title: TF ChIP-seq from whole organism (ENCLB449OLL)

description:
https://www.encodeproject.org/experiments/ENCSR833LUF/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing odsH-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR833LUF
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR320AIQ
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB449OLL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: not applicable

value: pooled male and female

value: ENCBS055HQC at ENCODE; https://www.encodeproject.org/ENCBS055HQC/


title: Control ChIP-seq from whole organism (ENCLB408YZK)

status: Public on Feb 27 2024

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/ENCSR948MUA/
***************
biological replicate number: 2
technical replicate number: 2
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR948MUA
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB408YZK
fragmentation methods: sonication (generic microtip)

library_source: genomic

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

molecule: genomic DNA

organism: Caenorhabditis elegans

source_name: Caenorhabditis elegans strain OP219 (unc-119(ed3) III; wgIs219) mixed sex L4 larva insertion targeting C. elegans attf-4

extract_protocol: not provided

value: whole organism

tag: biosample encode accession

tag: collection date

tag: geographic location

tag: encode accession

tag: note

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to C05D10.1

tag: Sex

tag: dev stage

value: L4 larva

tag: age

value: unknown

tag: lab

value: Michael Snyder, Stanford

tag: source

value: Michael Snyder

tag: link

value: ENCBS387GGQ at ENCODE; https://www.encodeproject.org/ENCBS387GGQ/


title: Control ChIP-seq from whole organism (ENCLB620TUY)

description:
https://www.encodeproject.org/experiments/ENCSR830VBI/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing jim-eGFP fusion proteins.
experiment encode accession: ENCSR830VBI
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB620TUY
fragmentation methods: sonication (Bioruptor generic)
size range: 200-300

organism: Drosophila melanogaster

source_name: Drosophila melanogaster strain jim-GFP mixed sex wandering third instar larva insertion targeting D. melanogaster jim

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to jim

value: wandering third instar larva

value: Kevin White, UChicago

value: Kevin White

value: ENCBS005FEN at ENCODE; https://www.encodeproject.org/ENCBS005FEN/


title: Control ChIP-seq from whole organism (ENCLB454ZPD)

description:
https://www.encodeproject.org/experiments/ENCSR650IGG/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR650IGG
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB454ZPD
size range: 150-350

source_name: Caenorhabditis elegans strain OP217 (unc-119(ed3) III; ddIs172) mixed sex L2 larva insertion targeting C. elegans aly-2

value: L2 larva

value: CGC

value: ENCBS878FYE at ENCODE; https://www.encodeproject.org/ENCBS878FYE/


title: TF ChIP-seq from whole organism (ENCLB469WEH)

description:
https://www.encodeproject.org/experiments/ENCSR652MCL/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against UNC-62 in L4 worms.
experiment encode accession: ENCSR652MCL
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR191QNY
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB469WEH
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP602 mixed sex L4 larva insertion targeting C. elegans unc-62

tag: antibody

value: whole organisms

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to UNC-62

value: pooled male and female

value: ENCBS894ALV at ENCODE; https://www.encodeproject.org/ENCBS894ALV/


title: TF ChIP-seq from whole organism (ENCLB235OXY)

description:
https://www.encodeproject.org/experiments/ENCSR773BGH/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-peb-1 in L2 larva worms.
experiment encode accession: ENCSR773BGH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR083EPE
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB235OXY
size range: 150-350

source_name: Caenorhabditis elegans strain OP86 (unc-119(ed3) III; wgIs86) mixed sex L2 larva insertion targeting C. elegans peb-1

value: whole organism

value: unknown

value: ENCBS944TQU at ENCODE; https://www.encodeproject.org/ENCBS944TQU/


title: TF ChIP-seq from whole organism (ENCLB812XZJ)

description:
https://www.encodeproject.org/experiments/ENCSR773BGH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-peb-1 in L2 larva worms.
experiment encode accession: ENCSR773BGH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR083EPE
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB812XZJ
size range: 150-350

value: Michael Snyder, Stanford

value: ENCBS796HRR at ENCODE; https://www.encodeproject.org/ENCBS796HRR/


title: TF ChIP-seq from whole organism (ENCLB195ULI)

description:
https://www.encodeproject.org/experiments/ENCSR826CFP/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG11762-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR826CFP
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR269HSO
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB195ULI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG11762-GFP mixed sex prepupa insertion targeting D. melanogaster ouib

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG11762

value: prepupa

value: ENCBS037YRZ at ENCODE; https://www.encodeproject.org/ENCBS037YRZ/


title: TF ChIP-seq from whole organism (ENCLB433NFB)

description:
https://www.encodeproject.org/experiments/ENCSR653IDD/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing NFYA-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR653IDD
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR458NUL
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB433NFB
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP404 (unc-119(tm4063) III; wgIs404) hermaphrodite L3 larva insertion targeting C. elegans nfya-1

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to NFYA-1

value: hermaphrodite

value: L3 larva

value: Valerie Reinke, Yale

value: Valerie Reinke

value: ENCBS457XKZ at ENCODE; https://www.encodeproject.org/ENCBS457XKZ/


title: TF ChIP-seq from whole organism (ENCLB339RUF)

description:
https://www.encodeproject.org/experiments/ENCSR833LUF/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing odsH-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR833LUF
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR320AIQ
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB339RUF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain OdsH-GFP mixed sex prepupa at white prepupa stage insertion targeting D. melanogaster OdsH

value: OdsH

value: whole organisms

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to odsH

value: Kevin White, UChicago

value: Kevin White

tag: fly synchronization stage

value: white prepupa

value: ENCBS567UUM at ENCODE; https://www.encodeproject.org/ENCBS567UUM/


title: TF ChIP-seq from whole organism (ENCLB044KYI)

description:
https://www.encodeproject.org/experiments/ENCSR826CFP/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG11762-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR826CFP
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR269HSO
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB044KYI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG11762

value: pooled male and female

value: unknown

value: ENCBS094IMU at ENCODE; https://www.encodeproject.org/ENCBS094IMU/


title: TF ChIP-seq from whole organism (ENCLB573RIS)

description:
https://www.encodeproject.org/experiments/ENCSR826CFP/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG11762-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR826CFP
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR269HSO
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB573RIS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: prepupa

value: ENCBS259BUH at ENCODE; https://www.encodeproject.org/ENCBS259BUH/


title: Control ChIP-seq from whole organism (ENCLB217MYJ)

