title: eCLIP from K562 (ENCLB992PMH)

description:
https://www.encodeproject.org/experiments/ENCSR295OKT/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against RBM22
experiment encode accession: ENCSR295OKT
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR344EGD
encode release date: 2015-11-09
lab: Gene Yeo, UCSD
library encode accession: ENCLB992PMH
size range: 175-300

value: Gene Yeo, UCSD

value: ENCBS253VOZ at ENCODE; https://www.encodeproject.org/ENCBS253VOZ/

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from HEK293 (ENCLB997CQT)

status: Public on Jan 04 2017

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/ENCSR307CKC/
***************
biological replicate number: 2
technical replicate number: 1
description: eGFP-ZNF680 ChIP-seq on human HEK293 cells.
experiment encode accession: ENCSR307CKC
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR007GUS, ENCSR049NDP, ENCSR110ZVM, ENCSR123TVS, ENCSR236FPN, ENCSR260MAS, ENCSR278MZO, ENCSR311DYU, ENCSR316OQD, ENCSR361UQO, ENCSR398UVH, ENCSR468NLK, ENCSR499OOH, ENCSR499QIO, ENCSR523KUQ, ENCSR537CWQ, ENCSR603CJM, ENCSR679WSJ, ENCSR736BTL, ENCSR782QKO, ENCSR840JVQ, ENCSR851FFP, ENCSR860UAT, ENCSR873PPH
encode release date: 2016-10-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB997CQT
size range: 450-650

library_source: genomic

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

molecule: genomic DNA

organism: Homo sapiens

source_name: Homo sapiens HEK293 immortalized cell line derived from HEK293 stably expressing N-terminal eGFP-ZNF680 fusion protein

tag: antibody

tag: line

value: immortalized cell line

tag: description

value: HEK293 cell line stably expressing N-terminal tagged eGFP-ZNF680 under the control of a CMV promoter.

tag: biosample encode accession

tag: dev stage

value: embryonic

tag: age

value: unknown

tag: Sex

value: female

tag: lab

value: Michael Snyder, Stanford

tag: health state

tag: link

value: ENCBS860LMD at ENCODE; https://www.encodeproject.org/ENCBS860LMD/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: ChIP-seq from K562 (ENCLB149OES)

description:
https://www.encodeproject.org/experiments/ENCSR882ERE/
***************
biological replicate number: 1
technical replicate number: 1
description: ZKSCAN1 ChIP-seq on human K562
experiment encode accession: ENCSR882ERE
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2016-03-02
lab: Michael Snyder, Stanford
library encode accession: ENCLB149OES
size range: 150-350

source_name: Homo sapiens K562 immortalized cell line

value: adult

value: 53 year

value: chronic myelogenous leukemia (CML)

value: ENCBS626KTH at ENCODE; https://www.encodeproject.org/ENCBS626KTH/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004


title: ChIP-seq from HEK293 (ENCLB107AQP)

description:
https://www.encodeproject.org/experiments/ENCSR290SSQ/
***************
biological replicate number: 2
technical replicate number: 1
description: eGFP-MAZ ChIP-seq on human HEK293 cells.
experiment encode accession: ENCSR290SSQ
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR007GUS, ENCSR049NDP, ENCSR110ZVM, ENCSR123TVS, ENCSR236FPN, ENCSR260MAS, ENCSR278MZO, ENCSR311DYU, ENCSR316OQD, ENCSR361UQO, ENCSR398UVH, ENCSR468NLK, ENCSR499OOH, ENCSR499QIO, ENCSR523KUQ, ENCSR537CWQ, ENCSR603CJM, ENCSR679WSJ, ENCSR736BTL, ENCSR782QKO, ENCSR840JVQ, ENCSR851FFP, ENCSR860UAT, ENCSR873PPH
encode release date: 2016-10-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB107AQP
size range: 450-650

source_name: Homo sapiens HEK293 immortalized cell line derived from HEK293 stably expressing N-terminal eGFP-MAZ fusion protein

value: eGFP-MAZ

value: HEK293 cell line stably expressing N-terminal tagged eGFP-MAZ under the control of a CMV promoter.

value: ENCBS099PTU at ENCODE; https://www.encodeproject.org/ENCBS099PTU/


title: ChIP-seq from K562 (ENCLB149FYM)

description:
https://www.encodeproject.org/experiments/ENCSR882ERE/
***************
biological replicate number: 2
technical replicate number: 1
description: ZKSCAN1 ChIP-seq on human K562
experiment encode accession: ENCSR882ERE
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2016-03-02
lab: Michael Snyder, Stanford
library encode accession: ENCLB149FYM
size range: 150-350

value: immortalized cell line

value: ENCBS720UTF at ENCODE; https://www.encodeproject.org/ENCBS720UTF/


title: ChIP-seq from K562 (ENCLB187NCV)

description:
https://www.encodeproject.org/experiments/ENCSR815ZDS/
***************
biological replicate number: 2
technical replicate number: 1
description: SREBF1 ChIP-seq on human K562
experiment encode accession: ENCSR815ZDS
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB187NCV
size range: 150-350

value: Leukemia, the continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises. - ATCC

value: ENCBS232KKV at ENCODE; https://www.encodeproject.org/ENCBS232KKV/

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx


title: eCLIP from K562 (ENCLB761BDT)

description:
https://www.encodeproject.org/experiments/ENCSR295OKT/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against RBM22
experiment encode accession: ENCSR295OKT
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR344EGD
encode release date: 2015-11-09
lab: Gene Yeo, UCSD
library encode accession: ENCLB761BDT
size range: 175-300

library_source: transcriptomic

molecule: total RNA

extract_protocol:
pipeline protocol: https://www.encodeproject.org/documents/dde0b669-0909-4f8b-946d-3cb9f35a6c52/@@download/attachment/eCLIP_analysisSOP_v1.P.pdf
general protocol: https://www.encodeproject.org/documents/842f7424-5396-424a-a1a3-3f18707c3222/@@download/attachment/eCLIP_SOP_v1.P_110915.pdf
extraction method: see document

value: female

tag: passage number

value: Gene Yeo, UCSD

value: ENCBS931MQO at ENCODE; https://www.encodeproject.org/ENCBS931MQO/

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from K562 (ENCLB912TSW)

description:
https://www.encodeproject.org/experiments/ENCSR782WRO/
***************
biological replicate number: 1
technical replicate number: 1
description: BMI1 ChIP-seq on human K562
experiment encode accession: ENCSR782WRO
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB912TSW
size range: 150-350

value: adult

value: 53 year

value: Michael Snyder, Stanford

value: ENCBS489ZOH at ENCODE; https://www.encodeproject.org/ENCBS489ZOH/


title: ChIP-seq from K562 (ENCLB326QCV)

description:
https://www.encodeproject.org/experiments/ENCSR782WRO/
***************
biological replicate number: 2
technical replicate number: 1
description: BMI1 ChIP-seq on human K562
experiment encode accession: ENCSR782WRO
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB326QCV
size range: 150-350

value: chronic myelogenous leukemia (CML)

value: ENCBS118YJZ at ENCODE; https://www.encodeproject.org/ENCBS118YJZ/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004


title: ChIP-seq from HEK293 (ENCLB404ECP)

description:
https://www.encodeproject.org/experiments/ENCSR290SSQ/
***************
biological replicate number: 1
technical replicate number: 1
description: eGFP-MAZ ChIP-seq on human HEK293 cells.
experiment encode accession: ENCSR290SSQ
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR007GUS, ENCSR049NDP, ENCSR110ZVM, ENCSR123TVS, ENCSR236FPN, ENCSR260MAS, ENCSR278MZO, ENCSR311DYU, ENCSR316OQD, ENCSR361UQO, ENCSR398UVH, ENCSR468NLK, ENCSR499OOH, ENCSR499QIO, ENCSR523KUQ, ENCSR537CWQ, ENCSR603CJM, ENCSR679WSJ, ENCSR736BTL, ENCSR782QKO, ENCSR840JVQ, ENCSR851FFP, ENCSR860UAT, ENCSR873PPH
encode release date: 2016-10-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB404ECP
size range: 450-650

value: eGFP-MAZ

value: immortalized cell line

value: HEK293 cell line stably expressing N-terminal tagged eGFP-MAZ under the control of a CMV promoter.

value: embryonic

value: unknown

value: ENCBS541TCN at ENCODE; https://www.encodeproject.org/ENCBS541TCN/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: ChIP-seq from HeLa-S3 (ENCLB755KTK)

description:
https://www.encodeproject.org/experiments/ENCSR887MXT/
***************
biological replicate number: 2
technical replicate number: 1
description: ZHX1 ChIP-seq on human HeLa-S3
experiment encode accession: ENCSR887MXT
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR580ECR
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB755KTK
size range: 150-350

source_name: Homo sapiens HeLa-S3 immortalized cell line

value: 31 year

value: female

value: cervical adenocarcinoma

value: ENCBS877WSH at ENCODE; https://www.encodeproject.org/ENCBS877WSH/

value: Derived from ENCODE donor ENCDO000AAB; https://www.encodeproject.org/ENCDO000AAB/

value: ENCODE dbxrefs Cellosaurus CVCL_0058; http://web.expasy.org/cellosaurus/CVCL_0058


title: ChIP-seq from HeLa-S3 (ENCLB718DTE)

description:
https://www.encodeproject.org/experiments/ENCSR707IUN/
***************
biological replicate number: 1
technical replicate number: 1
description: NFE2L2 ChIP-seq on human HeLa-S3
experiment encode accession: ENCSR707IUN
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR580ECR
encode release date: 2016-08-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB718DTE
size range: 150-350

value: Cervical adenocarcinoma

value: adult

value: Michael Snyder, Stanford

value: ENCBS061SJE at ENCODE; https://www.encodeproject.org/ENCBS061SJE/

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-2.2.aspx


title: ChIP-seq from K562 (ENCLB994GJI)

description:
https://www.encodeproject.org/experiments/ENCSR298DKW/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control ChIP-seq on human eGFP-PYGO2 tagged K562 cell line.
experiment encode accession: ENCSR298DKW
assay title: ChIP-seq
encode release date: 2015-12-10
lab: Michael Snyder, Stanford
library encode accession: ENCLB994GJI
size range: 450-650

