodeproject.org/ENCBS595EMK/


title: ChIP-seq from intestine (ENCLB747NYD)

description:
https://www.encodeproject.org/experiments/ENCSR572KYR/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 16.5 day mouse intestine
experiment encode accession: ENCSR572KYR
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR635JIC
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB747NYD
size range: 300-500

value: intestine

value: tissue

value: Intestine from 41 embyonic 16.5 day mice

value: ENCBS072GMU at ENCODE; https://www.encodeproject.org/ENCBS072GMU/


title: ChIP-seq from intestine (ENCLB278SDN)

description:
https://www.encodeproject.org/experiments/ENCSR572KYR/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 16.5 day mouse intestine
experiment encode accession: ENCSR572KYR
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR635JIC
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB278SDN
size range: 300-500

value: Intestine pooled from embyonic 16.5 day mice

value: ENCBS856EWN at ENCODE; https://www.encodeproject.org/ENCBS856EWN/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from forebrain (ENCLB568CLI)

description:
https://www.encodeproject.org/experiments/ENCSR564XSR/
***************
biological replicate number: 2
technical replicate number: 1,2
description: H3K27me3 ChIP-seq on embryonic 15.5 day mouse forebrain
experiment encode accession: ENCSR564XSR
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR880HDV
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB568CLI
size range: 300-500

source_name: Mus musculus strain B6NCrl forebrain tissue mixed sex embryo (15.5 days)

value: forebrain

value: Forebrain from 62 embryonic 15.5 day mice

value: embryonic

value: ENCBS841GER at ENCODE; https://www.encodeproject.org/ENCBS841GER/


title: ChIP-seq from neural tube (ENCLB687IAH)

description:
https://www.encodeproject.org/experiments/ENCSR571HOT/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9ac ChIP-seq on embryonic 15.5 day mouse neural tube
experiment encode accession: ENCSR571HOT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR351BDM
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB687IAH
size range: 300-500

value: neural tube

value: Neural tube from 62 embryonic 15.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS206NRE at ENCODE; https://www.encodeproject.org/ENCBS206NRE/


title: ChIP-seq from kidney (ENCLB294MZX)

description:
https://www.encodeproject.org/experiments/ENCSR564JKR/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27me3 ChIP-seq on postnatal 0 day mouse kidney
experiment encode accession: ENCSR564JKR
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR178MLS
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB294MZX
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap kidney tissue mixed sex postnatal (0 days)

value: kidney

value: Kidney from pooled postnatal 0 day mice

value: 0 day

value: postnatal

value: pooled male and female

value: healthy

value: ENCBS562AAA at ENCODE; https://www.encodeproject.org/ENCBS562AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from neural tube (ENCLB789UJD)

description:
https://www.encodeproject.org/experiments/ENCSR579RZO/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 14.5 day mouse neural tube
experiment encode accession: ENCSR579RZO
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR254WNU
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB789UJD
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap neural tube tissue mixed sex embryo (14.5 days)

value: tissue

value: Neural tube from 34 embryonic 14.5 day mice

value: ENCBS025AAA at ENCODE; https://www.encodeproject.org/ENCBS025AAA/


title: microRNA-seq from intestine (ENCLB176CAC)

description:
https://www.encodeproject.org/experiments/ENCSR580VUW/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq  on embryonic 14.5 day mouse intestine
experiment encode accession: ENCSR580VUW
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB176CAC
size range: <30

value: intestine

value: single intestine from pup 1 pregnant 2 collected 7/15/2014

value: embryonic

value: Barbara Wold, Caltech

value: ENCBS475HQA at ENCODE; https://www.encodeproject.org/ENCBS475HQA/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: microRNA-seq from embryonic facial prominence (ENCLB693WXS)

description:
https://www.encodeproject.org/experiments/ENCSR568TUO/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq on embryonic 13.5 day mouse embryonic facial prominence
experiment encode accession: ENCSR568TUO
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-02-23
lab: Ali Mortazavi, UCI
library encode accession: ENCLB693WXS
size range: <30

source_name: Mus musculus strain B6NCrl embryonic facial prominence tissue mixed sex embryo (13.5 days)

value: embryonic facial prominence

value: Embryonic facial prominence from embryonic 13.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS764ZZN at ENCODE; https://www.encodeproject.org/ENCBS764ZZN/


title: ChIP-seq from stomach (ENCLB662SMV)