description:
https://www.encodeproject.org/experiments/ENCSR649KYB/
***************
biological replicate number: 4
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR649KYB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB217MYJ
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP203 (unc-119(ed3) III; wgIs203) mixed sex L3 larva insertion targeting C. elegans nhr-76

value: L3 larva

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS294WVD at ENCODE; https://www.encodeproject.org/ENCBS294WVD/


title: TF ChIP-seq from whole organism (ENCLB272JTU)

description:
https://www.encodeproject.org/experiments/ENCSR774DUH/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing DVE-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR774DUH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR674LVV
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB272JTU
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP398 (unc-119(tm4063) III; wgIs398) hermaphrodite late embryo insertion targeting C. elegans dve-1

value: whole organisms

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to DVE-1

value: hermaphrodite

value: late embryonic

value: Valerie Reinke, Yale

value: Valerie Reinke

value: ENCBS917QQH at ENCODE; https://www.encodeproject.org/ENCBS917QQH/


title: Control ChIP-seq from whole organism (ENCLB491TMV)

description:
https://www.encodeproject.org/experiments/ENCSR649KYB/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR649KYB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB491TMV
size range: 150-350

value: whole organism

value: pooled male and female

value: CGC

value: ENCBS773ZDM at ENCODE; https://www.encodeproject.org/ENCBS773ZDM/


title: TF ChIP-seq from whole organism (ENCLB070RIA)

description:
https://www.encodeproject.org/experiments/ENCSR997UIM/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing pnt-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR997UIM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR249WKC
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB070RIA
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain pnt-MiMIC-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster pnt

value: pnt

value: D. mel line contraining an intronic eGFP exon to create a pnt-GFP fusion gene

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Hugo Bellen

value: ENCBS134TEE at ENCODE; https://www.encodeproject.org/ENCBS134TEE/


title: Control ChIP-seq from whole organism (ENCLB266UIS)

description:
https://www.encodeproject.org/experiments/ENCSR650IGG/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR650IGG
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB266UIS
size range: 150-350

value: whole organisms

value: not applicable

value: L2 larva

value: unknown

value: Michael Snyder, Stanford

value: ENCBS829QJJ at ENCODE; https://www.encodeproject.org/ENCBS829QJJ/


title: Control ChIP-seq from whole organism (ENCLB091FYH)

description:
https://www.encodeproject.org/experiments/ENCSR996PHG/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing net-eGFP fusion proteins.
experiment encode accession: ENCSR996PHG
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB091FYH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain net-GFP mixed sex prepupa insertion targeting D. melanogaster net

value: whole organism

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to net

value: prepupa

value: Kevin White

value: ENCBS525NBN at ENCODE; https://www.encodeproject.org/ENCBS525NBN/


title: TF ChIP-seq from whole organism (ENCLB775LZT)

description:
https://www.encodeproject.org/experiments/ENCSR997UIM/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing pnt-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR997UIM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR249WKC
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB775LZT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: pnt

value: D. mel line contraining an intronic eGFP exon to create a pnt-GFP fusion gene

value: pooled male and female

value: ENCBS778XPF at ENCODE; https://www.encodeproject.org/ENCBS778XPF/


title: Control ChIP-seq from whole organism (ENCLB718JOS)

description:
https://www.encodeproject.org/experiments/ENCSR649KYB/
***************
biological replicate number: 3
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR649KYB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB718JOS
fragmentation methods: sonication (generic microtip)

value: L3 larva

value: Michael Snyder

value: ENCBS561AJN at ENCODE; https://www.encodeproject.org/ENCBS561AJN/


title: TF ChIP-seq from whole organism (ENCLB323LAY)

description:
https://www.encodeproject.org/experiments/ENCSR997UIM/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing pnt-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR997UIM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR249WKC
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB323LAY
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: not applicable

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Hugo Bellen

value: ENCBS107ZTL at ENCODE; https://www.encodeproject.org/ENCBS107ZTL/


title: TF ChIP-seq from whole organism (ENCLB381YKT)

description:
https://www.encodeproject.org/experiments/ENCSR774DUH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing DVE-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR774DUH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR674LVV
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB381YKT
fragmentation methods: sonication (generic microtip)

value: whole organism

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to DVE-1

value: hermaphrodite

value: late embryonic

value: unknown

value: Valerie Reinke, Yale

value: Valerie Reinke

value: ENCBS976WLP at ENCODE; https://www.encodeproject.org/ENCBS976WLP/


title: TF ChIP-seq from whole organism (ENCLB880DVW)

description:
https://www.encodeproject.org/experiments/ENCSR505XFU/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing her-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR505XFU
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR535ZRZ
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB880DVW
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain her-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster her

value: her

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to her

value: pooled male and female

value: Kevin White

value: ENCBS189MQI at ENCODE; https://www.encodeproject.org/ENCBS189MQI/


title: Control ChIP-seq from whole organism (ENCLB783EKG)

description:
https://www.encodeproject.org/experiments/ENCSR649KYB/
***************
biological replicate number: 5
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR649KYB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB783EKG
fragmentation methods: sonication (generic microtip)

value: whole organisms

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to NHR-76

value: L3 larva

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS450QQW at ENCODE; https://www.encodeproject.org/ENCBS450QQW/


title: TF ChIP-seq from whole organism (ENCLB737TUW)

description:
https://www.encodeproject.org/experiments/ENCSR505XFU/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing her-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR505XFU
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR535ZRZ
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB737TUW
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: ENCBS163AVA at ENCODE; https://www.encodeproject.org/ENCBS163AVA/


title: Control ChIP-seq from whole organism (ENCLB808EEA)

description:
https://www.encodeproject.org/experiments/ENCSR820IUK/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing pho-eGFP fusion proteins.
experiment encode accession: ENCSR820IUK
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB808EEA
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain pho-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster pho

