title: single cell RNA-seq from cerebellar granule cell (ENCLB976CMA)

description:
https://www.encodeproject.org/experiments/ENCSR415JJO/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on excised cerebellar granule cells from a 20 year old human male
experiment encode accession: ENCSR415JJO
assay title: single cell RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB976CMA
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 30
nucleic acid starting quantity units: cell-equivalent

value: Control

value: cerebellar granule cell

value: Granule cells from a 20 year old male brain

value: 20 year

value: male

value: normal

value: Barbara Wold, Caltech

value: ENCBS122LNO at ENCODE; https://www.encodeproject.org/ENCBS122LNO/

value: Derived from ENCODE donor ENCDO377OGA; https://www.encodeproject.org/ENCDO377OGA/


title: single cell RNA-seq from cerebellar granule cell (ENCLB036TZY)

status: Public on Mar 18 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/ENCSR313IUO/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on excised cerebellar granule cells from a 6 year old human male
experiment encode accession: ENCSR313IUO
assay title: single cell RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB036TZY
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 30
nucleic acid starting quantity units: cell-equivalent

library_source: transcriptomic

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

molecule: total RNA

organism: Homo sapiens

source_name: Homo sapiens cerebellar granule primary cell male child (6 years)

tag: antibody

value: primary cell

tag: description

value: Granule cells from a 6 year old male brain

tag: biosample encode accession

tag: age

value: 6 year

tag: dev stage

value: child

tag: Sex

tag: health state

tag: lab

tag: link

value: ENCBS998GBF at ENCODE; https://www.encodeproject.org/ENCBS998GBF/

value: Derived from ENCODE donor ENCDO199IHW; https://www.encodeproject.org/ENCDO199IHW/


title: polyA mRNA RNA-seq from endothelial cell of umbilical vein (ENCLB555AVK)

description:
https://www.encodeproject.org/experiments/ENCSR000COZ/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on human HUVEC whole cell long polyA+ RNA
experiment encode accession: ENCSR000COZ
assay title: polyA mRNA RNA-seq
assembly: GRCh38, hg19
encode release date: 2011-10-17
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB555AVK
size range: >200
spikeins used: /references/ENCSR402QNO/

source_name: Homo sapiens endothelial of umbilical vein primary cell male newborn

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/fb66948b-8b40-4c13-8542-bd527137ad80/@@download/attachment/LID8464.pdf

value: endothelial cell of umbilical vein

value: umbilical vein endothelial cells

value: unknown

value: newborn

value: Thomas Gingeras, CSHL

value: ENCBS529ENC at ENCODE; https://www.encodeproject.org/ENCBS529ENC/

value: Derived from ENCODE donor ENCDO341AAA; https://www.encodeproject.org/ENCDO341AAA/

value: ENCODE dbxrefs HUVEC; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=HUVEC


title: total RNA-seq from CMP (ENCLB949CMQ)

description:
https://www.encodeproject.org/experiments/ENCSR767VHR/
***************
biological replicate number: 2
technical replicate number: 1
description: PSU mouse CMP RNA 100 cells RNA-seq
experiment encode accession: ENCSR767VHR
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Ross Hardison, PennState
library encode accession: ENCLB949CMQ
size range: >200
spikeins used: /references/ENCSR156CIL/, /references/ENCSR013YHQ/
nucleic acid starting quantity: 100
nucleic acid starting quantity units: cells

organism: Mus musculus

source_name: Mus musculus strain C57BL/6J CMP primary cell male adult (5-6 weeks)

value: CMP

value: common myeloid progenitor

value: 5-6 week

value: adult

value: male

value: Ross Hardison, PennState

value: ENCBS376WKD at ENCODE; https://www.encodeproject.org/ENCBS376WKD/

value: Derived from ENCODE donor ENCDO072AAA; https://www.encodeproject.org/ENCDO072AAA/


title: single cell RNA-seq from cerebellar granule cell (ENCLB392ZIG)

description:
https://www.encodeproject.org/experiments/ENCSR313IUO/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq on excised cerebellar granule cells from a 6 year old human male
experiment encode accession: ENCSR313IUO
assay title: single cell RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB392ZIG
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 30
nucleic acid starting quantity units: cell-equivalent

value: Control

value: cerebellar granule cell

value: primary cell

value: Granule cells from a 6 year old male brain

value: 6 year

value: child

value: normal

value: Barbara Wold, Caltech

value: ENCBS677XMX at ENCODE; https://www.encodeproject.org/ENCBS677XMX/

value: Derived from ENCODE donor ENCDO199IHW; https://www.encodeproject.org/ENCDO199IHW/


title: small RNA-seq from smooth muscle cell (ENCLB795WKJ)

description:
https://www.encodeproject.org/experiments/ENCSR250STJ/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from H9-derived embryonic stem cells that were differentiated down a smooth muscle pathway. They are stranded SE101 length Hi-Seq reads from rRNA-depleted Total RNA <200 nucleotides in size that was pretreated with Tobacco Acid Pyrophosphatase prior to cloning.
experiment encode accession: ENCSR250STJ
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-12-17
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB795WKJ
size range: <200

source_name: Homo sapiens smooth muscle in vitro differentiated cells female embryo (5 days) derived from H9

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/25ada545-6287-4500-b2ea-ba7ff1396bb6/@@download/attachment/LID294110.pdf

value: smooth muscle cell

value: in vitro differentiated cells

value: Frozen or fixed, in vitro differentiated smooth muscle cells from ES WA09 (H9) by the SESCC for use by the ENCODE consortia

value: 5 day

value: embryonic

value: female

value: healthy

value: Richard Myers, HAIB

value: ENCBS899TTJ at ENCODE; https://www.encodeproject.org/ENCBS899TTJ/

value: Derived from ENCODE donor ENCDO222AAA; https://www.encodeproject.org/ENCDO222AAA/


title: total RNA-seq from forebrain (ENCLB472TKY)

description:
https://www.encodeproject.org/experiments/ENCSR723SZV/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from independent isolates of forebrain tissue.  They are stranded PE101 Illumina Hi-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.
experiment encode accession: ENCSR723SZV
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB472TKY
size range: >200
spikeins used: /references/ENCSR156CIL/

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

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/df23959e-a00f-488b-a1a3-4c4f391d69eb/@@download/attachment/LID292122.pdf

value: forebrain

value: tissue

value: Forebrain from 15 postnatal 0 day mice

value: 0 day

value: postnatal

value: pooled male and female

value: Len Pennacchio, LBNL

value: ENCBS038AAA at ENCODE; https://www.encodeproject.org/ENCBS038AAA/

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


title: total RNA-seq from hindbrain (ENCLB483KDW)

description:
https://www.encodeproject.org/experiments/ENCSR749BAG/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from independent isolates of hindbrain tissue.  They are stranded PE101 Illumina Hi-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.
experiment encode accession: ENCSR749BAG
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB483KDW
size range: >200
spikeins used: /references/ENCSR402QNO/

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

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/541f9a94-fb29-469f-97c0-41d6ec84bb59/@@download/attachment/LID292126.pdf

value: hindbrain

value: Hindbrain from 15 postnatal 0 day mice

value: ENCBS040AAA at ENCODE; https://www.encodeproject.org/ENCBS040AAA/


title: total RNA-seq from forebrain (ENCLB205GFI)

description:
https://www.encodeproject.org/experiments/ENCSR723SZV/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from independent isolates of forebrain tissue.  They are stranded PE101 Illumina Hi-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.
experiment encode accession: ENCSR723SZV
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB205GFI
size range: >200
spikeins used: /references/ENCSR156CIL/