source_name: Homo sapiens K562 immortalized cell line stably expressing C-terminal eGFP-PYGO2 fusion protein

value: Control

value: immortalized cell line

value: K562 cell line stably expressing a C-terminal LAP-tag containing eGFP, fused to PYGO2

value: 53 year

value: Kevin White, UChicago

value: chronic myelogenous leukemia (CML)

value: ENCBS500RNP at ENCODE; https://www.encodeproject.org/ENCBS500RNP/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_AW40; http://web.expasy.org/cellosaurus/CVCL_AW40


title: ChIP-seq from HEK293 (ENCLB020ELW)

description:
https://www.encodeproject.org/experiments/ENCSR289NSN/
***************
biological replicate number: 1
technical replicate number: 1
description: eGFP-ZNF354C ChIP-seq on human HEK293 cells.
experiment encode accession: ENCSR289NSN
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR007GUS, ENCSR049NDP, ENCSR110ZVM, ENCSR123TVS, ENCSR236FPN, ENCSR260MAS, ENCSR278MZO, ENCSR311DYU, ENCSR316OQD, ENCSR361UQO, ENCSR398UVH, ENCSR468NLK, ENCSR499OOH, ENCSR499QIO, ENCSR523KUQ, ENCSR537CWQ, ENCSR603CJM, ENCSR679WSJ, ENCSR736BTL, ENCSR782QKO, ENCSR840JVQ, ENCSR851FFP, ENCSR860UAT, ENCSR873PPH
encode release date: 2016-10-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB020ELW
size range: 450-650

source_name: Homo sapiens HEK293 immortalized cell line derived from HEK293 stably expressing N-terminal eGFP-ZNF354C fusion protein

value: HEK293 cell line stably expressing N-terminal tagged eGFP-ZNF354C under the control of a CMV promoter.

value: embryonic

value: unknown

value: female

value: ENCBS889KAG at ENCODE; https://www.encodeproject.org/ENCBS889KAG/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: ChIP-seq from GM12878 (ENCLB031VEK)

description:
https://www.encodeproject.org/experiments/ENCSR681NOM/
***************
biological replicate number: 1
technical replicate number: 1
description: CEBPB ChIP-seq on human GM12878
experiment encode accession: ENCSR681NOM
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR553NUG
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB031VEK
size range: 150-350

source_name: Homo sapiens GM12878 immortalized cell line

value: CEBPB

value: adult

value: Michael Snyder, Stanford

value: ENCBS608PGT at ENCODE; https://www.encodeproject.org/ENCBS608PGT/

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

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


title: ChIP-seq from MCF-7 (ENCLB852RKP)

description:
https://www.encodeproject.org/experiments/ENCSR288IJC/
***************
biological replicate number: 2
technical replicate number: 1
description: MAZ ChIP-seq on human MCF-7
experiment encode accession: ENCSR288IJC
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR594UCI, ENCSR217LRF
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB852RKP
size range: 450-650

source_name: Homo sapiens MCF-7 immortalized cell line

value: MAZ

value: immortalized cell line

value: Mammary gland, adenocarcinoma. (PMID:4357757)

value: 69 year

value: breast cancer (adenocarcinoma)

value: ENCBS053YJT at ENCODE; https://www.encodeproject.org/ENCBS053YJT/

value: Derived from ENCODE donor ENCDO000AAE; https://www.encodeproject.org/ENCDO000AAE/

value: ENCODE dbxrefs Cellosaurus CVCL_0031; http://web.expasy.org/cellosaurus/CVCL_0031

value: ATCC sample source; http://www.atcc.org/Products/All/HTB-22.aspx


title: ChIP-seq from K562 (ENCLB977LNM)

description:
https://www.encodeproject.org/experiments/ENCSR298QDM/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control ChIP-seq on human eGFP-TSC22D4 tagged K562 cell line.
experiment encode accession: ENCSR298QDM
assay title: ChIP-seq
encode release date: 2016-02-18
lab: Michael Snyder, Stanford
library encode accession: ENCLB977LNM
size range: 450-650

source_name: Homo sapiens K562 immortalized cell line stably expressing C-terminal eGFP-TSC22D4 fusion protein

value: Control

value: K562 cell line stably expressing a C-terminal LAP-tag containing eGFP, fused to TSC22D4

value: 53 year

value: female

value: Kevin White, UChicago

value: chronic myelogenous leukemia (CML)

value: ENCBS587AHU at ENCODE; https://www.encodeproject.org/ENCBS587AHU/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_AW46; http://web.expasy.org/cellosaurus/CVCL_AW46


title: ChIP-seq from HepG2 (ENCLB305KTI)

description:
https://www.encodeproject.org/experiments/ENCSR771GTF/
***************
biological replicate number: 2
technical replicate number: 1
description: SUZ12 ChIP-seq on human HepG2
experiment encode accession: ENCSR771GTF
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB305KTI
size range: 150-350

source_name: Homo sapiens HepG2 immortalized cell line

value: immortalized cell line

value: child

value: 15 year

value: male

value: Michael Snyder, Stanford

value: hepatocellular carcinoma

value: ENCBS907KSW at ENCODE; https://www.encodeproject.org/ENCBS907KSW/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027


title: ChIP-seq from K562 (ENCLB980GXV)

description:
https://www.encodeproject.org/experiments/ENCSR288MOZ/
***************
biological replicate number: 1
technical replicate number: 1
description: LARP7 ChIP-seq on human K562
experiment encode accession: ENCSR288MOZ
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR173USI
encode release date: 2016-09-01
lab: Michael Snyder, Stanford
library encode accession: ENCLB980GXV
size range: 450-650

value: adult

value: ENCBS320BUL at ENCODE; https://www.encodeproject.org/ENCBS320BUL/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004


title: ChIP-seq from HeLa-S3 (ENCLB850SFR)

description:
https://www.encodeproject.org/experiments/ENCSR707IUN/
***************
biological replicate number: 2
technical replicate number: 1
description: NFE2L2 ChIP-seq on human HeLa-S3
experiment encode accession: ENCSR707IUN
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR580ECR
encode release date: 2016-08-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB850SFR
size range: 150-350

value: 31 year

value: female

value: cervical adenocarcinoma

value: ENCBS833ISA at ENCODE; https://www.encodeproject.org/ENCBS833ISA/

value: Derived from ENCODE donor ENCDO000AAB; https://www.encodeproject.org/ENCDO000AAB/

value: ENCODE dbxrefs Cellosaurus CVCL_0058; http://web.expasy.org/cellosaurus/CVCL_0058


title: ChIP-seq from MCF-7 (ENCLB307EOO)

description:
https://www.encodeproject.org/experiments/ENCSR288IJC/
***************
biological replicate number: 1
technical replicate number: 1
description: MAZ ChIP-seq on human MCF-7
experiment encode accession: ENCSR288IJC
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR594UCI, ENCSR217LRF
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB307EOO
size range: 450-650

value: MAZ

value: immortalized cell line

value: Mammary gland, adenocarcinoma. (PMID:4357757)

value: 69 year

value: breast cancer (adenocarcinoma)

value: ENCBS216AOQ at ENCODE; https://www.encodeproject.org/ENCBS216AOQ/

value: Derived from ENCODE donor ENCDO000AAE; https://www.encodeproject.org/ENCDO000AAE/

value: ENCODE dbxrefs Cellosaurus CVCL_0031; http://web.expasy.org/cellosaurus/CVCL_0031

value: ATCC sample source; http://www.atcc.org/Products/All/HTB-22.aspx


title: ChIP-seq from K562 (ENCLB746VSG)

description:
https://www.encodeproject.org/experiments/ENCSR288MOZ/
***************
biological replicate number: 2
technical replicate number: 1
description: LARP7 ChIP-seq on human K562
experiment encode accession: ENCSR288MOZ
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR173USI
encode release date: 2016-09-01
lab: Michael Snyder, Stanford
library encode accession: ENCLB746VSG
size range: 450-650

value: adult

value: 53 year

value: Michael Snyder, Stanford

value: chronic myelogenous leukemia (CML)

value: ENCBS906KIP at ENCODE; https://www.encodeproject.org/ENCBS906KIP/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/


title: ChIP-seq from HepG2 (ENCLB396MDN)

description:
https://www.encodeproject.org/experiments/ENCSR278JQG/
***************
biological replicate number: 2
technical replicate number: 1
description: IKZF1 ChIP-seq on human HepG2
experiment encode accession: ENCSR278JQG
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR121CWV, ENCSR770GTP
encode release date: 2016-06-14
lab: Michael Snyder, Stanford
library encode accession: ENCLB396MDN
size range: 450-650

value: child

value: 15 year

value: male

value: hepatocellular carcinoma

value: ENCBS803ZJJ at ENCODE; https://www.encodeproject.org/ENCBS803ZJJ/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027


title: ChIP-seq from A549 (ENCLB938FQI)

description:
https://www.encodeproject.org/experiments/ENCSR623KNM/
***************
biological replicate number: 3
technical replicate number: 1
description: ELK1 ChIP-seq on human A549
experiment encode accession: ENCSR623KNM
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB938FQI
size range: 150-350

source_name: Homo sapiens A549 immortalized cell line

value: immortalized cell line

value: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.