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to pho

value: ENCBS190XIO at ENCODE; https://www.encodeproject.org/ENCBS190XIO/


title: TF ChIP-seq from whole organism (ENCLB177QWE)

description:
https://www.encodeproject.org/experiments/ENCSR445TST/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-lin-13 in L1 larva worms.
experiment encode accession: ENCSR445TST
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR793GEI
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB177QWE
size range: 150-350

source_name: Caenorhabditis elegans strain OP49 (unc119(ed3);wgIs49(lin-13::TY1 EGFP FLAG;unc119)) mixed sex L1 larva insertion targeting C. elegans lin-13

value: pooled male and female

value: L1 larva

value: unknown

value: CGC

value: ENCBS633LBL at ENCODE; https://www.encodeproject.org/ENCBS633LBL/


title: TF ChIP-seq from whole organism (ENCLB132NFQ)

description:
https://www.encodeproject.org/experiments/ENCSR502JHR/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing tup-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR502JHR
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR184BVA
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB132NFQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Tup-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster tup

value: tup

value: whole organisms

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to tup

value: Kevin White

value: ENCBS283ATV at ENCODE; https://www.encodeproject.org/ENCBS283ATV/


title: TF ChIP-seq from whole organism (ENCLB691ODR)

description:
https://www.encodeproject.org/experiments/ENCSR445TST/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-lin-13 in L1 larva worms.
experiment encode accession: ENCSR445TST
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR793GEI
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB691ODR
size range: 150-350

value: whole organism

value: Michael Snyder, Stanford

value: ENCBS085TVY at ENCODE; https://www.encodeproject.org/ENCBS085TVY/


title: Control ChIP-seq from whole organism (ENCLB767ZUW)

description:
https://www.encodeproject.org/experiments/ENCSR989MAT/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing vri-eGFP fusion proteins.
experiment encode accession: ENCSR989MAT
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB767ZUW
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain vri-GFP mixed sex prepupa at white prepupa stage insertion targeting D. melanogaster vri

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to vri

value: prepupa

value: Kevin White, UChicago

value: white prepupa

value: ENCBS672FXC at ENCODE; https://www.encodeproject.org/ENCBS672FXC/


title: TF ChIP-seq from whole organism (ENCLB301HXS)

description:
https://www.encodeproject.org/experiments/ENCSR772YUB/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against PHA-4 in L2 larva worms.
experiment encode accession: ENCSR772YUB
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR696TMF
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB301HXS
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP178 (unc-119(ed3) III; wgIs178) mixed sex L2 larva insertion targeting C. elegans skn-1

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to SKN-1

value: pooled male and female

value: L2 larva

value: unknown

value: Michael Snyder

value: ENCBS146GVM at ENCODE; https://www.encodeproject.org/ENCBS146GVM/


title: Control ChIP-seq from whole organism (ENCLB449HLG)

description:
https://www.encodeproject.org/experiments/ENCSR987FJM/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG1647-eGFP fusion proteins.
experiment encode accession: ENCSR987FJM
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB449HLG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG1647-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG1647

value: whole organisms

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG1647

value: embryonic

value: 0-24 hour

value: ENCBS711WZN at ENCODE; https://www.encodeproject.org/ENCBS711WZN/


title: Control ChIP-seq from whole organism (ENCLB621GLY)

description:
https://www.encodeproject.org/experiments/ENCSR445KQZ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR445KQZ
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB621GLY
size range: 150-350

source_name: Caenorhabditis elegans strain OP82 (unc-119(tm4063) III; wgIs82) mixed sex L2 larva insertion targeting C. elegans ceh-16

value: whole organism

value: Michael Snyder, Stanford

value: CGC

value: ENCBS769RNK at ENCODE; https://www.encodeproject.org/ENCBS769RNK/


title: TF ChIP-seq from whole organism (ENCLB176WCP)

description:
https://www.encodeproject.org/experiments/ENCSR502JHR/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing tup-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR502JHR
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR184BVA
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB176WCP
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: tup

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to tup

value: Kevin White, UChicago

value: Kevin White

value: ENCBS116XHA at ENCODE; https://www.encodeproject.org/ENCBS116XHA/


title: Control ChIP-seq from whole organism (ENCLB553YBB)

description:
https://www.encodeproject.org/experiments/ENCSR445KQZ/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR445KQZ
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB553YBB
size range: 150-350

value: pooled male and female

value: L2 larva

value: unknown

value: ENCBS222HUK at ENCODE; https://www.encodeproject.org/ENCBS222HUK/


title: TF ChIP-seq from whole organism (ENCLB381HUJ)

description:
https://www.encodeproject.org/experiments/ENCSR772YUB/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against PHA-4 in L2 larva worms.
experiment encode accession: ENCSR772YUB
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR696TMF
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB381HUJ
fragmentation methods: sonication (generic microtip)

value: whole organisms

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to SKN-1

value: Michael Snyder

value: ENCBS948WNC at ENCODE; https://www.encodeproject.org/ENCBS948WNC/


title: Control ChIP-seq from whole organism (ENCLB742ZNU)

description:
https://www.encodeproject.org/experiments/ENCSR443MCM/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR443MCM
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-09-26
lab: Michael Snyder, Stanford
library encode accession: ENCLB742ZNU
size range: 150-350
instrument models: Illumina Genome Analyzer IIx,Illumina Genome Analyzer

source_name: Caenorhabditis elegans strain OP54 (unc-119(ed3) III; wgIs54) mixed sex L3 larva insertion targeting C. elegans egl-5

value: whole organism

value: L3 larva

value: Michael Snyder, Stanford

value: ENCBS774FLL at ENCODE; https://www.encodeproject.org/ENCBS774FLL/


title: TF ChIP-seq from whole organism (ENCLB604XWM)

description:
https://www.encodeproject.org/experiments/ENCSR982RGH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG13123-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR982RGH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR685DWE
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB604XWM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG13123-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG13123

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG13123

value: embryonic

value: 0-24 hour

value: ENCBS402OEH at ENCODE; https://www.encodeproject.org/ENCBS402OEH/


title: TF ChIP-seq from whole organism (ENCLB296NTJ)

description:
https://www.encodeproject.org/experiments/ENCSR982RGH/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG13123-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR982RGH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR685DWE
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB296NTJ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: pooled male and female

value: Kevin White, UChicago

value: Kevin White

value: ENCBS705NJD at ENCODE; https://www.encodeproject.org/ENCBS705NJD/


title: TF ChIP-seq from whole organism (ENCLB898KEK)

description:
https://www.encodeproject.org/experiments/ENCSR985TNB/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing foxo-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR985TNB
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR195UPC
encode release date: 2017-11-22
lab: Kevin White, UChicago
library encode accession: ENCLB898KEK
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

source_name: Drosophila melanogaster strain foxo-MiMIC-GFP mixed sex wandering third instar larva insertion targeting D. melanogaster foxo

value: foxo

value: whole organisms

value: D. mel line contraining an intronic eGFP exon to create a foxo-GFP fusion gene