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/b07486bf-59a9-4485-9e97-37d73b01ea87/@@download/attachment/LID292123.pdf

value: Forebrain of pooled postnatal 0 day mice

value: ENCBS554AAA at ENCODE; https://www.encodeproject.org/ENCBS554AAA/


title: single cell RNA-seq from Purkinje cell (ENCLB619TYA)

description:
https://www.encodeproject.org/experiments/ENCSR244DNF/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 20 year old human male
experiment encode accession: ENCSR244DNF
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR888LYA
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB619TYA
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

source_name: Homo sapiens Purkinje primary cell male adult (20 years)

value: Purkinje cell

value: primary cell

value: Single Purkinje cell from a 20 year old male brain, part of a set of 20 cells

value: 20 year

value: adult

value: male

value: normal

value: Barbara Wold, Caltech

value: ENCBS494BDG at ENCODE; https://www.encodeproject.org/ENCBS494BDG/

value: Derived from ENCODE donor ENCDO377OGA; https://www.encodeproject.org/ENCDO377OGA/


title: total RNA-seq from MEP (ENCLB280RYO)

description:
https://www.encodeproject.org/experiments/ENCSR549QME/
***************
biological replicate number: 2
technical replicate number: 1
description: PSU mouse MEP RNA 100 cells RNA-seq
experiment encode accession: ENCSR549QME
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Ross Hardison, PennState
library encode accession: ENCLB280RYO
size range: >200
spikeins used: /references/ENCSR156CIL/, /references/ENCSR013YHQ/
nucleic acid starting quantity: 100
nucleic acid starting quantity units: cells

source_name: Mus musculus strain C57BL/6J MEP primary cell male adult (5-6 weeks)

value: MEP

value: megakaryocyte-erythroid progenitor cell

value: 5-6 week

value: unknown

value: Ross Hardison, PennState

value: ENCBS730RBL at ENCODE; https://www.encodeproject.org/ENCBS730RBL/

value: Derived from ENCODE donor ENCDO072AAA; https://www.encodeproject.org/ENCDO072AAA/


title: total RNA-seq from MEP (ENCLB376VBB)

description:
https://www.encodeproject.org/experiments/ENCSR549QME/
***************
biological replicate number: 1
technical replicate number: 1
description: PSU mouse MEP RNA 100 cells RNA-seq
experiment encode accession: ENCSR549QME
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Ross Hardison, PennState
library encode accession: ENCLB376VBB
size range: >200
spikeins used: /references/ENCSR156CIL/, /references/ENCSR013YHQ/
nucleic acid starting quantity: 100
nucleic acid starting quantity units: cells

value: ENCBS097BDW at ENCODE; https://www.encodeproject.org/ENCBS097BDW/


title: total RNA-seq from hematopoietic stem cell (ENCLB584NLR)

description:
https://www.encodeproject.org/experiments/ENCSR236ZIE/
***************
biological replicate number: 2
technical replicate number: 1
description: PSU mouse HSC 100 cells RNA-seq
experiment encode accession: ENCSR236ZIE
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Ross Hardison, PennState
library encode accession: ENCLB584NLR
size range: >200
spikeins used: /references/ENCSR156CIL/, /references/ENCSR013YHQ/
nucleic acid starting quantity: 100
nucleic acid starting quantity units: cells

source_name: Mus musculus strain C57BL/6J hematopoietic stem cell male adult (5-6 weeks)

value: hematopoietic stem cell

value: stem cell

value: Hematopoietic stem cell (HSC)

value: ENCBS740ZAY at ENCODE; https://www.encodeproject.org/ENCBS740ZAY/


title: small RNA-seq from NCI-H460 (ENCLB050YLP)

description:
https://www.encodeproject.org/experiments/ENCSR211PJW/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from nuclear fractions of immortalized cell line NCI-H460 derived from a large cell lung carcinoma of a 37 year old male.  They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted TAP pretreated Total RNA < 200 nucleotides in size.
experiment encode accession: ENCSR211PJW
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-12-17
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB050YLP
size range: <200

source_name: Homo sapiens NCI-H460 immortalized cell line nuclear fraction

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/646d16cd-411d-425e-885a-f9516cca529d/@@download/attachment/LID293587.pdf

tag: line

value: immortalized cell line

value: Epithelial-like large cell lung carcinoma immortalized cells from a 37 year old male.

value: 37 year

value: adult

value: male

value: Thomas Gingeras, CSHL

tag: subcellular fraction term name

value: nucleus

value: ENCBS446PPO at ENCODE; https://www.encodeproject.org/ENCBS446PPO/

value: Derived from ENCODE donor ENCDO337AAA; https://www.encodeproject.org/ENCDO337AAA/

value: ENCODE dbxrefs Cellosaurus CVCL_0459; http://web.expasy.org/cellosaurus/CVCL_0459

value: ATCC sample source; http://www.atcc.org/products/all/HTB-177.aspx


title: total RNA-seq from midbrain (ENCLB355PVM)

description:
https://www.encodeproject.org/experiments/ENCSR255SDF/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from independent isolates of midbrain tissue.  They are stranded PE101 Illumina Hi-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.
experiment encode accession: ENCSR255SDF
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB355PVM
size range: >200
spikeins used: /references/ENCSR156CIL/

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

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/f0cc2e0f-5582-48cd-b775-5e8e385a00f1/@@download/attachment/LID292124.pdf

value: midbrain

value: tissue

value: Midbrain from 15 postnatal 0 day mice

value: 0 day

value: postnatal

value: pooled male and female

value: healthy

value: Len Pennacchio, LBNL

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

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


title: total RNA-seq from midbrain (ENCLB536RCP)

description:
https://www.encodeproject.org/experiments/ENCSR255SDF/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from independent isolates of midbrain tissue.  They are stranded PE101 Illumina Hi-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.
experiment encode accession: ENCSR255SDF
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB536RCP
size range: >200
spikeins used: /references/ENCSR156CIL/

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/d10020b8-aded-4ed7-9064-039968568f28/@@download/attachment/LID292125.pdf

value: Midbrain from pooled postnatal 0 day mice

value: ENCBS555AAA at ENCODE; https://www.encodeproject.org/ENCBS555AAA/


title: total RNA-seq from G1E-ER4 (ENCLB806ISB)

description:
https://www.encodeproject.org/experiments/ENCSR181KQJ/
***************
biological replicate number: 1
technical replicate number: 1
description: PSU mouse G1E-ER4+E2 RNA RNA-seq
experiment encode accession: ENCSR181KQJ
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-11-20
lab: Ross Hardison, PennState
library encode accession: ENCLB806ISB
size range: >200
spikeins used: /references/ENCSR156CIL/, /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: ng

source_name: Mus musculus strain C57BL/6J G1E-ER4 immortalized cell line treated with 10 nM 17beta-estradiol for 24 hours

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/73547e04-fa47-41ac-8f6e-6b2664621dfd/@@download/attachment/IsolationOfTotalRnaAndLibraryPrepFromG1eAndEr4.pdf

value: immortalized cell line

value: Gata1 restored erythroid cells, differentiation induced by estradiol (E2)

value: male

tag: treatments

value: treatment_term_id:CHEBI:16469; treatment_term_name:17beta-estradiol; treatment_type:chemical; duration:24; duration_units:hour; UCSC-ENCODE-cv:diffProtD_24hr;

value: Ross Hardison, PennState

value: ENCBS158MXR at ENCODE; https://www.encodeproject.org/ENCBS158MXR/

value: Derived from ENCODE donor ENCDO072AAA; https://www.encodeproject.org/ENCDO072AAA/

value: ENCODE dbxrefs Cellosaurus CVCL_D047; http://web.expasy.org/cellosaurus/CVCL_D047


title: total RNA-seq from hematopoietic stem cell (ENCLB818JZG)

description:
https://www.encodeproject.org/experiments/ENCSR236ZIE/
***************
biological replicate number: 1
technical replicate number: 1
description: PSU mouse HSC 100 cells RNA-seq
experiment encode accession: ENCSR236ZIE
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Ross Hardison, PennState
library encode accession: ENCLB818JZG
size range: >200
spikeins used: /references/ENCSR156CIL/, /references/ENCSR013YHQ/
nucleic acid starting quantity: 100
nucleic acid starting quantity units: cells