description:
https://www.encodeproject.org/experiments/ENCSR556DLJ/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9me3 ChIP-seq on postnatal 0 day mouse stomach
experiment encode accession: ENCSR556DLJ
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR050VUZ
encode release date: 2016-02-17
lab: Bing Ren, UCSD
library encode accession: ENCLB662SMV
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap stomach tissue mixed sex postnatal (0 days)

value: stomach

value: Stomach from pooled postnatal 0 day mice

value: 0 day

value: postnatal

value: pooled male and female

value: ENCBS561AAA at ENCODE; https://www.encodeproject.org/ENCBS561AAA/


title: ChIP-seq from neural tube (ENCLB437BRA)

description:
https://www.encodeproject.org/experiments/ENCSR580MEU/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27me3 ChIP-seq on embryonic 13.5 day mouse neural tube
experiment encode accession: ENCSR580MEU
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR295GGT
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB437BRA
size range: 300-500

value: neural tube

value: tissue

value: Neural tube from embryonic 13.5 day mice

value: healthy

value: ENCBS956BQY at ENCODE; https://www.encodeproject.org/ENCBS956BQY/


title: ChIP-seq from heart (ENCLB814AMK)

description:
https://www.encodeproject.org/experiments/ENCSR574VME/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 15.5 day mouse heart
experiment encode accession: ENCSR574VME
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR424WHM
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB814AMK
size range: 300-500

value: heart

value: Heart from 62 embryonic 15.5 day mice

value: embryonic

value: ENCBS909LOF at ENCODE; https://www.encodeproject.org/ENCBS909LOF/


title: ChIP-seq from liver (ENCLB128QHW)

description:
https://www.encodeproject.org/experiments/ENCSR570HJI/
***************
biological replicate number: 1
technical replicate number: 3,1,2
description: H3K27me3 ChIP-seq on embryonic 15.5 day mouse liver
experiment encode accession: ENCSR570HJI
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR274AQL
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB128QHW
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: liver

value: Liver from 78 embryonic 15.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS734ENZ at ENCODE; https://www.encodeproject.org/ENCBS734ENZ/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: microRNA-seq from embryonic facial prominence (ENCLB600BSN)

description:
https://www.encodeproject.org/experiments/ENCSR568TUO/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq on embryonic 13.5 day mouse embryonic facial prominence
experiment encode accession: ENCSR568TUO
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-02-23
lab: Ali Mortazavi, UCI
library encode accession: ENCLB600BSN
size range: <30

value: embryonic facial prominence

value: Embryonic facial prominence from embryonic 13.5 day mice

value: ENCBS847MIW at ENCODE; https://www.encodeproject.org/ENCBS847MIW/


title: ChIP-seq from forebrain (ENCLB144QWG)

description:
https://www.encodeproject.org/experiments/ENCSR556ZUY/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me1 ChIP-seq on embryonic 14.5 day mouse forebrain
experiment encode accession: ENCSR556ZUY
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR244YQD
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB144QWG
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap forebrain tissue mixed sex embryo (14.5 days)

value: forebrain

value: Forebrain from 24 embyonic 14.5 day mice

value: pooled male and female

value: ENCBS002AAA at ENCODE; https://www.encodeproject.org/ENCBS002AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from midbrain (ENCLB507BQU)

description:
https://www.encodeproject.org/experiments/ENCSR571WQI/
***************
biological replicate number: 2
technical replicate number: 1,2,3,4
description: H3K9me3 ChIP-seq on embryonic 16.5 day mouse midbrain. NOTE- Files associated with this experiment are undergoing additional review and analysis
experiment encode accession: ENCSR571WQI
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR817FFF
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB507BQU
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

source_name: Mus musculus strain B6NCrl midbrain tissue mixed sex embryo (16.5 days)

value: midbrain

value: tissue

value: Midbrain from 37 embryonic 16.5 day mice

value: healthy

value: ENCBS463JSE at ENCODE; https://www.encodeproject.org/ENCBS463JSE/


title: ChIP-seq from forebrain (ENCLB275CHS)

description:
https://www.encodeproject.org/experiments/ENCSR564XSR/
***************
biological replicate number: 1
technical replicate number: 2,1
description: H3K27me3 ChIP-seq on embryonic 15.5 day mouse forebrain
experiment encode accession: ENCSR564XSR
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR880HDV
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB275CHS
size range: 300-500

value: Forebrain from 78 embryonic 15.5 day mice

value: embryonic

value: ENCBS811RMD at ENCODE; https://www.encodeproject.org/ENCBS811RMD/


title: ChIP-seq from kidney (ENCLB285GKX)