value: wandering third instar larva

value: unknown

value: Hugo Bellen

value: ENCBS585WXE at ENCODE; https://www.encodeproject.org/ENCBS585WXE/


title: TF ChIP-seq from whole organism (ENCLB989CDY)

description:
https://www.encodeproject.org/experiments/ENCSR944YBH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-dpl-1 in L1 larva worms.
experiment encode accession: ENCSR944YBH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR165EZK
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB989CDY
size range: 150-350

source_name: Caenorhabditis elegans strain OP105 (unc119(ed3);wgIs105(dpl-1::TY1 EGFP FLAG;unc119)) mixed sex L1 larva insertion targeting C. elegans dpl-1

value: whole organism

value: not applicable

value: L1 larva

value: Michael Snyder, Stanford

value: CGC

value: ENCBS934TYT at ENCODE; https://www.encodeproject.org/ENCBS934TYT/


title: Control ChIP-seq from whole organism (ENCLB229AFD)

description:
https://www.encodeproject.org/experiments/ENCSR649KYB/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR649KYB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB229AFD
size range: 150-350

value: pooled male and female

value: L3 larva

value: ENCBS846XBK at ENCODE; https://www.encodeproject.org/ENCBS846XBK/


title: TF ChIP-seq from whole organism (ENCLB039ULC)

description:
https://www.encodeproject.org/experiments/ENCSR982LVI/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Hr39-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR982LVI
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR862VRN
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB039ULC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Hr39-RC-GFP mixed sex prepupa at white prepupa stage insertion targeting D. melanogaster Hr39

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Hr39

value: prepupa

value: Kevin White, UChicago

value: Kevin White

value: white prepupa

value: ENCBS216GKJ at ENCODE; https://www.encodeproject.org/ENCBS216GKJ/


title: TF ChIP-seq from whole organism (ENCLB939UTH)

description:
https://www.encodeproject.org/experiments/ENCSR768XMO/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against NHR-76 in L1 larva worms.
experiment encode accession: ENCSR768XMO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR843CSI
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB939UTH
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP203 (unc-119(ed3) III; wgIs203) mixed sex L1 larva insertion targeting C. elegans nhr-76

value: whole organisms

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to NHR-76

value: unknown

value: Michael Snyder

value: ENCBS644OJH at ENCODE; https://www.encodeproject.org/ENCBS644OJH/


title: TF ChIP-seq from whole organism (ENCLB420WWP)

description:
https://www.encodeproject.org/experiments/ENCSR982LVI/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Hr39-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR982LVI
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR862VRN
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB420WWP
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: not applicable

value: ENCBS754JJZ at ENCODE; https://www.encodeproject.org/ENCBS754JJZ/


title: TF ChIP-seq from whole organism (ENCLB525XBB)

description:
https://www.encodeproject.org/experiments/ENCSR768XMO/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against NHR-76 in L1 larva worms.
experiment encode accession: ENCSR768XMO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR843CSI
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB525XBB
fragmentation methods: sonication (generic microtip)

value: pooled male and female

value: L1 larva

value: Michael Snyder, Stanford

value: ENCBS286HKL at ENCODE; https://www.encodeproject.org/ENCBS286HKL/


title: Control ChIP-seq from whole organism (ENCLB039OKC)

description:
https://www.encodeproject.org/experiments/ENCSR489LXY/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing snoo-eGFP fusion proteins.
experiment encode accession: ENCSR489LXY
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2017-01-11
lab: Kevin White, UChicago
library encode accession: ENCLB039OKC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain snoo-MiMIC mixed sex pupa insertion targeting D. melanogaster Snoo

value: D. mel line contraining an intronic eGFP exon to create a snoo-GFP fusion gene

value: pupa

value: Hugo Bellen

value: ENCBS785IRG at ENCODE; https://www.encodeproject.org/ENCBS785IRG/


title: TF ChIP-seq from whole organism (ENCLB902EZI)

description:
https://www.encodeproject.org/experiments/ENCSR486EPD/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing ind-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR486EPD
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR555SGB
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB902EZI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain ind-GFP mixed sex embryo (0-16 hours) insertion targeting D. melanogaster ind

value: ind

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to ind

value: embryonic

value: 0-16 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS922QVZ at ENCODE; https://www.encodeproject.org/ENCBS922QVZ/


title: TF ChIP-seq from whole organism (ENCLB975UJN)

description:
https://www.encodeproject.org/experiments/ENCSR768FFN/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing DPL-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR768FFN
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR921EWW
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB975UJN
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain YL507 hermaphrodite young adult insertion targeting C. elegans dpl-1

value: whole organism

value: whole organisms

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to DPL-1

value: hermaphrodite

value: young adult

value: unknown

value: Valerie Reinke, Yale

value: Valerie Reinke

value: ENCBS562HXY at ENCODE; https://www.encodeproject.org/ENCBS562HXY/


title: TF ChIP-seq from whole organism (ENCLB831UGE)

description:
https://www.encodeproject.org/experiments/ENCSR486EPD/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing ind-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR486EPD
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR555SGB
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB831UGE
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: ind

value: pooled male and female

value: ENCBS791ESH at ENCODE; https://www.encodeproject.org/ENCBS791ESH/


title: TF ChIP-seq from whole organism (ENCLB321TMQ)

description:
https://www.encodeproject.org/experiments/ENCSR486EPD/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing ind-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR486EPD
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR555SGB
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB321TMQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to ind

value: embryonic

value: 0-16 hour

value: ENCBS353PBI at ENCODE; https://www.encodeproject.org/ENCBS353PBI/


title: TF ChIP-seq from whole organism (ENCLB562IQR)

description:
https://www.encodeproject.org/experiments/ENCSR768FFN/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing DPL-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR768FFN
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR921EWW
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB562IQR
fragmentation methods: sonication (generic microtip)

value: whole organism

value: ENCBS207YDM at ENCODE; https://www.encodeproject.org/ENCBS207YDM/


title: TF ChIP-seq from whole organism (ENCLB811VCE)

description:
https://www.encodeproject.org/experiments/ENCSR768FFN/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing DPL-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR768FFN
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR921EWW
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB811VCE
fragmentation methods: sonication (generic microtip)

value: whole organisms

value: not applicable

value: ENCBS826TXA at ENCODE; https://www.encodeproject.org/ENCBS826TXA/


title: TF ChIP-seq from whole organism (ENCLB260BRG)