value: 58 year

value: ENCBS848SUF at ENCODE; https://www.encodeproject.org/ENCBS848SUF/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-185.aspx


title: ChIP-seq from GM12878 (ENCLB654DNL)

description:
https://www.encodeproject.org/experiments/ENCSR278SQL/
***************
biological replicate number: 1
technical replicate number: 1
description: NBN ChIP-seq on human GM12878
experiment encode accession: ENCSR278SQL
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR398JTO
encode release date: 2016-08-24
lab: Michael Snyder, Stanford
library encode accession: ENCLB654DNL
size range: 450-650

value: NBN

value: adult

value: female

value: unknown

value: Michael Snyder, Stanford

value: ENCBS339VHO at ENCODE; https://www.encodeproject.org/ENCBS339VHO/

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

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


title: ChIP-seq from HepG2 (ENCLB786ZXI)

description:
https://www.encodeproject.org/experiments/ENCSR278JQG/
***************
biological replicate number: 1
technical replicate number: 1
description: IKZF1 ChIP-seq on human HepG2
experiment encode accession: ENCSR278JQG
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR121CWV, ENCSR770GTP
encode release date: 2016-06-14
lab: Michael Snyder, Stanford
library encode accession: ENCLB786ZXI
size range: 450-650

value: child

value: 15 year

value: male

value: hepatocellular carcinoma

value: ENCBS767MPH at ENCODE; https://www.encodeproject.org/ENCBS767MPH/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/


title: eCLIP from HepG2 (ENCLB509GIL)

description:
https://www.encodeproject.org/experiments/ENCSR279UJF/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on HepG2 against SF3B4
experiment encode accession: ENCSR279UJF
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR886YYD
encode release date: 2015-11-09
lab: Gene Yeo, UCSD
library encode accession: ENCLB509GIL
size range: 175-300

value: immortalized cell line

value: Gene Yeo, UCSD

value: ENCBS861HMN at ENCODE; https://www.encodeproject.org/ENCBS861HMN/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from GM12878 (ENCLB241ASD)

description:
https://www.encodeproject.org/experiments/ENCSR681NOM/
***************
biological replicate number: 2
technical replicate number: 1
description: CEBPB ChIP-seq on human GM12878
experiment encode accession: ENCSR681NOM
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR553NUG
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB241ASD
size range: 150-350

value: CEBPB

value: adult

value: female

value: ENCBS595CWJ at ENCODE; https://www.encodeproject.org/ENCBS595CWJ/


title: ChIP-seq from K562 (ENCLB560SBO)

description:
https://www.encodeproject.org/experiments/ENCSR277DMR/
***************
biological replicate number: 1
technical replicate number: 1
description: eGFP-ETV1 ChIP-seq on human K562
experiment encode accession: ENCSR277DMR
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR667RDX
encode release date: 2016-03-02
lab: Michael Snyder, Stanford
library encode accession: ENCLB560SBO
size range: 450-650

source_name: Homo sapiens K562 immortalized cell line stably expressing C-terminal eGFP-ETV1 fusion protein

value: K562 cell line stably expressing a C-terminal LAP-tag containing eGFP, fused to ETV1

value: 53 year

value: Kevin White, UChicago

value: chronic myelogenous leukemia (CML)

value: ENCBS398XYI at ENCODE; https://www.encodeproject.org/ENCBS398XYI/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_AW20; http://web.expasy.org/cellosaurus/CVCL_AW20


title: ChIP-seq from K562 (ENCLB154RYN)

description:
https://www.encodeproject.org/experiments/ENCSR618GDK/
***************
biological replicate number: 4
technical replicate number: 1
description: CEBPZ ChIP-seq on human K562
experiment encode accession: ENCSR618GDK
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB154RYN
size range: 150-350

value: CEBPZ

value: Michael Snyder, Stanford

value: ENCBS983KMD at ENCODE; https://www.encodeproject.org/ENCBS983KMD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004


title: eCLIP from HepG2 (ENCLB015SHG)

description:
https://www.encodeproject.org/experiments/ENCSR279UJF/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on HepG2 against SF3B4
experiment encode accession: ENCSR279UJF
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR886YYD
encode release date: 2015-11-09
lab: Gene Yeo, UCSD
library encode accession: ENCLB015SHG
size range: 175-300

value: immortalized cell line

value: child

value: 15 year

value: male

value: Gene Yeo, UCSD

value: hepatocellular carcinoma

value: ENCBS948WDK at ENCODE; https://www.encodeproject.org/ENCBS948WDK/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027


title: ChIP-seq from IMR-90 (ENCLB146KMA)

description:
https://www.encodeproject.org/experiments/ENCSR664OKA/
***************
biological replicate number: 2
technical replicate number: 1
description: ELK1 ChIP-seq on human IMR-90
experiment encode accession: ENCSR664OKA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR970FKL
encode release date: 2016-09-01
lab: Michael Snyder, Stanford
library encode accession: ENCLB146KMA
size range: 150-350

source_name: Homo sapiens IMR-90 primary cell female fetal (16 weeks)

value: primary cell

value: fetal

value: 16 week

value: female

value: unknown

value: ENCBS486FIC at ENCODE; https://www.encodeproject.org/ENCBS486FIC/

value: Derived from ENCODE donor ENCDO000AAX; https://www.encodeproject.org/ENCDO000AAX/

value: ENCODE dbxrefs Cellosaurus CVCL_0347; http://web.expasy.org/cellosaurus/CVCL_0347


title: ChIP-seq from HEK293 (ENCLB298SQN)

description:
https://www.encodeproject.org/experiments/ENCSR289NSN/
***************
biological replicate number: 2
technical replicate number: 1
description: eGFP-ZNF354C ChIP-seq on human HEK293 cells.
experiment encode accession: ENCSR289NSN
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR007GUS, ENCSR049NDP, ENCSR110ZVM, ENCSR123TVS, ENCSR236FPN, ENCSR260MAS, ENCSR278MZO, ENCSR311DYU, ENCSR316OQD, ENCSR361UQO, ENCSR398UVH, ENCSR468NLK, ENCSR499OOH, ENCSR499QIO, ENCSR523KUQ, ENCSR537CWQ, ENCSR603CJM, ENCSR679WSJ, ENCSR736BTL, ENCSR782QKO, ENCSR840JVQ, ENCSR851FFP, ENCSR860UAT, ENCSR873PPH
encode release date: 2016-10-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB298SQN
size range: 450-650

value: immortalized cell line

value: HEK293 cell line stably expressing N-terminal tagged eGFP-ZNF354C under the control of a CMV promoter.

value: embryonic

value: Michael Snyder, Stanford

value: ENCBS836GPK at ENCODE; https://www.encodeproject.org/ENCBS836GPK/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: ChIP-seq from IMR-90 (ENCLB681IZD)

description:
https://www.encodeproject.org/experiments/ENCSR664OKA/
***************
biological replicate number: 1
technical replicate number: 1
description: ELK1 ChIP-seq on human IMR-90
experiment encode accession: ENCSR664OKA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR970FKL
encode release date: 2016-09-01
lab: Michael Snyder, Stanford
library encode accession: ENCLB681IZD
size range: 150-350

value: Fetal lung fibroblasts

value: ENCBS648SCY at ENCODE; https://www.encodeproject.org/ENCBS648SCY/

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-186.aspx


title: ChIP-seq from HepG2 (ENCLB955SQO)

description:
https://www.encodeproject.org/experiments/ENCSR613TDP/
***************
biological replicate number: 1
technical replicate number: 1
description: Control ChIP-seq on human HepG2
experiment encode accession: ENCSR613TDP
assay title: ChIP-seq
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB955SQO
size range: 150-350

value: Control

value: Hepatocellular carcinoma

value: child

value: male

value: 15 year

value: hepatocellular carcinoma

value: ENCBS271FCJ at ENCODE; https://www.encodeproject.org/ENCBS271FCJ/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from HepG2 (ENCLB264IUF)

description:
https://www.encodeproject.org/experiments/ENCSR771GTF/
***************
biological replicate number: 1
technical replicate number: 1
description: SUZ12 ChIP-seq on human HepG2
experiment encode accession: ENCSR771GTF
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB264IUF
size range: 150-350

value: immortalized cell line

value: ENCBS560TQP at ENCODE; https://www.encodeproject.org/ENCBS560TQP/


title: eCLIP from HepG2 (ENCLB870QHM)

description:
https://www.encodeproject.org/experiments/ENCSR267UCX/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on HepG2 against HNRNPM
experiment encode accession: ENCSR267UCX
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR459ONR
encode release date: 2015-07-15
lab: Gene Yeo, UCSD
library encode accession: ENCLB870QHM
size range: 175-300

extract_protocol:
pipeline protocol: https://www.encodeproject.org/documents/dde0b669-0909-4f8b-946d-3cb9f35a6c52/@@download/attachment/eCLIP_analysisSOP_v1.P.pdf
extraction method: see document
general protocol: https://www.encodeproject.org/documents/fa2a3246-6039-46ba-b960-17fe06e7876a/@@download/attachment/CLIP_SOP_v1.0.pdf

value: HNRNPM

value: Gene Yeo, UCSD

value: ENCBS017VYZ at ENCODE; https://www.encodeproject.org/ENCBS017VYZ/


title: ChIP-seq from GM12878 (ENCLB355YET)

description:
https://www.encodeproject.org/experiments/ENCSR278SQL/
***************
biological replicate number: 2
technical replicate number: 1
description: NBN ChIP-seq on human GM12878
experiment encode accession: ENCSR278SQL
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR398JTO
encode release date: 2016-08-24
lab: Michael Snyder, Stanford
library encode accession: ENCLB355YET
size range: 450-650

value: NBN

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: adult

value: female

value: unknown

value: Michael Snyder, Stanford

value: ENCBS276RPG at ENCODE; https://www.encodeproject.org/ENCBS276RPG/

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: ChIP-seq from A549 (ENCLB203OIN)

description:
https://www.encodeproject.org/experiments/ENCSR636YLV/
***************
biological replicate number: 2
technical replicate number: 1
description: MAZ ChIP-seq on human A549
experiment encode accession: ENCSR636YLV
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB203OIN
size range: 150-350

value: MAZ

value: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.

value: male

value: 58 year

value: ENCBS159AAA at ENCODE; https://www.encodeproject.org/ENCBS159AAA/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023

value: ENCODE dbxrefs A549; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=A549

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-185.aspx


title: ChIP-seq from HEK293 (ENCLB710TMH)

description:
https://www.encodeproject.org/experiments/ENCSR278MZO/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq on eGFP-SALL4 tagged human HEK293 cells.
experiment encode accession: ENCSR278MZO
assay title: ChIP-seq
encode release date: 2016-10-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB710TMH
size range: 450-650

source_name: Homo sapiens HEK293 immortalized cell line derived from HEK293 stably expressing N-terminal eGFP-SALL4 fusion protein

value: Control

value: immortalized cell line

value: HEK293 cell line stably expressing N-terminal tagged eGFP-SALL4 under the control of a CMV promoter.