description:
https://www.encodeproject.org/experiments/ENCSR564JKR/
***************
biological replicate number: 1
technical replicate number: 1,2
description: H3K27me3 ChIP-seq on postnatal 0 day mouse kidney
experiment encode accession: ENCSR564JKR
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR178MLS
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB285GKX
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: kidney

value: Kidney from 15 postnatal 0 day mice

value: 0 day

value: postnatal

value: Len Pennacchio, LBNL

value: ENCBS046AAA at ENCODE; https://www.encodeproject.org/ENCBS046AAA/


title: ChIP-seq from liver (ENCLB884FFZ)

description:
https://www.encodeproject.org/experiments/ENCSR569DBO/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K36me3 ChIP-seq on embryonic 16.5 day mouse liver
experiment encode accession: ENCSR569DBO
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR082JEN
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB884FFZ
size range: 300-500

source_name: Mus musculus strain B6NCrl liver tissue mixed sex embryo (16.5 days)

value: liver

value: Liver pooled from embyonic 16.5 day mice

value: pooled male and female

value: ENCBS236CDJ at ENCODE; https://www.encodeproject.org/ENCBS236CDJ/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from liver (ENCLB846YFR)

description:
https://www.encodeproject.org/experiments/ENCSR569DBO/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K36me3 ChIP-seq on embryonic 16.5 day mouse liver
experiment encode accession: ENCSR569DBO
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR082JEN
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB846YFR
size range: 300-500

value: tissue

value: Liver from 41 embyonic 16.5 day mice

value: ENCBS279BWR at ENCODE; https://www.encodeproject.org/ENCBS279BWR/


title: ChIP-seq from midbrain (ENCLB858JIE)

description:
https://www.encodeproject.org/experiments/ENCSR553IWV/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 16.5 day mouse midbrain
experiment encode accession: ENCSR553IWV
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR817FFF
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB858JIE
size range: 300-500

value: midbrain

value: Midbrain from 37 embryonic 16.5 day mice

value: healthy

value: ENCBS463JSE at ENCODE; https://www.encodeproject.org/ENCBS463JSE/


title: ChIP-seq from midbrain (ENCLB316QLF)

description:
https://www.encodeproject.org/experiments/ENCSR553IWV/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 16.5 day mouse midbrain
experiment encode accession: ENCSR553IWV
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR817FFF
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB316QLF
size range: 300-500

value: Midbrain pooled from embyonic 16.5 day mice

value: embryonic

value: ENCBS684MLE at ENCODE; https://www.encodeproject.org/ENCBS684MLE/


title: ChIP-seq from midbrain (ENCLB052JFK)

description:
https://www.encodeproject.org/experiments/ENCSR571WQI/
***************
biological replicate number: 1
technical replicate number: 1,2
description: H3K9me3 ChIP-seq on embryonic 16.5 day mouse midbrain. NOTE- Files associated with this experiment are undergoing additional review and analysis
experiment encode accession: ENCSR571WQI
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR817FFF
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB052JFK
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: Len Pennacchio, LBNL


title: microRNA-seq from neural tube (ENCLB212WQY)

description:
https://www.encodeproject.org/experiments/ENCSR553BCA/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq  on embryonic 11.5 day mouse neural tube
experiment encode accession: ENCSR553BCA
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB212WQY
size range: <30

source_name: Mus musculus strain B6NCrl neural tube tissue mixed sex embryo (11.5 days)

value: neural tube

value: Neural tube from 109 embyronic 11.5 day mice

value: ENCBS402TUS at ENCODE; https://www.encodeproject.org/ENCBS402TUS/


title: ChIP-seq from liver (ENCLB224UJO)

description:
https://www.encodeproject.org/experiments/ENCSR550QED/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27me3 ChIP-seq on embryonic 13.5 day mouse liver
experiment encode accession: ENCSR550QED
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR220PXJ
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB224UJO
size range: 300-500

source_name: Mus musculus strain B6NCrl liver tissue mixed sex embryo (13.5 days)

value: liver

value: Liver from embryonic 13.5 day mice

value: pooled male and female

value: ENCBS373XWZ at ENCODE; https://www.encodeproject.org/ENCBS373XWZ/


title: ChIP-seq from stomach (ENCLB252QZG)

description:
https://www.encodeproject.org/experiments/ENCSR548BKP/
***************
biological replicate number: 2
technical replicate number: 2,1
description: H3K4me1 ChIP-seq on embryonic 15.5 day mouse stomach
experiment encode accession: ENCSR548BKP
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR240XQT
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB252QZG
size range: 300-500