description:
https://www.encodeproject.org/experiments/ENCSR981DLO/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing gro-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR981DLO
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR371KOI
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB260BRG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain gro-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster gro

value: gro

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to gro

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS865WLC at ENCODE; https://www.encodeproject.org/ENCBS865WLC/


title: TF ChIP-seq from whole organism (ENCLB866QPT)

description:
https://www.encodeproject.org/experiments/ENCSR981DLO/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing gro-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR981DLO
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR371KOI
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB866QPT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: pooled male and female

value: ENCBS929NTN at ENCODE; https://www.encodeproject.org/ENCBS929NTN/


title: TF ChIP-seq from whole organism (ENCLB045AOE)

description:
https://www.encodeproject.org/experiments/ENCSR647REQ/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-77 in L3 larva worms.
experiment encode accession: ENCSR647REQ
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR177KQK
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB045AOE
size range: 150-350

source_name: Caenorhabditis elegans strain OP353 (unc-119(tm4063) III; wgIs353) mixed sex L3 larva insertion targeting C. elegans nhr-77

value: L3 larva

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS803XJZ at ENCODE; https://www.encodeproject.org/ENCBS803XJZ/


title: Control ChIP-seq from whole organism (ENCLB714ZVD)

description:
https://www.encodeproject.org/experiments/ENCSR767NKE/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR767NKE
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB714ZVD
size range: 150-350

source_name: Caenorhabditis elegans strain OP339 (unc-119(ed3) III; wgIs339) mixed sex L2 larva insertion targeting C. elegans nhr-129

value: whole organism

value: L2 larva

value: ENCBS091KAY at ENCODE; https://www.encodeproject.org/ENCBS091KAY/


title: TF ChIP-seq from whole organism (ENCLB372IGX)

description:
https://www.encodeproject.org/experiments/ENCSR808XNJ/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing p53-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR808XNJ
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR611YZN
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB372IGX
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain p53-MiMIC-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster p53

value: whole organisms

value: not applicable

value: D. mel line contraining an intronic eGFP exon to create a p53-GFP fusion gene

value: embryonic

value: Hugo Bellen

value: ENCBS239CLO at ENCODE; https://www.encodeproject.org/ENCBS239CLO/


title: TF ChIP-seq from whole organism (ENCLB901RQV)

description:
https://www.encodeproject.org/experiments/ENCSR944YBH/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-dpl-1 in L1 larva worms.
experiment encode accession: ENCSR944YBH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR165EZK
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB901RQV
size range: 150-350

value: L1 larva

value: ENCBS242RAI at ENCODE; https://www.encodeproject.org/ENCBS242RAI/


title: Control ChIP-seq from whole organism (ENCLB601BZT)

description:
https://www.encodeproject.org/experiments/ENCSR810HCI/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG3919-eGFP fusion proteins.
experiment encode accession: ENCSR810HCI
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB601BZT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG3919-GFP mixed sex prepupa insertion targeting D. melanogaster CG3919

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG3919

value: pooled male and female

value: prepupa

value: Kevin White, UChicago

value: Kevin White

value: ENCBS378ADE at ENCODE; https://www.encodeproject.org/ENCBS378ADE/


title: Control ChIP-seq from whole organism (ENCLB693NJM)

description:
https://www.encodeproject.org/experiments/ENCSR767NKE/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR767NKE
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB693NJM
size range: 150-350

value: whole organism

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS751DFH at ENCODE; https://www.encodeproject.org/ENCBS751DFH/


title: Control ChIP-seq from whole organism (ENCLB742NVC)

description:
https://www.encodeproject.org/experiments/ENCSR479BNA/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing crc-eGFP fusion proteins.
experiment encode accession: ENCSR479BNA
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB742NVC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain crc-MiMIC-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster crc

value: whole organisms

value: not applicable

value: D. mel line contraining an intronic eGFP exon to create a crc-GFP fusion gene

value: 0-24 hour

value: ENCBS706KCE at ENCODE; https://www.encodeproject.org/ENCBS706KCE/


title: TF ChIP-seq from whole organism (ENCLB275JWM)

description:
https://www.encodeproject.org/experiments/ENCSR767XEC/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-ces-1 in L1 larva worms.
experiment encode accession: ENCSR767XEC
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR831TIJ
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB275JWM
size range: 150-350

source_name: Caenorhabditis elegans strain OP174 (unc-119(ed3); wgIs174(ces-1::TY1 EGFP FLAG;unc-119)) mixed sex L1 larva insertion targeting C. elegans ces-1

value: L1 larva

value: ENCBS463QQS at ENCODE; https://www.encodeproject.org/ENCBS463QQS/


title: TF ChIP-seq from whole organism (ENCLB344BOO)

description:
https://www.encodeproject.org/experiments/ENCSR808XNJ/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing p53-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR808XNJ
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR611YZN
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB344BOO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: D. mel line contraining an intronic eGFP exon to create a p53-GFP fusion gene

value: pooled male and female

value: embryonic

value: Hugo Bellen

value: ENCBS174DZD at ENCODE; https://www.encodeproject.org/ENCBS174DZD/


title: TF ChIP-seq from whole organism (ENCLB730DXO)

description:
https://www.encodeproject.org/experiments/ENCSR767XEC/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-ces-1 in L1 larva worms.
experiment encode accession: ENCSR767XEC
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR831TIJ
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB730DXO
size range: 150-350

value: whole organism

value: ENCBS742XTN at ENCODE; https://www.encodeproject.org/ENCBS742XTN/


title: TF ChIP-seq from whole organism (ENCLB349TRG)

description:
https://www.encodeproject.org/experiments/ENCSR676ZTM/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG12104-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR676ZTM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR234AVI
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB349TRG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG12104-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG12104