value: hematopoietic stem cell

value: stem cell

value: Hematopoietic stem cell (HSC)

value: 5-6 week

value: adult

value: ENCBS134XRL at ENCODE; https://www.encodeproject.org/ENCBS134XRL/


title: total RNA-seq from G1E-ER4 (ENCLB003LKL)

description:
https://www.encodeproject.org/experiments/ENCSR181KQJ/
***************
biological replicate number: 2
technical replicate number: 1
description: PSU mouse G1E-ER4+E2 RNA RNA-seq
experiment encode accession: ENCSR181KQJ
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-11-20
lab: Ross Hardison, PennState
library encode accession: ENCLB003LKL
size range: >200
spikeins used: /references/ENCSR156CIL/, /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: ng

value: 0 day

value: postnatal

value: ENCBS214CAT at ENCODE; https://www.encodeproject.org/ENCBS214CAT/


title: total RNA-seq from CMP (ENCLB452HTA)

description:
https://www.encodeproject.org/experiments/ENCSR767VHR/
***************
biological replicate number: 1
technical replicate number: 1
description: PSU mouse CMP RNA 100 cells RNA-seq
experiment encode accession: ENCSR767VHR
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Ross Hardison, PennState
library encode accession: ENCLB452HTA
size range: >200
spikeins used: /references/ENCSR156CIL/, /references/ENCSR013YHQ/
nucleic acid starting quantity: 100
nucleic acid starting quantity units: cells

value: CMP

value: primary cell

value: common myeloid progenitor

value: unknown

value: ENCBS608AAV at ENCODE; https://www.encodeproject.org/ENCBS608AAV/


title: small RNA-seq from NCI-H460 (ENCLB448JHA)

description:
https://www.encodeproject.org/experiments/ENCSR211PJW/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from nuclear fractions of immortalized cell line NCI-H460 derived from a large cell lung carcinoma of a 37 year old male.  They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted TAP pretreated Total RNA < 200 nucleotides in size.
experiment encode accession: ENCSR211PJW
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-12-17
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB448JHA
size range: <200

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/3387a004-5d57-44aa-89af-698779e8eb04/@@download/attachment/LID293588.pdf

value: immortalized cell line

value: Epithelial-like large cell lung carcinoma immortalized cells from a 37 year old male.

value: 37 year

value: male

value: Thomas Gingeras, CSHL

value: nucleus

value: ENCBS641PGO at ENCODE; https://www.encodeproject.org/ENCBS641PGO/

value: Derived from ENCODE donor ENCDO337AAA; https://www.encodeproject.org/ENCDO337AAA/

value: ENCODE dbxrefs Cellosaurus CVCL_0459; http://web.expasy.org/cellosaurus/CVCL_0459

value: ATCC sample source; http://www.atcc.org/products/all/HTB-177.aspx


title: total RNA-seq from heart (ENCLB647WTP)

description:
https://www.encodeproject.org/experiments/ENCSR035DLJ/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from independent isolates of heart tissue.  They are stranded PE101 Illumina Hi-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.
experiment encode accession: ENCSR035DLJ
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB647WTP
size range: >200
spikeins used: /references/ENCSR156CIL/

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

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/c596bb13-d42b-48c6-8e89-1abb223abda7/@@download/attachment/LID292129.pdf

value: heart

value: tissue

value: Heart from pooled postnatal 0 day mice

value: 0 day

value: postnatal

value: pooled male and female

value: healthy

value: Len Pennacchio, LBNL

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

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


title: total RNA-seq from heart (ENCLB257VHA)

description:
https://www.encodeproject.org/experiments/ENCSR035DLJ/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from independent isolates of heart tissue.  They are stranded PE101 Illumina Hi-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.
experiment encode accession: ENCSR035DLJ
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB257VHA
size range: >200
spikeins used: /references/ENCSR156CIL/

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/01d4723f-052f-4785-b160-98456b4bc059/@@download/attachment/LID292128.pdf

value: Heart from 15 postnatal 0 day mice

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


title: single cell RNA-seq from GM12878 (ENCLB206JYT)

description:
https://www.encodeproject.org/experiments/ENCSR184CWK/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single GM12878 cell
experiment encode accession: ENCSR184CWK
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR673UIY
encode release date: 2014-06-30
lab: Barbara Wold, Caltech
library encode accession: ENCLB206JYT
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

source_name: Homo sapiens GM12878 immortalized cell line

extract_protocol:
general protocol: https://www.encodeproject.org/documents/e3110414-4013-425e-94f6-72c549702bde/@@download/attachment/Supplemental_Material.pdf
extraction method: None

value: immortalized cell line

value: Single GM12878 cell, part of a set of 10

value: unknown

value: adult

value: female

value: Barbara Wold, Caltech

value: ENCBS381VEV at ENCODE; https://www.encodeproject.org/ENCBS381VEV/

value: Derived from ENCODE donor ENCDO000AAK; https://www.encodeproject.org/ENCDO000AAK/

value: ENCODE dbxrefs Cellosaurus CVCL_7526; http://web.expasy.org/cellosaurus/CVCL_7526

value: Coriell sample source; http://ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref=GM12878&PgId=166


title: total RNA-seq from CH12.LX (ENCLB905ZSM)

description:
https://www.encodeproject.org/experiments/ENCSR000CWD/
***************
biological replicate number: 2
technical replicate number: 1
description: Stanford mouse CH12 RNA-seq
experiment encode accession: ENCSR000CWD
assay title: total RNA-seq
assembly: mm10
encode release date: 2012-06-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB905ZSM
size range: 300-350

source_name: Mus musculus strain B10.H-2aH-4bp/Wts CH12.LX immortalized cell line

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/6f6a5d8c-0b06-4457-bfbb-ee4944eab1d6/@@download/attachment/wgEncodeSydhRnaSeq.release2.html.pdf

value: B-cell lymphoma

value: Michael Snyder, Stanford

value: ENCBS076QIH at ENCODE; https://www.encodeproject.org/ENCBS076QIH/

value: Derived from ENCODE donor ENCDO324YEK; https://www.encodeproject.org/ENCDO324YEK/

value: ENCODE dbxrefs Cellosaurus CVCL_0211; http://web.expasy.org/cellosaurus/CVCL_0211

value: ENCODE dbxrefs CH12; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=CH12


title: single cell RNA-seq from Purkinje cell (ENCLB204VYG)

description:
https://www.encodeproject.org/experiments/ENCSR157NLF/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on 30 cell pools of excised Purkinje cells from a 20 year old human male
experiment encode accession: ENCSR157NLF
assay title: single cell RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB204VYG
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 30
nucleic acid starting quantity units: cells

value: Control

value: Purkinje cell

value: primary cell

value: 30 Purkinje cells from a 20 year old male brain

value: 20 year

value: male

value: normal

value: ENCBS860IIZ at ENCODE; https://www.encodeproject.org/ENCBS860IIZ/

value: Derived from ENCODE donor ENCDO377OGA; https://www.encodeproject.org/ENCDO377OGA/


title: total RNA-seq from CH12.LX (ENCLB585MDA)

description:
https://www.encodeproject.org/experiments/ENCSR000CWD/
***************
biological replicate number: 1
technical replicate number: 1
description: Stanford mouse CH12 RNA-seq
experiment encode accession: ENCSR000CWD
assay title: total RNA-seq
assembly: mm10
encode release date: 2012-06-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB585MDA
size range: 300-350

value: immortalized cell line

value: unknown

value: female

value: ENCBS912CAS at ENCODE; https://www.encodeproject.org/ENCBS912CAS/


title: total RNA-seq from CH12.LX (ENCLB003NLT)