source_name: Mus musculus strain B6NCrl stomach tissue mixed sex embryo (15.5 days)

value: stomach

value: tissue

value: Stomach from 62 embryonic 15.5 day mice

value: ENCBS355TAQ at ENCODE; https://www.encodeproject.org/ENCBS355TAQ/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from liver (ENCLB953CEV)

description:
https://www.encodeproject.org/experiments/ENCSR550QED/
***************
biological replicate number: 1
technical replicate number: 2,1
description: H3K27me3 ChIP-seq on embryonic 13.5 day mouse liver
experiment encode accession: ENCSR550QED
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR220PXJ
encode release date: 2015-06-23
lab: Bing Ren, UCSD
library encode accession: ENCLB953CEV
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: healthy

value: ENCBS146FGW at ENCODE; https://www.encodeproject.org/ENCBS146FGW/


title: ChIP-seq from neural tube (ENCLB363WHH)

description:
https://www.encodeproject.org/experiments/ENCSR549RVJ/
***************
biological replicate number: 1
technical replicate number: 1,2
description: H3K9me3 ChIP-seq on embryonic 15.5 day mouse neural tube
experiment encode accession: ENCSR549RVJ
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR351BDM
encode release date: 2016-03-17
lab: Bing Ren, UCSD
library encode accession: ENCLB363WHH
size range: 300-500
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: Neural tube from 78 embryonic 15.5 day mice

value: embryonic

value: ENCBS944KEZ at ENCODE; https://www.encodeproject.org/ENCBS944KEZ/


title: ChIP-seq from neural tube (ENCLB090YJD)

description:
https://www.encodeproject.org/experiments/ENCSR549RVJ/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9me3 ChIP-seq on embryonic 15.5 day mouse neural tube
experiment encode accession: ENCSR549RVJ
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR351BDM
encode release date: 2016-03-17
lab: Bing Ren, UCSD
library encode accession: ENCLB090YJD
size range: 300-500

value: neural tube

value: Neural tube from 62 embryonic 15.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS206NRE at ENCODE; https://www.encodeproject.org/ENCBS206NRE/


title: microRNA-seq from neural tube (ENCLB250HWD)

description:
https://www.encodeproject.org/experiments/ENCSR553BCA/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq  on embryonic 11.5 day mouse neural tube
experiment encode accession: ENCSR553BCA
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-01-06
lab: Ali Mortazavi, UCI
library encode accession: ENCLB250HWD
size range: <30

value: Neural tube from 88 embyronic 11.5 day mice

value: ENCBS183YVD at ENCODE; https://www.encodeproject.org/ENCBS183YVD/


title: ChIP-seq from neural tube (ENCLB324HFX)

description:
https://www.encodeproject.org/experiments/ENCSR547PLI/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K9ac ChIP-seq on embryonic 11.5 day mouse neural tube
experiment encode accession: ENCSR547PLI
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR138YZB
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB324HFX
size range: 300-500

value: Neural tube from 109 embyronic 11.5 day mice

value: pooled male and female

value: ENCBS402TUS at ENCODE; https://www.encodeproject.org/ENCBS402TUS/


title: ChIP-seq from stomach (ENCLB481PXB)

description:
https://www.encodeproject.org/experiments/ENCSR548BKP/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me1 ChIP-seq on embryonic 15.5 day mouse stomach
experiment encode accession: ENCSR548BKP
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR240XQT
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB481PXB
size range: 300-500

value: stomach

value: tissue

value: Stomach from 78 embryonic 15.5 day mice

value: ENCBS915SZN at ENCODE; https://www.encodeproject.org/ENCBS915SZN/


title: ChIP-seq from stomach (ENCLB002OPS)

description:
https://www.encodeproject.org/experiments/ENCSR546ANT/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 16.5 day mouse stomach
experiment encode accession: ENCSR546ANT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR012BVY
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB002OPS
size range: 300-500

source_name: Mus musculus strain B6NCrl stomach tissue mixed sex embryo (16.5 days)

value: Stomach from 41 embyonic 16.5 day mice

value: healthy

value: ENCBS793TEW at ENCODE; https://www.encodeproject.org/ENCBS793TEW/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from forebrain (ENCLB891NHH)

description:
https://www.encodeproject.org/experiments/ENCSR556ZUY/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on embryonic 14.5 day mouse forebrain
experiment encode accession: ENCSR556ZUY
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR244YQD
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB891NHH
size range: 300-500

value: forebrain

value: Forebrain from 34 embryonic 14.5 day mice

value: embryonic

value: ENCBS014AAA at ENCODE; https://www.encodeproject.org/ENCBS014AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from stomach (ENCLB684CPT)