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG12104

value: Kevin White, UChicago

value: Kevin White

value: ENCBS409IOG at ENCODE; https://www.encodeproject.org/ENCBS409IOG/


title: TF ChIP-seq from whole organism (ENCLB107MVV)

description:
https://www.encodeproject.org/experiments/ENCSR765IDH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against FKH-10 in L3 larva worms.
experiment encode accession: ENCSR765IDH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR917HXG
encode release date: 2017-11-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB107MVV
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP337 (unc119(ed3);wgIs377(fkh-10::TY1 EGFP FLAG;unc119)) mixed sex L3 larva insertion targeting C. elegans fkh-10

value: whole organisms

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to FKH-10

value: L3 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS945AHB at ENCODE; https://www.encodeproject.org/ENCBS945AHB/


title: TF ChIP-seq from whole organism (ENCLB045PNW)

description:
https://www.encodeproject.org/experiments/ENCSR978WED/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing jim-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR978WED
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR830VBI
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB045PNW
fragmentation methods: sonication (Bioruptor generic)
size range: 175-275

source_name: Drosophila melanogaster strain jim-GFP mixed sex wandering third instar larva insertion targeting D. melanogaster jim

value: jim

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to jim

value: pooled male and female

value: wandering third instar larva

value: ENCBS399HYB at ENCODE; https://www.encodeproject.org/ENCBS399HYB/


title: TF ChIP-seq from whole organism (ENCLB679BSE)

description:
https://www.encodeproject.org/experiments/ENCSR941VRN/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-11 in L2 larva worms.
experiment encode accession: ENCSR941VRN
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR084IVO
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB679BSE
size range: 150-350

source_name: Caenorhabditis elegans strain OP305 (unc-119(ed3) III; wgIs305) mixed sex L2 larva insertion targeting C. elegans nhr-11

value: whole organism

value: L2 larva

value: CGC

value: ENCBS516BOD at ENCODE; https://www.encodeproject.org/ENCBS516BOD/


title: TF ChIP-seq from whole organism (ENCLB632ZPT)

description:
https://www.encodeproject.org/experiments/ENCSR676ZTM/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG12104-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR676ZTM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR234AVI
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB632ZPT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG12104

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS267RLI at ENCODE; https://www.encodeproject.org/ENCBS267RLI/


title: TF ChIP-seq from whole organism (ENCLB319KFD)

description:
https://www.encodeproject.org/experiments/ENCSR676ZTM/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG12104-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR676ZTM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR234AVI
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB319KFD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not applicable

value: ENCBS075CHM at ENCODE; https://www.encodeproject.org/ENCBS075CHM/


title: TF ChIP-seq from whole organism (ENCLB144GQF)

description:
https://www.encodeproject.org/experiments/ENCSR978WED/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing jim-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR978WED
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR830VBI
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB144GQF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-325

value: jim

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to jim

value: unknown

value: ENCBS313CHY at ENCODE; https://www.encodeproject.org/ENCBS313CHY/


title: TF ChIP-seq from whole organism (ENCLB472XFJ)

description:
https://www.encodeproject.org/experiments/ENCSR941VRN/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-11 in L2 larva worms.
experiment encode accession: ENCSR941VRN
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR084IVO
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB472XFJ
size range: 150-350

value: whole organism

value: pooled male and female

value: Michael Snyder, Stanford

value: ENCBS773LKF at ENCODE; https://www.encodeproject.org/ENCBS773LKF/


title: Control ChIP-seq from whole organism (ENCLB775BBO)

description:
https://www.encodeproject.org/experiments/ENCSR941UZQ/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR941UZQ
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB775BBO
size range: 150-350

source_name: Caenorhabditis elegans strain OP240 (unc-119(ed3) III; wgIs240) mixed sex L4 larva insertion targeting C. elegans lsy-2

value: whole organisms

value: L4 larva

value: CGC

value: ENCBS492KTH at ENCODE; https://www.encodeproject.org/ENCBS492KTH/


title: TF ChIP-seq from whole organism (ENCLB671RXB)

description:
https://www.encodeproject.org/experiments/ENCSR647REQ/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-77 in L3 larva worms.
experiment encode accession: ENCSR647REQ
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR177KQK
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB671RXB
size range: 150-350

value: L3 larva

value: ENCBS068PBL at ENCODE; https://www.encodeproject.org/ENCBS068PBL/


title: TF ChIP-seq from whole organism (ENCLB541JCP)

description:
https://www.encodeproject.org/experiments/ENCSR476OSZ/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing NC2alpha-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR476OSZ
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR097GQQ
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB541JCP
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain NC2alpha-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster NC2alpha

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to NC2alpha

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS574XSJ at ENCODE; https://www.encodeproject.org/ENCBS574XSJ/


title: Control ChIP-seq from whole organism (ENCLB487DEI)

description:
https://www.encodeproject.org/experiments/ENCSR676EOD/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Mad-eGFP fusion proteins.
experiment encode accession: ENCSR676EOD
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB487DEI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Mad-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster Mad

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Mad

value: ENCBS146SZM at ENCODE; https://www.encodeproject.org/ENCBS146SZM/


title: Control ChIP-seq from whole organism (ENCLB516BNV)

description:
https://www.encodeproject.org/experiments/ENCSR941UZQ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR941UZQ
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB516BNV
size range: 150-350

value: whole organism

value: pooled male and female

value: unknown

value: Michael Snyder, Stanford

value: ENCBS516MSQ at ENCODE; https://www.encodeproject.org/ENCBS516MSQ/


title: TF ChIP-seq from whole organism (ENCLB011MCF)

description:
https://www.encodeproject.org/experiments/ENCSR672VJL/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG4617-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR672VJL
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR178PAG
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB011MCF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG4617-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG4617

value: whole organisms

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG4617

value: ENCBS945QVK at ENCODE; https://www.encodeproject.org/ENCBS945QVK/


title: Control ChIP-seq from whole organism (ENCLB551XZH)

description:
https://www.encodeproject.org/experiments/ENCSR644RXR/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR644RXR
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB551XZH
size range: 150-350

source_name: Caenorhabditis elegans strain OP301 (unc-119(tm4063) III; wgIs301) mixed sex L1 larva insertion targeting C. elegans mef-2

value: L1 larva

value: CGC

value: ENCBS631WGO at ENCODE; https://www.encodeproject.org/ENCBS631WGO/


title: Control ChIP-seq from whole organism (ENCLB771LTS)

description:
https://www.encodeproject.org/experiments/ENCSR644RXR/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR644RXR
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB771LTS
size range: 150-350

value: ENCBS921ZWG at ENCODE; https://www.encodeproject.org/ENCBS921ZWG/


title: Control ChIP-seq from whole organism (ENCLB622NEU)

description:
https://www.encodeproject.org/experiments/ENCSR941NAK/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR941NAK
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB622NEU
size range: 150-350

source_name: Caenorhabditis elegans strain OP222 (unc-119(ed3) III; wgIs222) mixed sex L3 larva insertion targeting C. elegans daf-12