description:
https://www.encodeproject.org/experiments/ENCSR000AJV/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on CH12 greater than 200bp polyA+
experiment encode accession: ENCSR000AJV
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB003NLT
size range: >200
spikeins used: /references/ENCSR470JZL/

extract_protocol:
data sheet: https://www.encodeproject.org/documents/28fef8e0-e171-450d-b66d-e3d199531cf2/@@download/attachment/Ambion-ERCC-Mix1.pdf
extraction method: see document
general protocol: https://www.encodeproject.org/documents/22bea5fd-58e7-4913-b9b3-2e080534b105/@@download/attachment/SID38133.pdf

value: B-cell lymphoma (GM12878 analog)

value: Thomas Gingeras, CSHL

value: ENCBS092RNA at ENCODE; https://www.encodeproject.org/ENCBS092RNA/


title: small RNA-seq from smooth muscle cell (ENCLB875QBG)

description:
https://www.encodeproject.org/experiments/ENCSR250STJ/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from H9-derived embryonic stem cells that were differentiated down a smooth muscle pathway. They are stranded SE101 length Hi-Seq reads from rRNA-depleted Total RNA <200 nucleotides in size that was pretreated with Tobacco Acid Pyrophosphatase prior to cloning.
experiment encode accession: ENCSR250STJ
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-12-17
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB875QBG
size range: <200

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/42f505c8-3ddb-4ac4-b38b-90ddea39a661/@@download/attachment/LID294109.pdf

value: smooth muscle cell

value: in vitro differentiated cells

value: Frozen or fixed, in vitro differentiated smooth muscle cells from ES WA09 (H9) by the SESCC for use by the ENCODE consortia

value: 5 day

value: embryonic

value: healthy

value: Richard Myers, HAIB

value: ENCBS780PCJ at ENCODE; https://www.encodeproject.org/ENCBS780PCJ/

value: Derived from ENCODE donor ENCDO222AAA; https://www.encodeproject.org/ENCDO222AAA/


title: single cell RNA-seq from pyramidal cell (ENCLB532KHK)

description:
https://www.encodeproject.org/experiments/ENCSR137RHZ/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on 30 cell pools of excised pyramidal cells from a 27 year old human male
experiment encode accession: ENCSR137RHZ
assay title: single cell RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB532KHK
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 30
nucleic acid starting quantity units: cells

source_name: Homo sapiens pyramidal primary cell male adult (27 years)

value: Control

value: pyramidal cell

value: primary cell

value: 30 pyramid cells from a 27 year old male brain

value: 27 year

value: adult

value: male

value: normal

value: Barbara Wold, Caltech

value: ENCBS009SRE at ENCODE; https://www.encodeproject.org/ENCBS009SRE/

value: Derived from ENCODE donor ENCDO294JWP; https://www.encodeproject.org/ENCDO294JWP/


title: single cell RNA-seq from Purkinje cell (ENCLB710XHU)

description:
https://www.encodeproject.org/experiments/ENCSR231WUP/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 20 year old human male
experiment encode accession: ENCSR231WUP
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR888LYA
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB710XHU
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: Purkinje cell

value: Single Purkinje cell from a 20 year old male brain, part of a set of 20 cells

value: 20 year

value: ENCBS071NUT at ENCODE; https://www.encodeproject.org/ENCBS071NUT/

value: Derived from ENCODE donor ENCDO377OGA; https://www.encodeproject.org/ENCDO377OGA/


title: total RNA-seq from hindbrain (ENCLB607GBQ)

description:
https://www.encodeproject.org/experiments/ENCSR749BAG/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from independent isolates of hindbrain tissue.  They are stranded PE101 Illumina Hi-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.
experiment encode accession: ENCSR749BAG
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-09-03
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB607GBQ
size range: >200
spikeins used: /references/ENCSR402QNO/

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/51ed0713-33b6-4313-96d5-d46416ab8f67/@@download/attachment/LID292127.pdf

value: hindbrain

value: tissue

value: Hindbrain from pooled postnatal 0 day mice

value: 0 day

value: postnatal

value: pooled male and female

value: healthy

value: Len Pennacchio, LBNL

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

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


title: total RNA-seq from liver (ENCLB001NLT)

description:
https://www.encodeproject.org/experiments/ENCSR000AJU/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on 8 week mouse total liver greater than 200bp from total RNA.
experiment encode accession: ENCSR000AJU
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB001NLT
size range: >200
spikeins used: /references/ENCSR470JZL/

source_name: Mus musculus strain C57BL/6J liver tissue adult (8 weeks)

extract_protocol:
data sheet: https://www.encodeproject.org/documents/28fef8e0-e171-450d-b66d-e3d199531cf2/@@download/attachment/Ambion-ERCC-Mix1.pdf
extraction method: see document
general protocol: https://www.encodeproject.org/documents/b370cb15-f384-4c00-a504-ab147cf9f83f/@@download/attachment/SID38135.pdf

value: liver

value: Liver

value: 8 week

value: adult

value: not collected

value: unknown

value: Thomas Gingeras, CSHL

value: ENCBS094RNA at ENCODE; https://www.encodeproject.org/ENCBS094RNA/

value: Derived from ENCODE donor ENCDO072AAA; https://www.encodeproject.org/ENCDO072AAA/


title: total RNA-seq from CH12.LX (ENCLB002NLT)

description:
https://www.encodeproject.org/experiments/ENCSR000AJV/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq on CH12 greater than 200bp polyA+
experiment encode accession: ENCSR000AJV
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB002NLT
size range: >200
spikeins used: /references/ENCSR470JZL/

extract_protocol:
data sheet: https://www.encodeproject.org/documents/28fef8e0-e171-450d-b66d-e3d199531cf2/@@download/attachment/Ambion-ERCC-Mix1.pdf
extraction method: see document
general protocol: https://www.encodeproject.org/documents/dab6cf45-a9c3-4820-bdb3-7b5505e2646e/@@download/attachment/SID38132.pdf

value: immortalized cell line

value: B-cell lymphoma (GM12878 analog)

value: female

value: ENCBS091RNA at ENCODE; https://www.encodeproject.org/ENCBS091RNA/

value: Derived from ENCODE donor ENCDO324YEK; https://www.encodeproject.org/ENCDO324YEK/

value: ENCODE dbxrefs Cellosaurus CVCL_0211; http://web.expasy.org/cellosaurus/CVCL_0211

value: ENCODE dbxrefs CH12; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=CH12


title: total RNA-seq from liver (ENCLB000NLT)

description:
https://www.encodeproject.org/experiments/ENCSR000AJU/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq on 8 week mouse total liver greater than 200bp from total RNA.
experiment encode accession: ENCSR000AJU
assay title: total RNA-seq
assembly: mm10
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB000NLT
size range: >200
spikeins used: /references/ENCSR470JZL/

extract_protocol:
data sheet: https://www.encodeproject.org/documents/28fef8e0-e171-450d-b66d-e3d199531cf2/@@download/attachment/Ambion-ERCC-Mix1.pdf
extraction method: see document
general protocol: https://www.encodeproject.org/documents/acbab50b-520a-4e34-8744-5197071b7bf1/@@download/attachment/SID38134.pdf

value: tissue

value: ENCBS093RNA at ENCODE; https://www.encodeproject.org/ENCBS093RNA/


title: single cell RNA-seq from pyramidal cell (ENCLB928LID)

description:
https://www.encodeproject.org/experiments/ENCSR137RHZ/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq on 30 cell pools of excised pyramidal cells from a 27 year old human male
experiment encode accession: ENCSR137RHZ
assay title: single cell RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB928LID
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 30
nucleic acid starting quantity units: cells

value: Control

value: pyramidal cell

value: primary cell

value: 30 pyramid cells from a 27 year old male brain

value: 27 year

value: male

value: normal

value: Barbara Wold, Caltech

value: ENCBS919MHE at ENCODE; https://www.encodeproject.org/ENCBS919MHE/

value: Derived from ENCODE donor ENCDO294JWP; https://www.encodeproject.org/ENCDO294JWP/