description:
https://www.encodeproject.org/experiments/ENCSR546ANT/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on embryonic 16.5 day mouse stomach
experiment encode accession: ENCSR546ANT
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR012BVY
encode release date: 2014-12-17
lab: Bing Ren, UCSD
library encode accession: ENCLB684CPT
size range: 300-500

value: Stomach pooled from embyonic 16.5 day mice

value: Len Pennacchio, LBNL

value: ENCBS243DCE at ENCODE; https://www.encodeproject.org/ENCBS243DCE/


title: DNase-seq from neural tube (ENCLB461YUM)

description:
https://www.encodeproject.org/experiments/ENCSR312QVY/
***************
biological replicate number: 1
technical replicate number: 1
description: DNase-seq on 11.5 day mixed embryonic mouse neural tube
experiment encode accession: ENCSR312QVY
assay title: DNase-seq
assembly: mm10
encode release date: 2015-09-14
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB461YUM
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

value: neural tube

value: pooled male and female

value: John Stamatoyannopoulos, UW

value: ENCBS089NKR at ENCODE; https://www.encodeproject.org/ENCBS089NKR/


title: DNase-seq from hindbrain (ENCLB464GCN)

description:
https://www.encodeproject.org/experiments/ENCSR358ESL/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on 11.5 day mixed embryonic mouse hindbrain
experiment encode accession: ENCSR358ESL
assay title: DNase-seq
assembly: mm10
encode release date: 2015-09-14
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB464GCN
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

source_name: Mus musculus strain B6NCrl hindbrain tissue mixed sex embryo (11.5 days)

value: hindbrain

value: tissue

value: ENCBS238KYO at ENCODE; https://www.encodeproject.org/ENCBS238KYO/


title: ChIP-seq from heart (ENCLB110JPV)

description:
https://www.encodeproject.org/experiments/ENCSR534HMF/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 14.5 day mouse heart
experiment encode accession: ENCSR534HMF
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR840PFW
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB110JPV
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap heart tissue mixed sex embryo (14.5 days)

value: heart

value: Heart from pooled embryonic 14.5 day mice

value: healthy

value: ENCBS563AAA at ENCODE; https://www.encodeproject.org/ENCBS563AAA/


title: ChIP-seq from heart (ENCLB475TYM)

description:
https://www.encodeproject.org/experiments/ENCSR519DNE/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K9ac ChIP-seq on postnatal 0 day mouse heart
experiment encode accession: ENCSR519DNE
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR334IOH
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB475TYM
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap heart tissue mixed sex postnatal (0 days)

value: Heart from 15 postnatal 0 day mice

value: 0 day

value: postnatal

value: ENCBS041AAA at ENCODE; https://www.encodeproject.org/ENCBS041AAA/


title: ChIP-seq from heart (ENCLB355BSZ)

description:
https://www.encodeproject.org/experiments/ENCSR534HMF/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 14.5 day mouse heart
experiment encode accession: ENCSR534HMF
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR840PFW
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB355BSZ
size range: 300-500

value: embryonic

value: Len Pennacchio, LBNL

value: ENCBS566AAA at ENCODE; https://www.encodeproject.org/ENCBS566AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from stomach (ENCLB274HHK)

description:
https://www.encodeproject.org/experiments/ENCSR522LXN/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 15.5 day mouse stomach
experiment encode accession: ENCSR522LXN
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR240XQT
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB274HHK
size range: 300-500

value: stomach

value: Stomach from 78 embryonic 15.5 day mice

value: pooled male and female

value: ENCBS915SZN at ENCODE; https://www.encodeproject.org/ENCBS915SZN/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from stomach (ENCLB895YHN)

description:
https://www.encodeproject.org/experiments/ENCSR522LXN/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on embryonic 15.5 day mouse stomach
experiment encode accession: ENCSR522LXN
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR240XQT
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB895YHN
size range: 300-500

value: tissue

value: Stomach from 62 embryonic 15.5 day mice

value: ENCBS355TAQ at ENCODE; https://www.encodeproject.org/ENCBS355TAQ/


title: DNase-seq from kidney (ENCLB995XTX)

description:
https://www.encodeproject.org/experiments/ENCSR066DPD/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR066DPD
assay title: DNase-seq
assembly: mm10-minimal
encode release date: 2016-05-11
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB995XTX
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

source_name: Mus musculus strain B6NCrl kidney tissue postnatal (0 days)