value: L3 larva

value: ENCBS819UIZ at ENCODE; https://www.encodeproject.org/ENCBS819UIZ/


title: Control ChIP-seq from whole organism (ENCLB678JQJ)

description:
https://www.encodeproject.org/experiments/ENCSR941NAK/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR941NAK
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB678JQJ
size range: 150-350

value: not applicable

value: ENCBS509HKC at ENCODE; https://www.encodeproject.org/ENCBS509HKC/


title: TF ChIP-seq from whole organism (ENCLB593NNP)

description:
https://www.encodeproject.org/experiments/ENCSR476LOS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Med-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR476LOS
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR840ESX
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB593NNP
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800
instrument models: Illumina HiSeq 2000,Illumina HiSeq 4000

source_name: Drosophila melanogaster strain Med-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster Med

value: Med

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Med

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS637ALR at ENCODE; https://www.encodeproject.org/ENCBS637ALR/


title: Control ChIP-seq from whole organism (ENCLB439CAB)

description:
https://www.encodeproject.org/experiments/ENCSR643FLY/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in late embryonic worms.
experiment encode accession: ENCSR643FLY
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB439CAB
size range: 150-350

source_name: Caenorhabditis elegans strain OP120 (unc-119(ed3) III; wgIs120) mixed sex late embryo insertion targeting C. elegans ceh-30

value: whole organism

value: whole organisms

value: pooled male and female

value: late embryonic

value: unknown

value: Michael Snyder, Stanford

value: ENCBS813HRP at ENCODE; https://www.encodeproject.org/ENCBS813HRP/


title: Control ChIP-seq from whole organism (ENCLB925SKF)

description:
https://www.encodeproject.org/experiments/ENCSR643FLY/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in late embryonic worms.
experiment encode accession: ENCSR643FLY
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB925SKF
size range: 150-350

value: CGC

value: ENCBS122TXO at ENCODE; https://www.encodeproject.org/ENCBS122TXO/


title: lung_ adenocarcinoma_brain_metastasis_11

type: RNA

city: Rotterdam

first: Shiva

last: Najjary

address: Dr. Molewaterplein 40

country: Netherlands

institute: Erasmus University Medical Center

description: BM-LUAD 11

hyb_protocol: For each sample, 300 ng of good quality RNA, with a maximum of 7 μL was used for hybridization with the PanCancer IO 360™  probes for 17 hours at 67⁰C, following the manufacturing procedure (NanoString Technologies Inc., Seattle, WA, USA).

scan_protocol: The nCounter FLEX platform was used and genes were counted by scanning 490 Fields-of-view (FOV).

data_processing: Data analysis was performed using the advanced analysis module (version 2.0) of nSolver software (version 4.0, NanoString Technology).

molecule: total RNA

organism: Homo sapiens

source_name: lung_brain metastasis

extract_protocol: Tissue sections of 5 μm were stained with hematoxylin and eosin (H&E), and examined by a pathologist. Total RNA was extracted from 10-12 sections of 10 μm thickness. RNA was stored in RNase/DNase-free water at -80°C. The nCounter® PanCancer IO 360™ Panel was used for NanoString targeted gene expression analysis. The total RNA was isolated from tumor tissue using the RNeasy® FFPE isolation kit (Qiagen, Hilden, Germany). The RNA quantity and quality were measured using the Agilent 2100 BioAnalyzer (Santa Clara, CA, USA), RNA degradation was calculated using percentages of fragments of 300-4000 nucleotides. The 300 ng of good quality RNA, with a maximum of 7 μL was used for hybridization with the panel probes for 17 hours at 65°C using a SimpliAmp Thermal Cycler (Applied Biosystems, Foster City, CA, USA).

tag: tissue

value: lung adenocarcinoma

tag: metastatic site

value: brain

tag: age at diagnosis

value: male

tag: histology

value: adenocaricnoma

tag: smoking status

value: smoker

tag: treatment after surgery of bm

value: Radiotherapy


title: TF ChIP-seq from whole organism (ENCLB216EIF)

description:
https://www.encodeproject.org/experiments/ENCSR672KPS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Max-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR672KPS
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR370HQE
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB216EIF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Max-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster Max

value: Max

tag: biosample encode accession

tag: collection date

value: not applicable

tag: geographic location

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Max

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS402KUP at ENCODE; https://www.encodeproject.org/ENCBS402KUP/


title: TF ChIP-seq from whole organism (ENCLB690NIC)

description:
https://www.encodeproject.org/experiments/ENCSR765IDH/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against FKH-10 in L3 larva worms.
experiment encode accession: ENCSR765IDH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR917HXG
encode release date: 2017-11-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB690NIC
fragmentation methods: sonication (generic microtip)

value: whole organism

value: whole organisms

tag: encode accession

tag: note

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to FKH-10

tag: Sex

value: pooled male and female

value: L3 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS100QKR at ENCODE; https://www.encodeproject.org/ENCBS100QKR/


title: TF ChIP-seq from whole organism (ENCLB675TKF)

description:
https://www.encodeproject.org/experiments/ENCSR763YPD/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against FKH-10 in L1 larva worms.
experiment encode accession: ENCSR763YPD
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR124OTS
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB675TKF
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP337 (unc119(ed3);wgIs377(fkh-10::TY1 EGFP FLAG;unc119)) mixed sex L1 larva insertion targeting C. elegans fkh-10

tag: dev stage

value: L1 larva

tag: age

tag: lab

value: ENCBS253NBN at ENCODE; https://www.encodeproject.org/ENCBS253NBN/


title: TF ChIP-seq from whole organism (ENCLB564HSL)

description:
https://www.encodeproject.org/experiments/ENCSR672KPS/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Max-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR672KPS
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR370HQE
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB564HSL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

tag: antibody

value: Max

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Max

tag: source

tag: link

value: ENCBS463JGF at ENCODE; https://www.encodeproject.org/ENCBS463JGF/


title: lung_ adenocarcinoma_brain_metastasis_10

description: BM-LUAD 10

tag: tissue

value: lung adenocarcinoma

tag: metastatic site

value: brain

value: male

value: adenocaricnoma

value: smoker

value: Radiotherapy


title: Control ChIP-seq from whole organism (ENCLB181PTB)

description:
https://www.encodeproject.org/experiments/ENCSR807ABQ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing cyc-eGFP fusion proteins.
experiment encode accession: ENCSR807ABQ
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB181PTB
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain cyc-GFP mixed sex prepupa at white prepupa stage insertion targeting D. melanogaster cyc