value: embryonic

value: ENCBS247KOX at ENCODE; https://www.encodeproject.org/ENCBS247KOX/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: ChIP-seq from HepG2 (ENCLB775TFF)

description:
https://www.encodeproject.org/experiments/ENCSR267DFA/
***************
biological replicate number: 1
technical replicate number: 1
description: FOXA1 ChIP-seq on human HepG2
experiment encode accession: ENCSR267DFA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR121CWV
encode release date: 2016-07-28
lab: Michael Snyder, Stanford
library encode accession: ENCLB775TFF
size range: 450-650

value: child

value: 15 year

value: Michael Snyder, Stanford

value: hepatocellular carcinoma

value: ENCBS767MPH at ENCODE; https://www.encodeproject.org/ENCBS767MPH/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027


title: ChIP-seq from A549 (ENCLB733OBS)

description:
https://www.encodeproject.org/experiments/ENCSR636YLV/
***************
biological replicate number: 3
technical replicate number: 1
description: MAZ ChIP-seq on human A549
experiment encode accession: ENCSR636YLV
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB733OBS
size range: 150-350

value: MAZ

value: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.

value: adult

value: male

value: 58 year

value: ENCBS127GWZ at ENCODE; https://www.encodeproject.org/ENCBS127GWZ/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: eCLIP from HepG2 (ENCLB563MQR)

description:
https://www.encodeproject.org/experiments/ENCSR265ZIS/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on HepG2 against GTF2F1
experiment encode accession: ENCSR265ZIS
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR451HMR
encode release date: 2015-11-09
lab: Gene Yeo, UCSD
library encode accession: ENCLB563MQR
size range: 175-300

value: immortalized cell line

value: Gene Yeo, UCSD

value: ENCBS308ZPA at ENCODE; https://www.encodeproject.org/ENCBS308ZPA/

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from A549 (ENCLB266MOM)

description:
https://www.encodeproject.org/experiments/ENCSR623KNM/
***************
biological replicate number: 1
technical replicate number: 1
description: ELK1 ChIP-seq on human A549
experiment encode accession: ENCSR623KNM
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB266MOM
size range: 150-350

value: ENCBS611JSC at ENCODE; https://www.encodeproject.org/ENCBS611JSC/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-185.aspx


title: ChIP-seq from HepG2 (ENCLB001BPZ)

description:
https://www.encodeproject.org/experiments/ENCSR620YNB/
***************
biological replicate number: 2
technical replicate number: 1
description: KAT2B ChIP-seq on human HepG2
experiment encode accession: ENCSR620YNB
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB001BPZ
size range: 150-350

value: child

value: 15 year

value: Michael Snyder, Stanford

value: hepatocellular carcinoma

value: ENCBS907KSW at ENCODE; https://www.encodeproject.org/ENCBS907KSW/


title: ChIP-seq from K562 (ENCLB288VUN)

description:
https://www.encodeproject.org/experiments/ENCSR557RVF/
***************
biological replicate number: 3
technical replicate number: 1
description: ZHX1 ChIP-seq on human K562
experiment encode accession: ENCSR557RVF
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB288VUN
size range: 150-350

value: adult

value: 53 year

value: female

value: chronic myelogenous leukemia (CML)

value: ENCBS594GNK at ENCODE; https://www.encodeproject.org/ENCBS594GNK/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004


title: ChIP-seq from GM12878 (ENCLB428BHK)

description:
https://www.encodeproject.org/experiments/ENCSR553NUG/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on human GM12878
experiment encode accession: ENCSR553NUG
assay title: ChIP-seq
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB428BHK
size range: 150-350

value: Control

value: immortalized cell line

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: unknown

value: ENCBS594YOH at ENCODE; https://www.encodeproject.org/ENCBS594YOH/

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: eCLIP from K562 (ENCLB654MHU)

description:
https://www.encodeproject.org/experiments/ENCSR268ETU/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against HNRNPK
experiment encode accession: ENCSR268ETU
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR669DKA
encode release date: 2015-11-09
lab: Gene Yeo, UCSD
library encode accession: ENCLB654MHU
size range: 175-300

value: HNRNPK

value: Gene Yeo, UCSD

value: ENCBS253VOZ at ENCODE; https://www.encodeproject.org/ENCBS253VOZ/

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from K562 (ENCLB194JWF)

description:
https://www.encodeproject.org/experiments/ENCSR618GDK/
***************
biological replicate number: 1
technical replicate number: 1
description: CEBPZ ChIP-seq on human K562
experiment encode accession: ENCSR618GDK
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB194JWF
size range: 150-350

value: CEBPZ

value: adult

value: 53 year

value: female

value: Michael Snyder, Stanford

value: ENCBS720UTF at ENCODE; https://www.encodeproject.org/ENCBS720UTF/


title: ChIP-seq from HepG2 (ENCLB429EFB)

description:
https://www.encodeproject.org/experiments/ENCSR620YNB/
***************
biological replicate number: 1
technical replicate number: 1
description: KAT2B ChIP-seq on human HepG2
experiment encode accession: ENCSR620YNB
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB429EFB
size range: 150-350

value: immortalized cell line

value: Hepatocellular carcinoma

value: child

value: 15 year

value: male

value: hepatocellular carcinoma

value: ENCBS560TQP at ENCODE; https://www.encodeproject.org/ENCBS560TQP/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027


title: ChIP-seq from HepG2 (ENCLB404ZTS)

description:
https://www.encodeproject.org/experiments/ENCSR613TDP/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on human HepG2
experiment encode accession: ENCSR613TDP
assay title: ChIP-seq
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB404ZTS
size range: 150-350

value: Control

value: ENCBS523AAA at ENCODE; https://www.encodeproject.org/ENCBS523AAA/


title: ChIP-seq from K562 (ENCLB199PDG)

description:
https://www.encodeproject.org/experiments/ENCSR263DFP/
***************
biological replicate number: 2
technical replicate number: 1
description: eGFP-PBX2 ChIP-seq on human K562
experiment encode accession: ENCSR263DFP
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR623SDL
encode release date: 2016-08-24
lab: Michael Snyder, Stanford
library encode accession: ENCLB199PDG

source_name: Homo sapiens K562 immortalized cell line stably expressing C-terminal eGFP-PBX2 fusion protein

value: K562 cell line stably expressing a C-terminal LAP-tag containing eGFP, fused to PBX2

value: Kevin White, UChicago

value: chronic myelogenous leukemia (CML)

value: ENCBS655BEX at ENCODE; https://www.encodeproject.org/ENCBS655BEX/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_GZ92; http://web.expasy.org/cellosaurus/CVCL_GZ92


title: eCLIP from K562 (ENCLB535CAM)

description:
https://www.encodeproject.org/experiments/ENCSR268ETU/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against HNRNPK
experiment encode accession: ENCSR268ETU
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR669DKA
encode release date: 2015-11-09
lab: Gene Yeo, UCSD
library encode accession: ENCLB535CAM
size range: 175-300

value: HNRNPK

value: immortalized cell line

value: adult

value: female

value: 53 year

value: Gene Yeo, UCSD

value: ENCBS081NLE at ENCODE; https://www.encodeproject.org/ENCBS081NLE/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: siRNA RNA-seq from K562 (ENCLB988HYX)

description:
https://www.encodeproject.org/experiments/ENCSR261IHP/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq on K562 cells treated with siRNA targeting CHD2.
experiment encode accession: ENCSR261IHP
assay title: siRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR675BVS, ENCSR608CVU
encode release date: 2016-10-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB988HYX
size range: >200
spikeins used: /references/ENCSR866KGS/

source_name: Homo sapiens K562 immortalized cell line transiently expressing siRNA targeting CHD2

value: K562 cells treated with a siRNA knockdown against CHD2, used in RNA-seq experiments.

value: Sherman Weissman, Yale

value: ENCBS462YJG at ENCODE; https://www.encodeproject.org/ENCBS462YJG/

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx


title: ChIP-seq from HepG2 (ENCLB698MGV)

description:
https://www.encodeproject.org/experiments/ENCSR261EDU/
***************
biological replicate number: 2
technical replicate number: 1
description: MNT ChIP-seq on human HepG2
experiment encode accession: ENCSR261EDU
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR770GTP, ENCSR121CWV
encode release date: 2016-07-28
lab: Michael Snyder, Stanford
library encode accession: ENCLB698MGV
size range: 450-650

value: MNT

value: Hepatocellular carcinoma

value: child

value: 15 year

value: male

value: Michael Snyder, Stanford

value: hepatocellular carcinoma

value: ENCBS591PPP at ENCODE; https://www.encodeproject.org/ENCBS591PPP/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027


title: eCLIP from HepG2 (ENCLB347LJB)

description:
https://www.encodeproject.org/experiments/ENCSR267UCX/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on HepG2 against HNRNPM
experiment encode accession: ENCSR267UCX
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR459ONR
encode release date: 2015-07-15
lab: Gene Yeo, UCSD
library encode accession: ENCLB347LJB
size range: 175-300

value: HNRNPM

value: immortalized cell line

value: Gene Yeo, UCSD

value: ENCBS983ECZ at ENCODE; https://www.encodeproject.org/ENCBS983ECZ/


title: ChIP-seq from A549 (ENCLB966UUM)

description:
https://www.encodeproject.org/experiments/ENCSR584GHV/
***************
biological replicate number: 2
technical replicate number: 1
description: NFE2L2 ChIP-seq on human A549
experiment encode accession: ENCSR584GHV
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB966UUM
size range: 150-350

value: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.

value: adult

value: 58 year

value: ENCBS139BXF at ENCODE; https://www.encodeproject.org/ENCBS139BXF/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023

value: ENCODE dbxrefs A549; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=A549