value: kidney

value: not collected

value: John Stamatoyannopoulos, UW

value: ENCBS883GDG at ENCODE; https://www.encodeproject.org/ENCBS883GDG/


title: DNase-seq from hindbrain (ENCLB978FUK)

description:
https://www.encodeproject.org/experiments/ENCSR179PIH/
***************
biological replicate number: 1
technical replicate number: 1
description: DNase-seq on 14.5 day embryonic mouse hindbrain
experiment encode accession: ENCSR179PIH
assay title: DNase-seq
assembly: mm10
encode release date: 2015-09-14
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB978FUK
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

source_name: Mus musculus strain B6NCrl hindbrain tissue mixed sex embryo (14.5 days)

value: hindbrain

value: healthy

value: ENCBS459NPN at ENCODE; https://www.encodeproject.org/ENCBS459NPN/


title: ChIP-seq from kidney (ENCLB215GCU)

description:
https://www.encodeproject.org/experiments/ENCSR536ILV/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on postnatal 0 day mouse kidney
experiment encode accession: ENCSR536ILV
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR178MLS
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB215GCU
size range: 300-500

value: Kidney from pooled postnatal 0 day mice

value: 0 day

value: postnatal

value: Len Pennacchio, LBNL

value: ENCBS562AAA at ENCODE; https://www.encodeproject.org/ENCBS562AAA/


title: ChIP-seq from neural tube (ENCLB383OOG)

description:
https://www.encodeproject.org/experiments/ENCSR517UZA/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 15.5 day mouse neural tube
experiment encode accession: ENCSR517UZA
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR351BDM
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB383OOG
size range: 300-500

source_name: Mus musculus strain B6NCrl neural tube tissue mixed sex embryo (15.5 days)

value: neural tube

value: Neural tube from 78 embryonic 15.5 day mice

value: embryonic

value: pooled male and female

value: ENCBS944KEZ at ENCODE; https://www.encodeproject.org/ENCBS944KEZ/


title: microRNA-seq from stomach (ENCLB620MTH)

description:
https://www.encodeproject.org/experiments/ENCSR538NTY/
***************
biological replicate number: 1
technical replicate number: 1
description: miRNA-seq  on postnatal 0 day mouse stomach
experiment encode accession: ENCSR538NTY
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-02-04
lab: Ali Mortazavi, UCI
library encode accession: ENCLB620MTH
size range: <30

source_name: Mus musculus strain B6NCrl stomach tissue postnatal (0 days)

value: stomach

value: tissue

value: 1 stomach from pup1 pregnant 1

value: Barbara Wold, Caltech

value: ENCBS762UVC at ENCODE; https://www.encodeproject.org/ENCBS762UVC/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: DNase-seq from lung (ENCLB698UTS)

description:
https://www.encodeproject.org/experiments/ENCSR094XAY/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR094XAY
assay title: DNase-seq
assembly: mm10
encode release date: 2016-05-11
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB698UTS

source_name: Mus musculus strain B6NCrl lung tissue postnatal (0 days)

value: lung

value: not collected

value: John Stamatoyannopoulos, UW

value: ENCBS740KJI at ENCODE; https://www.encodeproject.org/ENCBS740KJI/


title: microRNA-seq from stomach (ENCLB855QOK)

description:
https://www.encodeproject.org/experiments/ENCSR538NTY/
***************
biological replicate number: 2
technical replicate number: 1
description: miRNA-seq  on postnatal 0 day mouse stomach
experiment encode accession: ENCSR538NTY
assay title: microRNA-seq
assembly: mm10
encode release date: 2016-02-04
lab: Ali Mortazavi, UCI
library encode accession: ENCLB855QOK
size range: <30

value: 1 stomach from pup2 pregnant 1

value: 0 day

value: postnatal

value: ENCBS796AGC at ENCODE; https://www.encodeproject.org/ENCBS796AGC/


title: ChIP-seq from kidney (ENCLB456CMT)

description:
https://www.encodeproject.org/experiments/ENCSR536ILV/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on postnatal 0 day mouse kidney
experiment encode accession: ENCSR536ILV
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR178MLS
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB456CMT
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap kidney tissue mixed sex postnatal (0 days)

value: kidney

value: Kidney from 15 postnatal 0 day mice

value: healthy

value: Len Pennacchio, LBNL

value: ENCBS046AAA at ENCODE; https://www.encodeproject.org/ENCBS046AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from kidney (ENCLB998TMD)