title: single cell RNA-seq from Purkinje cell (ENCLB133ICO)

description:
https://www.encodeproject.org/experiments/ENCSR980SWK/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR980SWK
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB133ICO
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

source_name: Mus musculus strain B6CASTF1/J Purkinje primary cell male adult (14 months)

value: Purkinje cell

value: 14 month

value: adult

value: ENCBS391QVH at ENCODE; https://www.encodeproject.org/ENCBS391QVH/

value: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/


title: single cell RNA-seq from Purkinje cell (ENCLB036AMX)

description:
https://www.encodeproject.org/experiments/ENCSR775HGC/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR775HGC
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB036AMX
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: ENCBS980NTB at ENCODE; https://www.encodeproject.org/ENCBS980NTB/


title: single cell RNA-seq from Purkinje cell (ENCLB218HBM)

description:
https://www.encodeproject.org/experiments/ENCSR124ERY/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 20 year old human male
experiment encode accession: ENCSR124ERY
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR888LYA
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB218HBM
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: Single Purkinje cell from a 20 year old male brain, part of a set of 20 cells

value: 20 year

value: ENCBS659QZJ at ENCODE; https://www.encodeproject.org/ENCBS659QZJ/

value: Derived from ENCODE donor ENCDO377OGA; https://www.encodeproject.org/ENCDO377OGA/


title: single cell RNA-seq from Purkinje cell (ENCLB193ILA)

description:
https://www.encodeproject.org/experiments/ENCSR789RPP/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR789RPP
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB193ILA
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: primary cell

value: ENCBS107DCX at ENCODE; https://www.encodeproject.org/ENCBS107DCX/


title: single cell RNA-seq from Purkinje cell (ENCLB729FQY)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 5
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB729FQY
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: Control

value: male

value: ENCBS387FIK at ENCODE; https://www.encodeproject.org/ENCBS387FIK/


title: single cell RNA-seq from Purkinje cell (ENCLB552DLJ)

description:
https://www.encodeproject.org/experiments/ENCSR101GVL/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 20 year old human male
experiment encode accession: ENCSR101GVL
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR888LYA
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB552DLJ
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: normal

value: Barbara Wold, Caltech

value: ENCBS636AQY at ENCODE; https://www.encodeproject.org/ENCBS636AQY/


title: single cell RNA-seq from Purkinje cell (ENCLB364NZB)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 9
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB364NZB
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: Purkinje cell

value: 14 month

value: ENCBS980LDZ at ENCODE; https://www.encodeproject.org/ENCBS980LDZ/


title: single cell RNA-seq from Purkinje cell (ENCLB442ZCO)

description:
https://www.encodeproject.org/experiments/ENCSR726VVO/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR726VVO
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB442ZCO
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: adult

value: ENCBS333FZN at ENCODE; https://www.encodeproject.org/ENCBS333FZN/

value: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/


title: single cell RNA-seq from Purkinje cell (ENCLB580JUS)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 11
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB580JUS
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: ENCBS313XXN at ENCODE; https://www.encodeproject.org/ENCBS313XXN/


title: single cell RNA-seq from Purkinje cell (ENCLB461BIJ)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 10
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB461BIJ
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: ENCBS007DRR at ENCODE; https://www.encodeproject.org/ENCBS007DRR/


title: single cell RNA-seq from Purkinje cell (ENCLB915IHV)

description:
https://www.encodeproject.org/experiments/ENCSR157NLF/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq on 30 cell pools of excised Purkinje cells from a 20 year old human male
experiment encode accession: ENCSR157NLF
assay title: single cell RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB915IHV
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 30
nucleic acid starting quantity units: cells

value: 30 Purkinje cells from a 20 year old male brain

value: 20 year

value: ENCBS503XXB at ENCODE; https://www.encodeproject.org/ENCBS503XXB/

value: Derived from ENCODE donor ENCDO377OGA; https://www.encodeproject.org/ENCDO377OGA/


title: single cell RNA-seq from GM12878 (ENCLB319PGU)

description:
https://www.encodeproject.org/experiments/ENCSR000AJH/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single GM12878 cell
experiment encode accession: ENCSR000AJH
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR673UIY
encode release date: 2014-06-30
lab: Barbara Wold, Caltech
library encode accession: ENCLB319PGU
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: immortalized cell line

value: Single GM12878 cell, part of a set of 10

value: unknown

value: female

value: ENCBS036HXX at ENCODE; https://www.encodeproject.org/ENCBS036HXX/

value: Derived from ENCODE donor ENCDO000AAK; https://www.encodeproject.org/ENCDO000AAK/

value: ENCODE dbxrefs Cellosaurus CVCL_7526; http://web.expasy.org/cellosaurus/CVCL_7526

value: Coriell sample source; http://ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref=GM12878&PgId=166


title: single cell RNA-seq from Purkinje cell (ENCLB981WTU)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 8
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB981WTU
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: Control

value: Purkinje cell

value: primary cell

value: 14 month

value: adult

value: male

value: Barbara Wold, Caltech

value: ENCBS689OWR at ENCODE; https://www.encodeproject.org/ENCBS689OWR/


title: single cell RNA-seq from Purkinje cell (ENCLB714KUY)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB714KUY
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: ENCBS297ITF at ENCODE; https://www.encodeproject.org/ENCBS297ITF/

value: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/


title: single cell RNA-seq from GM12878 (ENCLB868NQU)

description:
https://www.encodeproject.org/experiments/ENCSR000AJF/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single GM12878 cell
experiment encode accession: ENCSR000AJF
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR673UIY
encode release date: 2014-06-30
lab: Barbara Wold, Caltech
library encode accession: ENCLB868NQU
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: immortalized cell line

value: Single GM12878 cell, part of a set of 10

value: ENCBS158BMT at ENCODE; https://www.encodeproject.org/ENCBS158BMT/


title: single cell RNA-seq from Purkinje cell (ENCLB641KNK)

description:
https://www.encodeproject.org/experiments/ENCSR086PHI/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 20 year old human male
experiment encode accession: ENCSR086PHI
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR888LYA
encode release date: 2014-07-07
lab: Barbara Wold, Caltech
library encode accession: ENCLB641KNK
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: Single Purkinje cell from a 20 year old male brain, part of a set of 20 cells

value: 20 year

value: normal

value: ENCBS931OGX at ENCODE; https://www.encodeproject.org/ENCBS931OGX/

value: Derived from ENCODE donor ENCDO377OGA; https://www.encodeproject.org/ENCDO377OGA/


title: single cell RNA-seq from Purkinje cell (ENCLB751POF)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 4
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB751POF
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: Control

value: Purkinje cell

value: ENCBS194DCO at ENCODE; https://www.encodeproject.org/ENCBS194DCO/


title: single cell RNA-seq from Purkinje cell (ENCLB204EWE)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 3
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB204EWE
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: primary cell

value: 14 month

value: adult

value: ENCBS251NNJ at ENCODE; https://www.encodeproject.org/ENCBS251NNJ/


title: single cell RNA-seq from GM12878 (ENCLB267CXI)

description:
https://www.encodeproject.org/experiments/ENCSR000AJE/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single GM12878 cell
experiment encode accession: ENCSR000AJE
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR673UIY
encode release date: 2014-06-30
lab: Barbara Wold, Caltech
library encode accession: ENCLB267CXI
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: unknown

value: female

value: Barbara Wold, Caltech

value: ENCBS280SII at ENCODE; https://www.encodeproject.org/ENCBS280SII/

value: Derived from ENCODE donor ENCDO000AAK; https://www.encodeproject.org/ENCDO000AAK/

value: ENCODE dbxrefs Cellosaurus CVCL_7526; http://web.expasy.org/cellosaurus/CVCL_7526