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-185.aspx


title: ChIP-seq from HepG2 (ENCLB903IJH)

description:
https://www.encodeproject.org/experiments/ENCSR261EDU/
***************
biological replicate number: 1
technical replicate number: 1
description: MNT ChIP-seq on human HepG2
experiment encode accession: ENCSR261EDU
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR770GTP, ENCSR121CWV
encode release date: 2016-07-28
lab: Michael Snyder, Stanford
library encode accession: ENCLB903IJH
size range: 450-650

value: MNT

value: child

value: 15 year

value: male

value: Michael Snyder, Stanford

value: ENCBS731WFK at ENCODE; https://www.encodeproject.org/ENCBS731WFK/


title: ChIP-seq from HeLa-S3 (ENCLB924ISO)

description:
https://www.encodeproject.org/experiments/ENCSR580ECR/
***************
biological replicate number: 1
technical replicate number: 1
description: Control ChIP-seq on human HeLa-S3
experiment encode accession: ENCSR580ECR
assay title: ChIP-seq
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB924ISO
size range: 150-350

value: Control

value: immortalized cell line

value: Cervical adenocarcinoma

value: 31 year

value: female

value: cervical adenocarcinoma

value: ENCBS577WSP at ENCODE; https://www.encodeproject.org/ENCBS577WSP/

value: Derived from ENCODE donor ENCDO000AAB; https://www.encodeproject.org/ENCDO000AAB/

value: ENCODE dbxrefs Cellosaurus CVCL_0058; http://web.expasy.org/cellosaurus/CVCL_0058

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-2.2.aspx


title: ChIP-seq from HeLa-S3 (ENCLB745WWJ)

description:
https://www.encodeproject.org/experiments/ENCSR580ECR/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on human HeLa-S3
experiment encode accession: ENCSR580ECR
assay title: ChIP-seq
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB745WWJ
size range: 150-350

value: adult

value: ENCBS352IHZ at ENCODE; https://www.encodeproject.org/ENCBS352IHZ/


title: ChIP-seq from GM12878 (ENCLB211NAT)

description:
https://www.encodeproject.org/experiments/ENCSR514VAY/
***************
biological replicate number: 2
technical replicate number: 1
description: HCFC1 ChIP-seq on human GM12878
experiment encode accession: ENCSR514VAY
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR553NUG
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB211NAT
size range: 150-350

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: unknown

value: ENCBS260WJQ at ENCODE; https://www.encodeproject.org/ENCBS260WJQ/

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: ChIP-seq from K562 (ENCLB001EOO)

description:
https://www.encodeproject.org/experiments/ENCSR277DMR/
***************
biological replicate number: 2
technical replicate number: 1
description: eGFP-ETV1 ChIP-seq on human K562
experiment encode accession: ENCSR277DMR
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR667RDX
encode release date: 2016-03-02
lab: Michael Snyder, Stanford
library encode accession: ENCLB001EOO
size range: 450-650

value: immortalized cell line

value: K562 cell line stably expressing a C-terminal LAP-tag containing eGFP, fused to ETV1

value: 53 year

value: Kevin White, UChicago

value: chronic myelogenous leukemia (CML)

value: ENCBS750HFY at ENCODE; https://www.encodeproject.org/ENCBS750HFY/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_AW20; http://web.expasy.org/cellosaurus/CVCL_AW20


title: eCLIP from HepG2 (ENCLB030OLX)

description:
https://www.encodeproject.org/experiments/ENCSR265ZIS/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on HepG2 against GTF2F1
experiment encode accession: ENCSR265ZIS
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR451HMR
encode release date: 2015-11-09
lab: Gene Yeo, UCSD
library encode accession: ENCLB030OLX
size range: 175-300

value: child

value: 15 year

value: male

value: Gene Yeo, UCSD

value: hepatocellular carcinoma

value: ENCBS362ASG at ENCODE; https://www.encodeproject.org/ENCBS362ASG/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from A549 (ENCLB179UUZ)

description:
https://www.encodeproject.org/experiments/ENCSR584GHV/
***************
biological replicate number: 1
technical replicate number: 1
description: NFE2L2 ChIP-seq on human A549
experiment encode accession: ENCSR584GHV
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB179UUZ
size range: 150-350

value: immortalized cell line

value: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.

value: adult

value: 58 year

value: Michael Snyder, Stanford

value: ENCBS159AAA at ENCODE; https://www.encodeproject.org/ENCBS159AAA/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023

value: ENCODE dbxrefs A549; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=A549

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-185.aspx


title: eCLIP from K562 (ENCLB998LZP)

description:
https://www.encodeproject.org/experiments/ENCSR249WNK/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against CPSF6
experiment encode accession: ENCSR249WNK
assay title: eCLIP
assembly: GRCh38, hg19
encode release date: 2015-07-15
lab: Gene Yeo, UCSD
library encode accession: ENCLB998LZP
size range: 175-300

value: Control

value: female

value: 53 year

value: chronic myelogenous leukemia (CML)

value: ENCBS073JAL at ENCODE; https://www.encodeproject.org/ENCBS073JAL/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx


title: ChIP-seq from K562 (ENCLB725KCV)

description:
https://www.encodeproject.org/experiments/ENCSR263DFP/
***************
biological replicate number: 1
technical replicate number: 1
description: eGFP-PBX2 ChIP-seq on human K562
experiment encode accession: ENCSR263DFP
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR623SDL
encode release date: 2016-08-24
lab: Michael Snyder, Stanford
library encode accession: ENCLB725KCV

value: immortalized cell line

value: K562 cell line stably expressing a C-terminal LAP-tag containing eGFP, fused to PBX2

value: Kevin White, UChicago

value: ENCBS860ULO at ENCODE; https://www.encodeproject.org/ENCBS860ULO/

value: ENCODE dbxrefs Cellosaurus CVCL_GZ92; http://web.expasy.org/cellosaurus/CVCL_GZ92


title: ChIP-seq from K562 (ENCLB503VCE)

description:
https://www.encodeproject.org/experiments/ENCSR249OFO/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control ChIP-seq on human eGFP-KLF1 tagged K562 cell line.
experiment encode accession: ENCSR249OFO
assay title: ChIP-seq
encode release date: 2015-12-10
lab: Michael Snyder, Stanford
library encode accession: ENCLB503VCE
size range: 450-650

source_name: Homo sapiens K562 immortalized cell line stably expressing C-terminal eGFP-KLF1 fusion protein

value: K562 cell line stably expressing a C-terminal LAP-tag containing eGFP, fused to KLF1

value: adult

value: ENCBS481LVE at ENCODE; https://www.encodeproject.org/ENCBS481LVE/

value: ENCODE dbxrefs Cellosaurus CVCL_AW32; http://web.expasy.org/cellosaurus/CVCL_AW32


title: ChIP-seq from A549 (ENCLB696EQC)

description:
https://www.encodeproject.org/experiments/ENCSR481YWD/
***************
biological replicate number: 2
technical replicate number: 1
description: SMC3 ChIP-seq on human A549
experiment encode accession: ENCSR481YWD
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2016-10-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB696EQC
size range: 150-350

value: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.

value: 58 year

value: male

value: Michael Snyder, Stanford

value: ENCBS611JSC at ENCODE; https://www.encodeproject.org/ENCBS611JSC/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-185.aspx


title: ChIP-seq from HepG2 (ENCLB098SOX)

description:
https://www.encodeproject.org/experiments/ENCSR488EES/
***************
biological replicate number: 1
technical replicate number: 1
description: NFE2L2 ChIP-seq on human HepG2
experiment encode accession: ENCSR488EES
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB098SOX
size range: 150-350

value: immortalized cell line

value: Hepatocellular carcinoma

value: child

value: 15 year

value: hepatocellular carcinoma

value: ENCBS522AAA at ENCODE; https://www.encodeproject.org/ENCBS522AAA/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from K562 (ENCLB028HUL)

description:
https://www.encodeproject.org/experiments/ENCSR557RVF/
***************
biological replicate number: 1
technical replicate number: 1
description: ZHX1 ChIP-seq on human K562
experiment encode accession: ENCSR557RVF
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB028HUL
size range: 150-350

value: adult

value: 53 year

value: female

value: chronic myelogenous leukemia (CML)

value: ENCBS626KTH at ENCODE; https://www.encodeproject.org/ENCBS626KTH/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004


title: eCLIP from HepG2 (ENCLB648TYN)

description:
https://www.encodeproject.org/experiments/ENCSR240MVJ/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on HepG2 against HNRNPU
experiment encode accession: ENCSR240MVJ
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR614VYQ
encode release date: 2015-07-15
lab: Gene Yeo, UCSD
library encode accession: ENCLB648TYN
size range: 175-300

value: HNRNPU

value: male

value: Gene Yeo, UCSD

value: ENCBS269TMY at ENCODE; https://www.encodeproject.org/ENCBS269TMY/


title: eCLIP from HepG2 (ENCLB025MOT)

description:
https://www.encodeproject.org/experiments/ENCSR240MVJ/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on HepG2 against HNRNPU
experiment encode accession: ENCSR240MVJ
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR614VYQ
encode release date: 2015-07-15
lab: Gene Yeo, UCSD
library encode accession: ENCLB025MOT
size range: 175-300

value: immortalized cell line

value: child

value: 15 year

value: ENCBS449LCQ at ENCODE; https://www.encodeproject.org/ENCBS449LCQ/


title: ChIP-seq from GM12878 (ENCLB321YWO)

description:
https://www.encodeproject.org/experiments/ENCSR553NUG/
***************
biological replicate number: 1
technical replicate number: 1
description: Control ChIP-seq on human GM12878
experiment encode accession: ENCSR553NUG
assay title: ChIP-seq
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB321YWO
size range: 150-350

value: Control

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: unknown

value: Michael Snyder, Stanford

value: ENCBS276RPG at ENCODE; https://www.encodeproject.org/ENCBS276RPG/

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: siRNA RNA-seq from K562 (ENCLB323FYM)

description:
https://www.encodeproject.org/experiments/ENCSR261IHP/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on K562 cells treated with siRNA targeting CHD2.
experiment encode accession: ENCSR261IHP
assay title: siRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR675BVS, ENCSR608CVU
encode release date: 2016-10-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB323FYM
size range: >200
spikeins used: /references/ENCSR866KGS/

value: K562 cells treated with a siRNA knockdown against CHD2, used in RNA-seq experiments.