description:
https://www.encodeproject.org/experiments/ENCSR516TYD/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on postnatal 0 day mouse kidney
experiment encode accession: ENCSR516TYD
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR178MLS
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB998TMD
size range: 300-500

value: tissue

value: Kidney from pooled postnatal 0 day mice

value: pooled male and female

value: ENCBS562AAA at ENCODE; https://www.encodeproject.org/ENCBS562AAA/


title: DNase-seq from kidney (ENCLB058DOR)

description:
https://www.encodeproject.org/experiments/ENCSR066DPD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR066DPD
assay title: DNase-seq
assembly: mm10-minimal
encode release date: 2016-05-11
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB058DOR

value: not collected

value: ENCBS794MWN at ENCODE; https://www.encodeproject.org/ENCBS794MWN/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: ChIP-seq from kidney (ENCLB137VME)

description:
https://www.encodeproject.org/experiments/ENCSR516TYD/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on postnatal 0 day mouse kidney
experiment encode accession: ENCSR516TYD
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR178MLS
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB137VME
size range: 300-500


title: ChIP-seq from limb (ENCLB038API)

description:
https://www.encodeproject.org/experiments/ENCSR529ERN/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me1 ChIP-seq on embryonic 14.5 day mouse limb
experiment encode accession: ENCSR529ERN
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR232EOO
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB038API
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap limb tissue mixed sex embryo (14.5 days)

value: limb

value: Limb from 24 embryonic 14.5 day mice

value: embryonic

value: ENCBS011AAA at ENCODE; https://www.encodeproject.org/ENCBS011AAA/


title: ChIP-seq from neural tube (ENCLB094SWF)

description:
https://www.encodeproject.org/experiments/ENCSR547PLI/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9ac ChIP-seq on embryonic 11.5 day mouse neural tube
experiment encode accession: ENCSR547PLI
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR138YZB
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB094SWF
size range: 300-500

value: neural tube

value: Neural tube from 88 embyronic 11.5 day mice

value: ENCBS183YVD at ENCODE; https://www.encodeproject.org/ENCBS183YVD/


title: ChIP-seq from midbrain (ENCLB848RQY)

description:
https://www.encodeproject.org/experiments/ENCSR525BTK/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on embryonic 15.5 day mouse midbrain
experiment encode accession: ENCSR525BTK
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR748XBE
encode release date: 2015-11-03
lab: Bing Ren, UCSD
library encode accession: ENCLB848RQY
size range: 300-500

source_name: Mus musculus strain B6NCrl midbrain tissue mixed sex embryo (15.5 days)

value: midbrain

value: Midbrain from 78 embryonic 15.5 day mice

value: healthy

value: Len Pennacchio, LBNL

value: ENCBS190ETJ at ENCODE; https://www.encodeproject.org/ENCBS190ETJ/


title: ChIP-seq from lung (ENCLB226CWT)

description:
https://www.encodeproject.org/experiments/ENCSR523IIH/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on postnatal 0 day mouse lung
experiment encode accession: ENCSR523IIH
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR241RIG
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB226CWT
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap lung tissue mixed sex postnatal (0 days)

value: lung

value: tissue

value: Lung from pooled postnatal 0 day mice

value: 0 day

value: postnatal

value: pooled male and female

value: ENCBS558AAA at ENCODE; https://www.encodeproject.org/ENCBS558AAA/

value: Derived from ENCODE donor ENCDO469XMJ; https://www.encodeproject.org/ENCDO469XMJ/


title: ChIP-seq from stomach (ENCLB827FXF)

description:
https://www.encodeproject.org/experiments/ENCSR516KLO/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K36me3 ChIP-seq on postnatal 0 day mouse stomach
experiment encode accession: ENCSR516KLO
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR050VUZ
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB827FXF
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap stomach tissue mixed sex postnatal (0 days)

value: stomach

value: Stomach from 15 postnatal 0 day mice

value: ENCBS045AAA at ENCODE; https://www.encodeproject.org/ENCBS045AAA/


title: ChIP-seq from stomach (ENCLB095QIE)

description:
https://www.encodeproject.org/experiments/ENCSR516KLO/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K36me3 ChIP-seq on postnatal 0 day mouse stomach
experiment encode accession: ENCSR516KLO
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR050VUZ
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB095QIE
size range: 300-500

value: Stomach from pooled postnatal 0 day mice

value: ENCBS561AAA at ENCODE; https://www.encodeproject.org/ENCBS561AAA/


title: DNase-seq from embryo (ENCLB033TJA)

description:
https://www.encodeproject.org/experiments/ENCSR723IXU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR723IXU
assay title: DNase-seq
assembly: mm10
encode release date: 2015-10-14
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB033TJA
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