value: Coriell sample source; http://ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref=GM12878&PgId=166


title: single cell RNA-seq from Purkinje cell (ENCLB569DAO)

description:
https://www.encodeproject.org/experiments/ENCSR796QJD/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR796QJD
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB569DAO
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: male

value: ENCBS416PRE at ENCODE; https://www.encodeproject.org/ENCBS416PRE/

value: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/


title: single cell RNA-seq from Purkinje cell (ENCLB414SJG)

description:
https://www.encodeproject.org/experiments/ENCSR803PLZ/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR803PLZ
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB414SJG
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: ENCBS060SHI at ENCODE; https://www.encodeproject.org/ENCBS060SHI/


title: single cell RNA-seq from GM12878 (ENCLB714NCU)

description:
https://www.encodeproject.org/experiments/ENCSR000AJC/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single GM12878 cell
experiment encode accession: ENCSR000AJC
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR673UIY
encode release date: 2014-06-30
lab: Barbara Wold, Caltech
library encode accession: ENCLB714NCU
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: immortalized cell line

value: Single GM12878 cell, part of a set of 10

value: ENCBS879WMA at ENCODE; https://www.encodeproject.org/ENCBS879WMA/


title: single cell RNA-seq from GM12878 (ENCLB264YKE)

description:
https://www.encodeproject.org/experiments/ENCSR000AJB/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single GM12878 cell
experiment encode accession: ENCSR000AJB
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR673UIY
encode release date: 2014-06-30
lab: Barbara Wold, Caltech
library encode accession: ENCLB264YKE
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: ENCBS901DKW at ENCODE; https://www.encodeproject.org/ENCBS901DKW/


title: single cell RNA-seq from Purkinje cell (ENCLB407NSA)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 13
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB407NSA
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: Control

value: Purkinje cell

value: primary cell

value: 14 month

value: adult

value: ENCBS187KIV at ENCODE; https://www.encodeproject.org/ENCBS187KIV/


title: single cell RNA-seq from Purkinje cell (ENCLB988OPM)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 6
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB988OPM
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: Barbara Wold, Caltech

value: ENCBS912HHG at ENCODE; https://www.encodeproject.org/ENCBS912HHG/


title: single cell RNA-seq from liver (ENCLB449LBZ)

description:
https://www.encodeproject.org/experiments/ENCSR592MSV/
***************
biological replicate number: 1
technical replicate number: 1
description: Total RNA-seq on embryonic 11.5 day mouse liver
experiment encode accession: ENCSR592MSV
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Barbara Wold, Caltech
library encode accession: ENCLB449LBZ
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cell-equivalent

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

value: liver

value: tissue

value: Liver from 109 embyronic 11.5 day mice

value: embryonic

value: pooled male and female

value: healthy

value: Len Pennacchio, LBNL

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

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


title: single cell RNA-seq from Purkinje cell (ENCLB318YQB)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 12
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB318YQB
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

value: Control

value: male

value: ENCBS268XKF at ENCODE; https://www.encodeproject.org/ENCBS268XKF/

value: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/


title: single cell RNA-seq from liver (ENCLB905LVV)

description:
https://www.encodeproject.org/experiments/ENCSR592MSV/
***************
biological replicate number: 2
technical replicate number: 1
description: Total RNA-seq on embryonic 11.5 day mouse liver
experiment encode accession: ENCSR592MSV
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Barbara Wold, Caltech
library encode accession: ENCLB905LVV
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cell-equivalent

value: Liver from pooled embryonic 11.5 day mice

value: ENCBS522YOW at ENCODE; https://www.encodeproject.org/ENCBS522YOW/


title: single cell RNA-seq from GM12878 (ENCLB198OUV)

description:
https://www.encodeproject.org/experiments/ENCSR000AJA/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single GM12878 cell
experiment encode accession: ENCSR000AJA
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR673UIY
encode release date: 2014-06-30
lab: Barbara Wold, Caltech
library encode accession: ENCLB198OUV
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: immortalized cell line

value: Single GM12878 cell, part of a set of 10

value: unknown

value: adult

value: female

value: Barbara Wold, Caltech

value: ENCBS950FXN at ENCODE; https://www.encodeproject.org/ENCBS950FXN/

value: Derived from ENCODE donor ENCDO000AAK; https://www.encodeproject.org/ENCDO000AAK/

value: ENCODE dbxrefs Cellosaurus CVCL_7526; http://web.expasy.org/cellosaurus/CVCL_7526

value: Coriell sample source; http://ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref=GM12878&PgId=166


title: single cell RNA-seq from Purkinje cell (ENCLB711HMD)

description:
https://www.encodeproject.org/experiments/ENCSR530UXI/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR530UXI
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB711HMD
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: Purkinje cell

value: primary cell

value: 14 month

value: ENCBS381LPB at ENCODE; https://www.encodeproject.org/ENCBS381LPB/


title: single cell RNA-seq from Purkinje cell (ENCLB541QCS)

description:
https://www.encodeproject.org/experiments/ENCSR577ONT/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR577ONT
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB541QCS
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: male

value: ENCBS259RHJ at ENCODE; https://www.encodeproject.org/ENCBS259RHJ/

value: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/


title: single cell RNA-seq from Purkinje cell (ENCLB641AYP)

description:
https://www.encodeproject.org/experiments/ENCSR362OYV/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR362OYV
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB641AYP
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: ENCBS362EAK at ENCODE; https://www.encodeproject.org/ENCBS362EAK/


title: single cell RNA-seq from Purkinje cell (ENCLB042QFS)

description:
https://www.encodeproject.org/experiments/ENCSR292IVH/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR292IVH
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB042QFS
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: ENCBS110UIV at ENCODE; https://www.encodeproject.org/ENCBS110UIV/


title: single cell RNA-seq from Purkinje cell (ENCLB507MOC)

description:
https://www.encodeproject.org/experiments/ENCSR268IGT/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR268IGT
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB507MOC
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: ENCBS730IMD at ENCODE; https://www.encodeproject.org/ENCBS730IMD/


title: single cell RNA-seq from GM12878 (ENCLB391GZT)

description:
https://www.encodeproject.org/experiments/ENCSR000AIY/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single GM12878 cell
experiment encode accession: ENCSR000AIY
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR673UIY
encode release date: 2014-06-30
lab: Barbara Wold, Caltech
library encode accession: ENCLB391GZT
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells

value: immortalized cell line

value: Single GM12878 cell, part of a set of 10

value: unknown

value: adult

value: ENCBS638AZC at ENCODE; https://www.encodeproject.org/ENCBS638AZC/


title: single cell RNA-seq from Purkinje cell (ENCLB578MIX)

description:
https://www.encodeproject.org/experiments/ENCSR267LBO/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR267LBO
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB578MIX
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: Barbara Wold, Caltech

value: ENCBS792HLD at ENCODE; https://www.encodeproject.org/ENCBS792HLD/


title: single cell RNA-seq from Purkinje cell (ENCLB510UJB)

description:
https://www.encodeproject.org/experiments/ENCSR194TNV/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR194TNV
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB510UJB
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: Purkinje cell

value: ENCBS125FJJ at ENCODE; https://www.encodeproject.org/ENCBS125FJJ/


title: single cell RNA-seq from Purkinje cell (ENCLB921XPI)

description:
https://www.encodeproject.org/experiments/ENCSR111QQX/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR111QQX
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB921XPI
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: primary cell

value: 14 month

value: ENCBS113OCQ at ENCODE; https://www.encodeproject.org/ENCBS113OCQ/


title: small RNA-seq from uterus (ENCLB251ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGH/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal uterus tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGH
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB251ZZZ
size range: <200

source_name: Homo sapiens uterus tissue female fetal (24 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/dbac8658-f7ba-4d0f-b82b-fa91b7bba360/@@download/attachment/SID38496.pdf

value: uterus

value: tissue

value: Human fetal uterus

value: 24 week

value: fetal

value: female

value: Thomas Gingeras, CSHL

value: ENCBS083RNA at ENCODE; https://www.encodeproject.org/ENCBS083RNA/

value: Derived from ENCODE donor ENCDO067AAA; https://www.encodeproject.org/ENCDO067AAA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244274-10


title: single cell RNA-seq from Purkinje cell (ENCLB322YDP)

description:
https://www.encodeproject.org/experiments/ENCSR068SJG/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR068SJG
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB322YDP
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells

value: adult

value: male

value: Barbara Wold, Caltech

value: ENCBS530JMM at ENCODE; https://www.encodeproject.org/ENCBS530JMM/

value: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/


title: single cell RNA-seq from forebrain (ENCLB917PKP)

description:
https://www.encodeproject.org/experiments/ENCSR000OXO/
***************
biological replicate number: 1
technical replicate number: 1
description: Total RNA-seq on embryonic 11.5 day mouse forebrain
experiment encode accession: ENCSR000OXO
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Barbara Wold, Caltech
library encode accession: ENCLB917PKP
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cell-equivalent