value: adult

value: female

value: 53 year

value: chronic myelogenous leukemia (CML)

value: Sherman Weissman, Yale

value: ENCBS091JKT at ENCODE; https://www.encodeproject.org/ENCBS091JKT/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx


title: ChIP-seq from A549 (ENCLB148MTX)

description:
https://www.encodeproject.org/experiments/ENCSR481YWD/
***************
biological replicate number: 1
technical replicate number: 1
description: SMC3 ChIP-seq on human A549
experiment encode accession: ENCSR481YWD
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2016-10-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB148MTX
size range: 150-350

value: immortalized cell line

value: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.

value: 58 year

value: male

value: ENCBS854ROL at ENCODE; https://www.encodeproject.org/ENCBS854ROL/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-185.aspx


title: ChIP-seq from HEK293 (ENCLB045CDZ)

description:
https://www.encodeproject.org/experiments/ENCSR260MAS/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq on eGFP-ZBTB1 tagged human HEK293 cells.
experiment encode accession: ENCSR260MAS
assay title: ChIP-seq
encode release date: 2016-10-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB045CDZ
size range: 450-650

source_name: Homo sapiens HEK293 immortalized cell line derived from HEK293 stably expressing N-terminal eGFP-ZBTB1 fusion protein

value: Control

value: HEK293 cell line stably expressing N-terminal tagged eGFP-ZBTB1 under the control of a CMV promoter.

value: embryonic

value: unknown

value: Michael Snyder, Stanford

value: ENCBS221WVG at ENCODE; https://www.encodeproject.org/ENCBS221WVG/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: ChIP-seq from HepG2 (ENCLB036AVF)

description:
https://www.encodeproject.org/experiments/ENCSR529JYA/
***************
biological replicate number: 1
technical replicate number: 1
description: HCFC1 ChIP-seq on human HepG2
experiment encode accession: ENCSR529JYA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB036AVF
size range: 150-350

value: Hepatocellular carcinoma

value: child

value: 15 year

value: hepatocellular carcinoma

value: ENCBS560TQP at ENCODE; https://www.encodeproject.org/ENCBS560TQP/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from K562 (ENCLB663ULD)

description:
https://www.encodeproject.org/experiments/ENCSR256DQC/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control ChIP-seq on human eGFP-TEAD2 tagged K562 cell line.
experiment encode accession: ENCSR256DQC
assay title: ChIP-seq
encode release date: 2016-02-18
lab: Michael Snyder, Stanford
library encode accession: ENCLB663ULD
size range: 450-650

source_name: Homo sapiens K562 immortalized cell line stably expressing C-terminal eGFP-TEAD2 fusion protein

value: immortalized cell line

value: K562 cell line stably expressing a C-terminal LAP-tag containing eGFP, fused to TEAD2

value: adult

value: 53 year

value: female

value: Kevin White, UChicago

value: chronic myelogenous leukemia (CML)

value: ENCBS661EXX at ENCODE; https://www.encodeproject.org/ENCBS661EXX/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_AW45; http://web.expasy.org/cellosaurus/CVCL_AW45


title: ChIP-seq from K562 (ENCLB908SMN)

description:
https://www.encodeproject.org/experiments/ENCSR237VLT/
***************
biological replicate number: 2
technical replicate number: 1
description: ZBTB40 ChIP-seq on human K562
experiment encode accession: ENCSR237VLT
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR173USI, ENCSR554FDZ
encode release date: 2016-08-01
lab: Michael Snyder, Stanford
library encode accession: ENCLB908SMN
size range: 450-650

source_name: Homo sapiens K562 immortalized cell line

value: Leukemia, the continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises. - ATCC

value: Michael Snyder, Stanford

value: ENCBS048GNZ at ENCODE; https://www.encodeproject.org/ENCBS048GNZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx


title: ChIP-seq from GM12878 (ENCLB339IXL)

description:
https://www.encodeproject.org/experiments/ENCSR514VAY/
***************
biological replicate number: 1
technical replicate number: 1
description: HCFC1 ChIP-seq on human GM12878
experiment encode accession: ENCSR514VAY
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR553NUG
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB339IXL
size range: 150-350

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: unknown

value: ENCBS276RPG at ENCODE; https://www.encodeproject.org/ENCBS276RPG/

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: ChIP-seq from HepG2 (ENCLB456ZGC)

description:
https://www.encodeproject.org/experiments/ENCSR267DFA/
***************
biological replicate number: 2
technical replicate number: 1
description: FOXA1 ChIP-seq on human HepG2
experiment encode accession: ENCSR267DFA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR121CWV
encode release date: 2016-07-28
lab: Michael Snyder, Stanford
library encode accession: ENCLB456ZGC
size range: 450-650

value: immortalized cell line

value: child

value: 15 year

value: male

value: hepatocellular carcinoma

value: ENCBS803ZJJ at ENCODE; https://www.encodeproject.org/ENCBS803ZJJ/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027


title: ChIP-seq from HepG2 (ENCLB751OIQ)

description:
https://www.encodeproject.org/experiments/ENCSR488EES/
***************
biological replicate number: 2
technical replicate number: 1
description: NFE2L2 ChIP-seq on human HepG2
experiment encode accession: ENCSR488EES
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB751OIQ
size range: 150-350

value: Hepatocellular carcinoma

value: Michael Snyder, Stanford

value: ENCBS523AAA at ENCODE; https://www.encodeproject.org/ENCBS523AAA/

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from HepG2 (ENCLB320JAS)

description:
https://www.encodeproject.org/experiments/ENCSR452YHM/
***************
biological replicate number: 2
technical replicate number: 1
description: SIN3B ChIP-seq on human HepG2
experiment encode accession: ENCSR452YHM
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB320JAS
size range: 150-350


title: ChIP-seq from HepG2 (ENCLB649IQZ)

description:
https://www.encodeproject.org/experiments/ENCSR529JYA/
***************
biological replicate number: 2
technical replicate number: 1
description: HCFC1 ChIP-seq on human HepG2
experiment encode accession: ENCSR529JYA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB649IQZ
size range: 150-350

value: ENCBS907KSW at ENCODE; https://www.encodeproject.org/ENCBS907KSW/


title: ChIP-seq from K562 (ENCLB215DSK)

description:
https://www.encodeproject.org/experiments/ENCSR237VLT/
***************
biological replicate number: 1
technical replicate number: 1
description: ZBTB40 ChIP-seq on human K562
experiment encode accession: ENCSR237VLT
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR173USI, ENCSR554FDZ
encode release date: 2016-08-01
lab: Michael Snyder, Stanford
library encode accession: ENCLB215DSK
size range: 450-650

value: Leukemia, the continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises. - ATCC

value: adult

value: 53 year

value: female

value: chronic myelogenous leukemia (CML)

value: ENCBS603CUX at ENCODE; https://www.encodeproject.org/ENCBS603CUX/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx


title: ChIP-seq from A549 (ENCLB625NLD)

description:
https://www.encodeproject.org/experiments/ENCSR473SUA/
***************
biological replicate number: 1
technical replicate number: 1
description: ESRRA ChIP-seq on human A549
experiment encode accession: ENCSR473SUA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB625NLD
size range: 150-350

value: ESRRA

value: immortalized cell line

value: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.

value: 58 year

value: male

value: ENCBS611JSC at ENCODE; https://www.encodeproject.org/ENCBS611JSC/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-185.aspx


title: ChIP-seq from HEK293T (ENCLB939DXY)

description:
https://www.encodeproject.org/experiments/ENCSR237TFX/
***************
biological replicate number: 1
technical replicate number: 1
description: CTBP1 ChIP-seq on human HEK293T
experiment encode accession: ENCSR237TFX
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR386FAB
encode release date: 2016-11-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB939DXY
size range: 450-650

source_name: Homo sapiens HEK293T immortalized cell line

value: embryonic

value: unknown

value: Michael Snyder, Stanford

value: ENCBS582KZL at ENCODE; https://www.encodeproject.org/ENCBS582KZL/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: ChIP-seq from GM12878 (ENCLB465JXC)

description:
https://www.encodeproject.org/experiments/ENCSR459FTB/
***************
biological replicate number: 2
technical replicate number: 1
description: UBTF ChIP-seq on human GM12878
experiment encode accession: ENCSR459FTB
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR553NUG
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB465JXC
size range: 150-350

value: UBTF

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: adult

value: female

value: ENCBS260WJQ at ENCODE; https://www.encodeproject.org/ENCBS260WJQ/

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: D.vir male 1

first: Jin Billy

last: Li

state: California

address: 300 Pasteur Drive. Alway M303

department: Genetics

institute: Stanford University

data_processing:
Primer sequences were trimmed off paired or single-end sequencing reads before mapping using Tophat.
RNA editing levels were calculated as the fraction of G reads at each site. Only sites covered by 50 reads were used
Genome_build: dm3/droSim1/droYak2/droAna2/dp3/droVir3
Supplementary_files_format_and_content: Processed data files are tab-delineated with a header line and include editing levels of different Drosophila strains and species.

organism: Drosophila virilis

source_name: male whole body

growth_protocol: Whole bodies of adult male and female flies aged 5 days old were collected.