source_name: Mus musculus strain B6NCrl embryo tissue mixed sex embryo (10 days)

value: embryo

value: 10 day

value: embryonic

value: John Stamatoyannopoulos, UW

value: ENCBS713RHR at ENCODE; https://www.encodeproject.org/ENCBS713RHR/

value: Derived from ENCODE donor ENCDO956IXV; https://www.encodeproject.org/ENCDO956IXV/


title: FLAG/HA-Dicer PAR-CLIP control kd, rep 2

city: Regensburg

first: Gerhard

last: Lehmann

address: Universitaetsstrasse 31

department: Biochemistry 1

country: Germany

institute: University of Regensburg

description:
Small RNA sequencing data.
Dicer-parclip_UB-kd_rep2
Processed data file: tRNA_counts.txt
Processed data file: tRNA_DESeq2_analysis.txt

data_processing:
Illumina HiSeq 2000 pipeline: HCS 2.2.38 / RTA 1.18.61/ Recipe Fragment: 1.5.14.0.
5' end as well as 3' end adapters were trimmed from sequenced reads using flexbar (v2.5).
Reads were collapsed so that PCR amplification biases could be eliminated.
The random 4mers at the 5' and 3' ends of the collapsed reads were trimmed.
Resulting reads were mapped against the hg19 genome using bwa mem (v0.7.12-r1039).
A custom script identified aligned reads with at least one RNA T:C transition that were used in part of our analysis.
The overlaps with annotated tRNAs of all reads, or of reads with at least one RNA T:C transition, were counted using the GenomicAlignment Bioconductor package.
Differential expression of tRNAs based on those counts was done using the DESeq2 Bioconductor package.
Genome_build: tRNA: gtRNAdb, hg19, status 2015-11
Genome_build: miRNAs: miRBase21
Supplementary_files_format_and_content: tRNA_counts.txt: Tab-delimited text file; Raw tRNA counts when mapping to hg19 and using reads with RNA T:C transitions.
Supplementary_files_format_and_content: tRNA_DESeq2_analysis.txt: Tab-delimited text file; DESeq2 results for all tRNAs.

organism: Homo sapiens

source_name: HEK293 FLAG/HA-Dicer cells, control knockdown

growth_protocol: HEK293 FLAG/HA-Dicer cells were cultivated in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum, 100 U/mL penicillin, and 100 mg/mL streptomycin. Cells were grown under standard conditions at 37°C in 5% CO2 atmosphere.

extract_protocol:
PAR-CLIP experiments were performed as described in Rybak-Wolf et al. 2014.
For generation of small RNA libraries, the following 3' adapter [5'-Phos-NNNNTGGAATTCTCGGGTGCCAAGG-Inv(dT)-3'] and 5' adapter (5'- GUUCAGAGUUCUACAGUCCGACGAUCNNNN-3'] were used.

treatment_protocol: Cells were reverse transfected with RNAiMax according to the manufacturer's instructions using 40 nM siRNA. Cells were expanded after 2 days and harvested at day 4 post-transfection. Induction of protein expression with 1 μg/ml doxycycline and labeling with 100 μM 4-thiouridine (4SU) was performed 9-12 h before crosslinking. Cells were treated additionally with 100 µM 4SU 4 h before crosslinking.

tag: cell type

value: HEK293 FLAG/HA-Dicer

tag: knockdown

value: control siRNA, S:r(UUGUCUUGCAUUCGACUAAU)dT, AS:r(UUAGUCGAAUGCAAGACAAU)dT

tag: affinity purification

value: anti-FLAG immunoprecipitation


title: ChIP-seq from neural tube (ENCLB466QRB)

description:
https://www.encodeproject.org/experiments/ENCSR511LWL/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9ac ChIP-seq on embryonic 14.5 day mouse neural tube
experiment encode accession: ENCSR511LWL
assay title: ChIP-seq
assembly: mm10
possible controls: ENCSR254WNU
encode release date: 2014-06-30
lab: Bing Ren, UCSD
library encode accession: ENCLB466QRB
size range: 300-500

source_name: Mus musculus strain B6NTac;B6NCrl/Lap neural tube tissue mixed sex embryo (14.5 days)

value: neural tube

value: tissue

value: Neural tube from 34 embryonic 14.5 day mice

value: pooled male and female

value: healthy

value: Len Pennacchio, LBNL

value: ENCBS025AAA at ENCODE; https://www.encodeproject.org/ENCBS025AAA/