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

extract_protocol:
extraction method: Ambion mirVana
extraction protocol: https://www.encodeproject.org/documents/428a184d-7fa1-4599-9d8d-749c2eba7edd/@@download/attachment/cms_055740.pdf, extraction protocol: https://www.encodeproject.org/documents/f0cc5a7f-96a5-4970-9f46-317cc8e2d6a4/@@download/attachment/cms_055423.pdf, general protocol: https://www.encodeproject.org/documents/5f5193b0-0c61-40c6-a286-b1f6d6f0c0da/@@download/attachment/SmartSeqProtocol.pdf

value: Control

value: forebrain

value: Forebrain from 109 embyronic 11.5 day mice

value: embryonic

value: pooled male and female

value: healthy

value: Len Pennacchio, LBNL

value: ENCBS745VOM at ENCODE; https://www.encodeproject.org/ENCBS745VOM/

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


title: single cell RNA-seq from forebrain (ENCLB026BHP)

description:
https://www.encodeproject.org/experiments/ENCSR000OXO/
***************
biological replicate number: 2
technical replicate number: 1
description: Total RNA-seq on embryonic 11.5 day mouse forebrain
experiment encode accession: ENCSR000OXO
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2014-09-29
lab: Barbara Wold, Caltech
library encode accession: ENCLB026BHP
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cell-equivalent

value: tissue

value: Forebrain from 88 embyronic 11.5 day mice

value: ENCBS720JOH at ENCODE; https://www.encodeproject.org/ENCBS720JOH/


title: small RNA-seq from tongue (ENCLB248ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGF/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal tongue tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGF
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB248ZZZ
size range: <200

source_name: Homo sapiens tongue tissue female fetal (24 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/30830775-9490-46ea-9549-2c6a64b49659/@@download/attachment/SID38493.pdf

value: tongue

value: Human fetal tongue

value: 24 week

value: fetal

value: female

value: Thomas Gingeras, CSHL

value: ENCBS080RNA at ENCODE; https://www.encodeproject.org/ENCBS080RNA/

value: Derived from ENCODE donor ENCDO067AAA; https://www.encodeproject.org/ENCDO067AAA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244267-50


title: Tcf1/Lef1-deficient CD8 mSin3A ChIP-Seq in Condition 2

city: Washington

first: Weiqun

last: Peng

state: DC

address: 1918 F Street, NW , DC

institute: The George Washington University

library_source: genomic

data_processing:
The sequencing quality of ChIP-Seq libraries was assessed by FastQC (http://www.bioinformatics.babraham.ac.uk/projects/fastqc/).
Bowtie2 (v2.2.5, Langmead et al., Nature Methods) was used to align the sequencing reads to the mouse genome. UCSC genes for mouse mm9 from iGenome (http://support.illumina.com/sequencing/sequencing_software/igenome.html) were used for gene annotation.
SICER (v1.1, Zang et al., Bioinformatics) was used to identify islands. In each library, islands were identified with false discovery rate (FDR) of less than 1E-4 and island-filtered tags were used for downstream analysis.
Genome_build: mm9
Supplementary_files_format_and_content: BED files with peaks

molecule: genomic DNA

source_name: CD8 T cells

extract_protocol:
Splenic CD8 T cells were sort-purified from WT or Tcf1/Lef1-deficient mice, the cells were then fixed and sonicated to generate chromatin fragments, followed by immunoprecipitation with antibodies against Sin3A, which were then properly washed and immunoprecipitated DNA extracted.
The DNA segments from ChIP were end-repaired and ligated to indexed Illumina adaptors, followed by amplification by PCR with a low number of cells (18-21 cycles). The resulting libraries were seqeunced with Illumina Hiseq-2000 platform.

tag: genotype

tag: tissue

value: spleen

tag: cell type

value: T cells

tag: cell phenotype

value: TCRbeta high, CD8+

tag: chip antibody


title: Tcf1/Lef1-deficient CD8 Input for mSin3A


title: Tcf1/Lef1-deficient CD8 mSin3A ChIP-Seq in Condition 1


title: small RNA-seq from tongue (ENCLB247ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGF/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal tongue tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGF
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB247ZZZ
size range: <200

source_name: Homo sapiens tongue tissue female fetal (20 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/6b8d8122-1b4e-4692-9512-2444fb4af235/@@download/attachment/SID38492.pdf

value: 20 week

value: ENCBS079RNA at ENCODE; https://www.encodeproject.org/ENCBS079RNA/

value: Derived from ENCODE donor ENCDO064AAA; https://www.encodeproject.org/ENCDO064AAA/


title: single cell RNA-seq from Purkinje cell (ENCLB243CVS)

description:
https://www.encodeproject.org/experiments/ENCSR620HJQ/
***************
biological replicate number: 1
technical replicate number: 2
description: RNA-seq on single cell equivalents of 13 excised and homogenized Purkinje cells from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR620HJQ
assay title: single cell RNA-seq
assembly: mm10
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB243CVS
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cell-equivalent

tag: antibody

value: Control

value: Purkinje cell

value: primary cell

value: 14 month

value: adult

value: male

value: Barbara Wold, Caltech

value: ENCBS525QEP at ENCODE; https://www.encodeproject.org/ENCBS525QEP/

value: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/


title: WT CD8 Input for mSin3A

value: wild type


title: WT CD8 mSin3A ChIP-Seq in Condition 2


title: WT CD8 mSin3A ChIP-Seq in Condition 1


title: small RNA-seq from thyroid gland (ENCLB245ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGE/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal thyroid gland tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGE
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB245ZZZ
size range: <200

source_name: Homo sapiens thyroid gland tissue female fetal (37 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/218ac929-325f-4978-8326-b35737d8b1a3/@@download/attachment/SID38480.pdf

value: thyroid gland

value: tissue

tag: description

value: Human fetal thyroid gland

value: 37 week

value: fetal

value: female

value: Thomas Gingeras, CSHL

value: ENCBS077RNA at ENCODE; https://www.encodeproject.org/ENCBS077RNA/

value: Derived from ENCODE donor ENCDO063AAA; https://www.encodeproject.org/ENCDO063AAA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244265-10


title: small RNA-seq from thyroid gland (ENCLB246ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGE/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal thyroid gland tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGE
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB246ZZZ
size range: <200

source_name: Homo sapiens thyroid gland tissue female fetal (40 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/19a6fd82-b412-46b1-a6d2-d4a06759dc5d/@@download/attachment/SID38481.pdf

tag: biosample encode accession

value: 40 week

value: ENCBS078RNA at ENCODE; https://www.encodeproject.org/ENCBS078RNA/

value: Derived from ENCODE donor ENCDO066AAA; https://www.encodeproject.org/ENCDO066AAA/


title: small RNA-seq from temporal lobe (ENCLB243ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGD/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal temporal lobe tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGD
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB243ZZZ
size range: <200