extract_protocol:
Total RNA was extracted using the Rneasy Kit (Qiagen). After DNase I treatment, 3 ug of total RNA was used to synthesize the cDNA using iScript Advanced cDNA Synthesis Kit (Bio-Rad). cDNA was purified using the MinElute PCR Purification Kit (Qiagen)
Libraries were prepared by pooling all of the PCR products for a particular sample and barcoding them uniquely using a 15 cycle PCR reaction.
microfluidic multiplex PCR (mmPCR-seq) or targeted sequencing

tag: developmental stage

value: 5 day old adult

tag: replicate

tag: library strategy

value: mmPCR-seq

tag: strain


title: ChIP-seq from HEK293T (ENCLB609YJT)

description:
https://www.encodeproject.org/experiments/ENCSR237TFX/
***************
biological replicate number: 2
technical replicate number: 1
description: CTBP1 ChIP-seq on human HEK293T
experiment encode accession: ENCSR237TFX
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR386FAB
encode release date: 2016-11-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB609YJT
size range: 450-650

value: immortalized cell line

value: ENCBS276VDW at ENCODE; https://www.encodeproject.org/ENCBS276VDW/


title: ChIP-seq from HEK293 (ENCLB234VXS) -2

description:
https://www.encodeproject.org/experiments/ENCSR236FPN/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq on eGFP-ZEB2 tagged human HEK293 cells.
experiment encode accession: ENCSR236FPN
assay title: ChIP-seq
encode release date: 2016-10-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB234VXS
size range: 450-650

source_name: Homo sapiens HEK293 immortalized cell line derived from HEK293 stably expressing N-terminal eGFP-ZEB2 fusion protein

value: Control

value: HEK293 cell line stably expressing N-terminal tagged eGFP-ZEB2 under the control of a CMV promoter.

value: embryonic

value: ENCBS768DUW at ENCODE; https://www.encodeproject.org/ENCBS768DUW/


title: ChIP-seq from K562 (ENCLB432TRR)

description:
https://www.encodeproject.org/experiments/ENCSR412CTM/
***************
biological replicate number: 1
technical replicate number: 1
description: SUZ12 ChIP-seq on human K562
experiment encode accession: ENCSR412CTM
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2016-06-14
lab: Michael Snyder, Stanford
library encode accession: ENCLB432TRR
size range: 150-350

value: Leukemia, the continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises. - ATCC

value: 53 year

value: Michael Snyder, Stanford

value: chronic myelogenous leukemia (CML)

value: ENCBS489ZOH at ENCODE; https://www.encodeproject.org/ENCBS489ZOH/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx


title: ChIP-seq from HEK293T (ENCLB697AXU)

description:
https://www.encodeproject.org/experiments/ENCSR233FAG/
***************
biological replicate number: 1
technical replicate number: 1
description: PKNOX1 ChIP-seq on human HEK293T
experiment encode accession: ENCSR233FAG
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR386FAB
encode release date: 2016-11-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB697AXU
size range: 450-650

value: female

value: unknown

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: ChIP-seq from HepG2 (ENCLB165BOU)

description:
https://www.encodeproject.org/experiments/ENCSR452YHM/
***************
biological replicate number: 1
technical replicate number: 1
description: SIN3B ChIP-seq on human HepG2
experiment encode accession: ENCSR452YHM
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR613TDP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB165BOU
size range: 150-350

value: immortalized cell line

value: Hepatocellular carcinoma

value: child

value: 15 year

value: male

value: hepatocellular carcinoma

value: ENCBS522AAA at ENCODE; https://www.encodeproject.org/ENCBS522AAA/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/

value: ENCODE dbxrefs Cellosaurus CVCL_0027; http://web.expasy.org/cellosaurus/CVCL_0027

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: ChIP-seq from SK-N-SH (ENCLB086FNB)

description:
https://www.encodeproject.org/experiments/ENCSR422ZAO/
***************
biological replicate number: 3
technical replicate number: 1
description: IRF3 ChIP-seq on human SK-N-SH
experiment encode accession: ENCSR422ZAO
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR000FDA
encode release date: 2016-11-10
lab: Michael Snyder, Stanford
library encode accession: ENCLB086FNB
size range: 150-350

source_name: Homo sapiens SK-N-SH immortalized cell line

value: SK-N-SH

value: Neuroblastoma, the SK-N-SH line was established from a neuroblastoma in a 4 year old individual.

value: 4 year

value: Michael Snyder, Stanford

value: ENCBS061YYT at ENCODE; https://www.encodeproject.org/ENCBS061YYT/

value: Derived from ENCODE donor ENCDO000ABD; https://www.encodeproject.org/ENCDO000ABD/


title: ChIP-seq from MCF-7 (ENCLB037QBB)

description:
https://www.encodeproject.org/experiments/ENCSR234VCE/
***************
biological replicate number: 2
technical replicate number: 1
description: DPF2 ChIP-seq on human MCF-7
experiment encode accession: ENCSR234VCE
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR594UCI, ENCSR217LRF
encode release date: 2016-04-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB037QBB
size range: 450-650

source_name: Homo sapiens MCF-7 immortalized cell line

value: adult

value: 69 year

value: female

value: breast cancer (adenocarcinoma)

value: ENCBS670IYV at ENCODE; https://www.encodeproject.org/ENCBS670IYV/

value: Derived from ENCODE donor ENCDO000AAE; https://www.encodeproject.org/ENCDO000AAE/

value: ENCODE dbxrefs Cellosaurus CVCL_0031; http://web.expasy.org/cellosaurus/CVCL_0031


title: D.vir male 2

value: 5 day old adult

value: mmPCR-seq


title: ChIP-seq from HEK293T (ENCLB837VPN)

description:
https://www.encodeproject.org/experiments/ENCSR233FAG/
***************
biological replicate number: 2
technical replicate number: 1
description: PKNOX1 ChIP-seq on human HEK293T
experiment encode accession: ENCSR233FAG
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR386FAB
encode release date: 2016-11-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB837VPN
size range: 450-650

value: immortalized cell line

value: embryonic

value: unknown

value: ENCBS582KZL at ENCODE; https://www.encodeproject.org/ENCBS582KZL/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: D.vir female 2

source_name: female whole body


title: ChIP-seq from K562 (ENCLB909AKQ)

description:
https://www.encodeproject.org/experiments/ENCSR412CTM/
***************
biological replicate number: 2
technical replicate number: 1
description: SUZ12 ChIP-seq on human K562
experiment encode accession: ENCSR412CTM
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2016-06-14
lab: Michael Snyder, Stanford
library encode accession: ENCLB909AKQ
size range: 150-350

value: Leukemia, the continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises. - ATCC

value: 53 year

value: chronic myelogenous leukemia (CML)

value: Michael Snyder, Stanford

value: ENCBS207UAM at ENCODE; https://www.encodeproject.org/ENCBS207UAM/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx


title: ChIP-seq from A549 (ENCLB829XDO)

description:
https://www.encodeproject.org/experiments/ENCSR473SUA/
***************
biological replicate number: 2
technical replicate number: 1
description: ESRRA ChIP-seq on human A549
experiment encode accession: ENCSR473SUA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR949BZP
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB829XDO
size range: 150-350

value: ESRRA

value: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.

value: adult

value: male

value: 58 year

value: ENCBS277AMO at ENCODE; https://www.encodeproject.org/ENCBS277AMO/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-185.aspx


title: D. sim female 2

organism: Drosophila simulans

value: 5 day old adult

value: mmPCR-seq


title: ChIP-seq from MCF-7 (ENCLB862XAX)

description:
https://www.encodeproject.org/experiments/ENCSR234VCE/
***************
biological replicate number: 1
technical replicate number: 1
description: DPF2 ChIP-seq on human MCF-7
experiment encode accession: ENCSR234VCE
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR594UCI, ENCSR217LRF
encode release date: 2016-04-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB862XAX
size range: 450-650

value: immortalized cell line

value: female

value: 69 year

value: breast cancer (adenocarcinoma)

value: ENCBS158RRU at ENCODE; https://www.encodeproject.org/ENCBS158RRU/

value: Derived from ENCODE donor ENCDO000AAE; https://www.encodeproject.org/ENCDO000AAE/

value: ENCODE dbxrefs Cellosaurus CVCL_0031; http://web.expasy.org/cellosaurus/CVCL_0031


title: ChIP-seq from MCF-7 (ENCLB020AHW)

description:
https://www.encodeproject.org/experiments/ENCSR231YFE/
***************
biological replicate number: 1
technical replicate number: 1
description: ZBTB33 ChIP-seq on human MCF-7
experiment encode accession: ENCSR231YFE
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR217LRF
encode release date: 2016-11-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB020AHW
size range: 450-650

value: Michael Snyder, Stanford

value: ENCBS637YEV at ENCODE; https://www.encodeproject.org/ENCBS637YEV/


title: D. sim male 2


title: ChIP-seq from GM12878 (ENCLB684SXP)

description:
https://www.encodeproject.org/experiments/ENCSR459FTB/
***************
biological replicate number: 1
technical replicate number: 1
description: UBTF ChIP-seq on human GM12878
experiment encode accession: ENCSR459FTB
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR553NUG
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB684SXP
size range: 150-350

source_name: Homo sapiens GM12878 immortalized cell line

value: UBTF

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: adult

value: unknown

value: ENCBS276RPG at ENCODE; https://www.encodeproject.org/ENCBS276RPG/

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: D. sim female 1

value: 5 day old adult

value: mmPCR-seq


title: ChIP-seq from HeLa-S3 (ENCLB122EJO)

description:
https://www.encodeproject.org/experiments/ENCSR392EAA/
***************
biological replicate number: 1
technical replicate number: 1
description: CHD1 ChIP-seq on human HeLa-S3
experiment encode accession: ENCSR392EAA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR580ECR
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB122EJO
size range: 150-350

source_name: Homo sapiens HeLa-S3 immortalized cell line

value: immortalized cell line

value: 31 year

value: female

value: cervical adenocarcinoma

value: ENCBS529RSF at ENCODE; https://www.encodeproject.org/ENCBS529RSF/

value: Derived from ENCODE donor ENCDO000AAB; https://www.encodeproject.org/ENCDO000AAB/

value: ENCODE dbxrefs Cellosaurus CVCL_0058; http://web.expasy.org/cellosaurus/CVCL_0058


title: ChIP-seq from GM12878 (ENCLB978QCG)

description:
https://www.encodeproject.org/experiments/ENCSR347NOB/
***************
biological replicate number: 1
technical replicate number: 1
description: CEBPZ ChIP-seq on human GM12878
experiment encode accession: ENCSR347NOB
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR553NUG
encode release date: 2016-03-02
lab: Michael Snyder, Stanford
library encode accession: ENCLB978QCG
size range: 150-350

value: CEBPZ

value: Michael Snyder, Stanford

value: ENCBS595CWJ at ENCODE; https://www.encodeproject.org/ENCBS595CWJ/


title: D. sim male 1


title: ChIP-seq from MCF-7 (ENCLB455BDY)