source_name: Homo sapiens temporal lobe tissue female fetal (20 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/a89b85d3-365a-40c7-ba39-b26e6dd90070/@@download/attachment/SID38478.pdf

value: temporal lobe

value: Human fetal temporal lobe

tag: age

value: 20 week

value: ENCBS075RNA at ENCODE; https://www.encodeproject.org/ENCBS075RNA/

value: Derived from ENCODE donor ENCDO064AAA; https://www.encodeproject.org/ENCDO064AAA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244078-50


title: small RNA-seq from uterus (ENCLB252ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGH/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal uterus tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGH
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB252ZZZ
size range: <200

source_name: Homo sapiens uterus tissue female fetal (28 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/ec6895f5-20da-45d1-8909-9af7cfa4e915/@@download/attachment/SID38497.pdf

value: uterus

value: tissue

value: Human fetal uterus

value: 28 week

tag: dev stage

value: ENCBS084RNA at ENCODE; https://www.encodeproject.org/ENCBS084RNA/

value: Derived from ENCODE donor ENCDO062AAA; https://www.encodeproject.org/ENCDO062AAA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244274-10


title: small RNA-seq from spinal cord (ENCLB239ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGB/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal spinal cord tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGB
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB239ZZZ
size range: <200

source_name: Homo sapiens spinal cord tissue male fetal (22 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/abd47e13-61da-42ff-b2aa-eb687e02a3a6/@@download/attachment/SID38472.pdf

value: spinal cord

value: Human fetal spinal cord

value: 22 week

value: fetal

tag: Sex

value: male

value: unknown

value: Thomas Gingeras, CSHL

value: ENCBS071RNA at ENCODE; https://www.encodeproject.org/ENCBS071RNA/

value: Derived from ENCODE donor ENCDO065AAA; https://www.encodeproject.org/ENCDO065AAA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244234-10


title: small RNA-seq from spinal cord (ENCLB240ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGB/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal spinal cord tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGB
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB240ZZZ
size range: <200

source_name: Homo sapiens spinal cord tissue female fetal (24 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/4aa4f32f-60b9-4308-a41d-1c8557c44b5a/@@download/attachment/SID38473.pdf

value: 24 week

value: female

value: ENCBS072RNA at ENCODE; https://www.encodeproject.org/ENCBS072RNA/

value: Derived from ENCODE donor ENCDO067AAA; https://www.encodeproject.org/ENCDO067AAA/


title: small RNA-seq from temporal lobe (ENCLB244ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGD/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal temporal lobe tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGD
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB244ZZZ
size range: <200

source_name: Homo sapiens temporal lobe tissue female fetal (24 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/1ed5e94f-3cda-4afd-b05b-65212a204489/@@download/attachment/SID38479.pdf

value: temporal lobe

value: tissue

value: Human fetal temporal lobe

value: ENCBS076RNA at ENCODE; https://www.encodeproject.org/ENCBS076RNA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244078-50


title: small RNA-seq from skin of body (ENCLB237ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGA/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal skin tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGA
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB237ZZZ
size range: <200

source_name: Homo sapiens skin of body tissue male fetal (22 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/6481db01-d005-4309-b548-5309114e9948/@@download/attachment/SID38470.pdf

value: skin of body

value: Human fetal skin of body

value: 22 week

tag: health state

value: ENCBS069RNA at ENCODE; https://www.encodeproject.org/ENCBS069RNA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244218-50


title: small RNA-seq from skin of body (ENCLB238ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AGA/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal skin tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AGA
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB238ZZZ
size range: <200

source_name: Homo sapiens skin of body tissue female fetal (24 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/6f949558-1399-49fb-92fa-b0c977544c2c/@@download/attachment/SID38471.pdf

value: fetal

tag: lab

value: Thomas Gingeras, CSHL

value: ENCBS070RNA at ENCODE; https://www.encodeproject.org/ENCBS070RNA/


title: small RNA-seq from skeletal muscle tissue (ENCLB235ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AFZ/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal skeletal muscle tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AFZ
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB235ZZZ
size range: <200

source_name: Homo sapiens skeletal muscle tissue female fetal (19 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/d897e6b3-9aa4-4a42-b43c-f1709b9a4798/@@download/attachment/SID38464.pdf

value: skeletal muscle tissue

value: Human fetal skeletal muscle Tissue

value: 19 week

tag: link

value: ENCBS067RNA at ENCODE; https://www.encodeproject.org/ENCBS067RNA/

value: Derived from ENCODE donor ENCDO070AAA; https://www.encodeproject.org/ENCDO070AAA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244171-50


title: small RNA-seq from skeletal muscle tissue (ENCLB236ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AFZ/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal skeletal muscle tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AFZ
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB236ZZZ
size range: <200

source_name: Homo sapiens skeletal muscle tissue male fetal (22 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/ca749161-bcde-4c56-8e7a-a0a7413ff231/@@download/attachment/SID38465.pdf

value: tissue

value: male

value: unknown

value: ENCBS068RNA at ENCODE; https://www.encodeproject.org/ENCBS068RNA/

value: Derived from ENCODE donor ENCDO065AAA; https://www.encodeproject.org/ENCDO065AAA/


title: small RNA-seq from parietal lobe (ENCLB233ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AFY/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal parietal lobe tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AFY
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB233ZZZ
size range: <200

source_name: Homo sapiens parietal lobe tissue male fetal (22 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/cfb6f485-4507-48d7-8466-78d7349eb0a6/@@download/attachment/SID38462.pdf

value: parietal lobe

value: Human fetal parietal lobe

value: 22 week

value: ENCBS065RNA at ENCODE; https://www.encodeproject.org/ENCBS065RNA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244066-50


title: small RNA-seq from parietal lobe (ENCLB234ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AFY/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal parietal lobe tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AFY
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB234ZZZ
size range: <200

source_name: Homo sapiens parietal lobe tissue female fetal (24 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/15a4bb0c-e4ad-47a4-8077-871c8f8c89f0/@@download/attachment/SID38463.pdf

value: 24 week

value: fetal

value: female

value: Thomas Gingeras, CSHL

value: ENCBS066RNA at ENCODE; https://www.encodeproject.org/ENCBS066RNA/

value: Derived from ENCODE donor ENCDO067AAA; https://www.encodeproject.org/ENCDO067AAA/


title: small RNA-seq from occipital lobe (ENCLB232ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AFX/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal occipital lobe tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AFX
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB232ZZZ
size range: <200

source_name: Homo sapiens occipital lobe tissue male fetal (22 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/a326f76f-a545-4393-b992-5826ac709873/@@download/attachment/SID38501.pdf

value: occipital lobe

value: Human fetal occipital lobe

value: ENCBS064RNA at ENCODE; https://www.encodeproject.org/ENCBS064RNA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244062-50


title: small RNA-seq from lung (ENCLB229ZZZ)

description:
https://www.encodeproject.org/experiments/ENCSR000AFW/
***************
biological replicate number: 1
technical replicate number: 1
description: The libraries contained in this experiment come from human fetal lung tissue from independent donors. They are stranded SE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size
experiment encode accession: ENCSR000AFW
assay title: small RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB229ZZZ
size range: <200

source_name: Homo sapiens lung tissue female fetal (20 weeks)

extract_protocol:
extraction method: see document
general protocol: https://www.encodeproject.org/documents/8ab06d1b-1a83-4add-8e05-3e0771af97ba/@@download/attachment/SID38498.pdf

value: lung

value: tissue

value: Human fetal lung

value: 20 week

value: ENCBS061RNA at ENCODE; https://www.encodeproject.org/ENCBS061RNA/

value: Derived from ENCODE donor ENCDO064AAA; https://www.encodeproject.org/ENCDO064AAA/

value: BioChain sample source; http://www.biochain.com/index.php/catalogsearch/advanced/result/?catalog_number=R1244152-50