description:
https://www.encodeproject.org/experiments/ENCSR231YFE/
***************
biological replicate number: 2
technical replicate number: 1
description: ZBTB33 ChIP-seq on human MCF-7
experiment encode accession: ENCSR231YFE
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR217LRF
encode release date: 2016-11-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB455BDY
size range: 450-650

value: adult

value: 69 year

value: breast cancer (adenocarcinoma)

value: ENCBS183ZAS at ENCODE; https://www.encodeproject.org/ENCBS183ZAS/

value: Derived from ENCODE donor ENCDO000AAE; https://www.encodeproject.org/ENCDO000AAE/


title: ChIP-seq from GM12878 (ENCLB891MQA)

description:
https://www.encodeproject.org/experiments/ENCSR819ATC/
***************
biological replicate number: 3
technical replicate number: 1
description: MYB ChIP-seq on human GM12878
experiment encode accession: ENCSR819ATC
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR553NUG
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB891MQA
size range: 150-350

value: MYB

value: unknown

value: ENCBS831YAX at ENCODE; https://www.encodeproject.org/ENCBS831YAX/

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

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


title: ChIP-seq from HeLa-S3 (ENCLB306NGN)

description:
https://www.encodeproject.org/experiments/ENCSR392EAA/
***************
biological replicate number: 2
technical replicate number: 1
description: CHD1 ChIP-seq on human HeLa-S3
experiment encode accession: ENCSR392EAA
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR580ECR
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB306NGN
size range: 150-350

value: immortalized cell line

value: 31 year

value: female

value: cervical adenocarcinoma

value: ENCBS450RLH at ENCODE; https://www.encodeproject.org/ENCBS450RLH/


title: 14317A_3_treat_48hrs

city: Zhengzhou city

first: Juan

state: Henan

address: kexue road

department: college of public health

country: China

institute: Zhengzhou University

description: Index: ACAGTG

data_processing:
Basecalls performed using CASAVA version 1.4
  A Perl program was used to filter off low quality sequences from raw sequencing data. Then, the remaining high quality reads of a sample were mapped by bowtie software (version 0.12.8) to the Rat genome downloaded from Ensembl  with the default parameter.
Peaks were called using MACS(Model-based Analysis for ChIP-Seq) using the parameter:-f BOWTIE -w –S.
Wig files were generated using Integrative Genomics Viewer(v2.3.18); the normalized read counts were used to measure level of methylated peaks to allow for comparison between experiments. Transcripts Reads Number Per Million (TPM) method was used to normalize the read counts. The formula is: TPM=1000000*（The Transcript Mapped Reads) / (Total Mapped Reads).
Genome_build: rn5
Supplementary_files_format_and_content: wig files

organism: Rattus norvegicus

source_name: Lung

growth_protocol: Lung fibroblasts were isolated from SPF male SD rats. Briefly, lung tissue was separated from the main airways of adult SD rats under sterile conditions. The explants were minced, washed 3 times with D-Hank’s solution, and disaggregated with crude bovine pancreatic trypsin. The resulting cell population was resuspended in DMEM (Olarbio Science and Technology, Beijing, China) containing 10% heat-inactivated fetal calf serum at 37˚C and 5% CO2. Rat macrophages (AMs) were collected from the SD rats by bronchoalveolar lavage (BAL). Tracheas were cannulated and BAL was performed with 5 ml cold sterile D-Hank's solution. After counted the cell number, the cells were incubated at 37˚C for 2 hours at 5% CO2 and then refresh new medium.

extract_protocol:
Genomic DNA was isolated using the DNeasy Kit (Qiagen, CA) according to the manufacturer’s protocols.
Libraries were prepared according to the manufacturer’s protocol, the fragmented DNA were end-repaired, A-tailed, ligated adapter and purified using Agencourt AMPure XP kit. 0.4µg DNA was used for subsequent MeDIP enrichment. Briefly, immunoprecipitation was carried out at 37˚C for 0.5 hr to 1 hr. After amplification and purification, we performed agarose gel electrophoresis and excised bands from the gel to produce libraries with insert sizes of ~125bp, then quantified these libraries using KAPA DNA Reagent and Kits (KAPA Biosystem). The total libraries randomly arranged in 8 lanes were sequenced by the Next Generation Sequencing.

treatment_protocol: The co-culture was established of AMs and fibroblasts. Seeding fibroblasts into six-well plates and incubated for one or two days until approximately 60% confluence was achieved. AMs were seeding into the inserts and placed the insert into the six-well dish and then exposed to 100µg/ml SiO2 for 0-, 24-, and 48 hours after overnight culture.

tag: cell type

value: fibroblast

tag: passage

value: SD

tag: co-culture

value: Yes

tag: sio2 treatment

tag: treatment time

value: 48 hours


title: 14317A_input control

description: Index: GCCAAT

value: No


title: ChIP-seq from K562 (ENCLB222OKX)

description:
https://www.encodeproject.org/experiments/ENCSR376WCJ/
***************
biological replicate number: 3
technical replicate number: 1
description: IRF2 ChIP-seq on human K562
experiment encode accession: ENCSR376WCJ
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR080EOT
encode release date: 2014-07-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB222OKX
size range: 150-350

tag: antibody

tag: line

tag: description

value: Leukemia, the continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises. - ATCC

tag: biosample encode accession

value: adult

value: 53 year

value: chronic myelogenous leukemia (CML)

value: Michael Snyder, Stanford

value: ENCBS351GWD at ENCODE; https://www.encodeproject.org/ENCBS351GWD/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx


title: ChIP-seq from MCF-7 (ENCLB414GMO)

description:
https://www.encodeproject.org/experiments/ENCSR231ENE/
***************
biological replicate number: 1
technical replicate number: 1
description: ARID3A ChIP-seq on human MCF-7
experiment encode accession: ENCSR231ENE
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR217LRF
encode release date: 2016-11-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB414GMO
size range: 450-650

value: immortalized cell line

tag: dev stage

tag: age

value: 69 year

tag: Sex

value: female

tag: lab

value: breast cancer (adenocarcinoma)

value: ENCBS637YEV at ENCODE; https://www.encodeproject.org/ENCBS637YEV/

value: Derived from ENCODE donor ENCDO000AAE; https://www.encodeproject.org/ENCDO000AAE/


title: D.vir female 1

tag: developmental stage

value: 5 day old adult

value: mmPCR-seq


title: ChIP-seq from HEK293 (ENCLB436NBV)

description:
https://www.encodeproject.org/experiments/ENCSR228PGT/
***************
biological replicate number: 2
technical replicate number: 1
description: eGFP-ZNF292 ChIP-seq on human HEK293 cells.
experiment encode accession: ENCSR228PGT
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR007GUS, ENCSR049NDP, ENCSR110ZVM, ENCSR123TVS, ENCSR236FPN, ENCSR260MAS, ENCSR278MZO, ENCSR311DYU, ENCSR316OQD, ENCSR361UQO, ENCSR398UVH, ENCSR468NLK, ENCSR499OOH, ENCSR499QIO, ENCSR523KUQ, ENCSR537CWQ, ENCSR603CJM, ENCSR679WSJ, ENCSR736BTL, ENCSR782QKO, ENCSR840JVQ, ENCSR851FFP, ENCSR860UAT, ENCSR873PPH
encode release date: 2016-10-07
lab: Michael Snyder, Stanford
library encode accession: ENCLB436NBV
size range: 450-650

source_name: Homo sapiens HEK293 immortalized cell line derived from HEK293 stably expressing N-terminal eGFP-ZNF292 fusion protein

value: HEK293 cell line stably expressing N-terminal tagged eGFP-ZNF292 under the control of a CMV promoter.

value: embryonic

value: unknown

tag: health state

tag: link

value: ENCBS918UBA at ENCODE; https://www.encodeproject.org/ENCBS918UBA/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: eCLIP from K562 (ENCLB378ERI)

description:
https://www.encodeproject.org/experiments/ENCSR224QWC/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against FXR2
experiment encode accession: ENCSR224QWC
assay title: eCLIP
assembly: GRCh38, hg19
possible controls: ENCSR411IMJ
encode release date: 2015-11-09
lab: Gene Yeo, UCSD
library encode accession: ENCLB378ERI
size range: 175-300

value: adult

value: 53 year

tag: passage number

value: Gene Yeo, UCSD

value: chronic myelogenous leukemia (CML)

value: ENCBS855ZEG at ENCODE; https://www.encodeproject.org/ENCBS855ZEG/


title: 14317A_1_treat_0hrs

description: Index: CGATGT

tag: cell type

value: fibroblast

tag: strain

value: SD

value: Yes

value: No


title: ChIP-seq from SK-N-SH (ENCLB406QGW)

description:
https://www.encodeproject.org/experiments/ENCSR422ZAO/
***************
biological replicate number: 2
technical replicate number: 1
description: IRF3 ChIP-seq on human SK-N-SH
experiment encode accession: ENCSR422ZAO
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR000FDA
encode release date: 2016-11-10
lab: Michael Snyder, Stanford
library encode accession: ENCLB406QGW
size range: 150-350

value: SK-N-SH

value: immortalized cell line

value: child

value: 4 year

value: female

value: Michael Snyder, Stanford

value: ENCBS526AQV at ENCODE; https://www.encodeproject.org/ENCBS526AQV/

value: Derived from ENCODE donor ENCDO000ABD; https://www.encodeproject.org/ENCDO000ABD/


title: ChIP-seq from GM12878 (ENCLB860FVB)

description:
https://www.encodeproject.org/experiments/ENCSR347NOB/
***************
biological replicate number: 3
technical replicate number: 1
description: CEBPZ ChIP-seq on human GM12878
experiment encode accession: ENCSR347NOB
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR553NUG
encode release date: 2016-03-02
lab: Michael Snyder, Stanford
library encode accession: ENCLB860FVB
size range: 150-350

value: CEBPZ

value: adult

value: unknown

value: ENCBS176TMN at ENCODE; https://www.encodeproject.org/ENCBS176TMN/

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

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