value: whole organism

value: whole organisms

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to cyc

value: pooled male and female

value: prepupa

value: Kevin White, UChicago

value: Kevin White

tag: fly synchronization stage

value: white prepupa

value: ENCBS217XLX at ENCODE; https://www.encodeproject.org/ENCBS217XLX/


title: lung_ adenocarcinoma_brain_metastasis_9

description: BM-LUAD 9

tag: age at diagnosis

value: female

tag: histology

tag: smoking status

value: former-smroker

value: WBRT


title: TF ChIP-seq from whole organism (ENCLB137QPX)

description:
https://www.encodeproject.org/experiments/ENCSR671XAK/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing E(spl)m3-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR671XAK
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR782YFF
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB137QPX
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain E(spl)m3-HLH-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster E(spl)m3-HLH

tag: biosample encode accession

tag: collection date

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to E(spl)m3

value: embryonic

value: 0-24 hour

value: ENCBS978RIJ at ENCODE; https://www.encodeproject.org/ENCBS978RIJ/


title: TF ChIP-seq from whole organism (ENCLB116ELH)

description:
https://www.encodeproject.org/experiments/ENCSR437XIF/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-lin-39 in L4 larva worms.
experiment encode accession: ENCSR437XIF
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR577MAM
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB116ELH
size range: 150-350

source_name: Caenorhabditis elegans strain OP18 (unc-119(ed3) III; wgIs18) mixed sex L4 larva insertion targeting C. elegans lin-39

value: whole organism

tag: geographic location

tag: encode accession

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS535NRV at ENCODE; https://www.encodeproject.org/ENCBS535NRV/


title: lung_ adenocarcinoma_brain_metastasis_8

description: BM-LUAD 8

value: lung adenocarcinoma

value: brain

tag: Sex

value: male

value: adenocaricnoma

tag: treatment after surgery of bm

value: SRT


title: TF ChIP-seq from whole organism (ENCLB363KNS)

description:
https://www.encodeproject.org/experiments/ENCSR804FUX/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG5204-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR804FUX
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR075HOL
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB363KNS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG5204-GFP male adult insertion targeting D. melanogaster kmg

value: whole organisms

tag: note

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG5204

tag: dev stage

value: adult

tag: age

value: Kevin White, UChicago

value: Kevin White

value: ENCBS664RDO at ENCODE; https://www.encodeproject.org/ENCBS664RDO/


title: Control ChIP-seq from whole organism (ENCLB488WWB)

description:
https://www.encodeproject.org/experiments/ENCSR974LPR/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Sry-delta-eGFP fusion proteins.
experiment encode accession: ENCSR974LPR
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB488WWB
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Sry-delta-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster Sry-delta

value: whole organism

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Sry-delta

value: pooled male and female

value: embryonic

value: 0-24 hour

tag: lab

tag: source

value: ENCBS403QKF at ENCODE; https://www.encodeproject.org/ENCBS403QKF/


title: lung_ adenocarcinoma_brain_metastasis_6

description: BM-LUAD 6

tag: tissue

value: lung adenocarcinoma

value: brain

value: female

value: former-smoker

value: Radiotherapy


title: lung_ adenocarcinoma_brain_metastasis_7

description: BM-LUAD 7

tag: metastatic site

value: male

value: adenocaricnoma

value: never smoker

value: WBRT


title: TF ChIP-seq from whole organism (ENCLB596JKX)

description:
https://www.encodeproject.org/experiments/ENCSR437XIF/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-lin-39 in L4 larva worms.
experiment encode accession: ENCSR437XIF
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR577MAM
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB596JKX
size range: 150-350

tag: antibody

value: whole organisms

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: CGC

tag: link

value: ENCBS262DYR at ENCODE; https://www.encodeproject.org/ENCBS262DYR/


title: TF ChIP-seq from whole organism (ENCLB746PCV)

description:
https://www.encodeproject.org/experiments/ENCSR763YPD/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against FKH-10 in L1 larva worms.
experiment encode accession: ENCSR763YPD
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR124OTS
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB746PCV
fragmentation methods: sonication (generic microtip)

value: whole organism

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to FKH-10

value: pooled male and female

value: L1 larva

value: Michael Snyder

value: ENCBS496JMN at ENCODE; https://www.encodeproject.org/ENCBS496JMN/


title: TF ChIP-seq from whole organism (ENCLB516ZHL)

description:
https://www.encodeproject.org/experiments/ENCSR672VJL/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG4617-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR672VJL
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR178PAG
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB516ZHL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG4617

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS761QFP at ENCODE; https://www.encodeproject.org/ENCBS761QFP/


title: TF ChIP-seq from whole organism (ENCLB235TWW)

description:
https://www.encodeproject.org/experiments/ENCSR801AQB/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing lilli-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR801AQB
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR230GUY
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB235TWW
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain lilli-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster lilli

value: lilli

value: whole organisms

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to lilli

value: ENCBS002YXE at ENCODE; https://www.encodeproject.org/ENCBS002YXE/


title: TF ChIP-seq from whole organism (ENCLB777DHC)

description:
https://www.encodeproject.org/experiments/ENCSR476LOS/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Med-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR476LOS
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR840ESX
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB777DHC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800
instrument models: Illumina HiSeq 2000,Illumina HiSeq 4000

value: Med

value: whole organism

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Med

value: ENCBS128OZG at ENCODE; https://www.encodeproject.org/ENCBS128OZG/


title: lung_ adenocarcinoma_brain_metastasis_5

description: BM-LUAD 5

value: lung adenocarcinoma

value: brain

tag: age at diagnosis

value: female

tag: histology

value: adenocaricnoma

value: former-smroker

value: No treatment


title: TF ChIP-seq from whole organism (ENCLB196LQZ)

description:
https://www.encodeproject.org/experiments/ENCSR436KRV/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-2 in mixed stage (embryonic) worms.
experiment encode accession: ENCSR436KRV
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR732THT
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB196LQZ
size range: 150-350

source_name: Caenorhabditis elegans strain OP99 (unc-119(ed3) III; wgIs99) mixed sex mixed stage (embryo) insertion targeting C. elegans nhr-2

tag: biosample encode accession

value: not applicable

value: pooled male and female

value: mixed stage (embryonic)

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS830PGF at ENCODE; https://www.encodeproject.org/ENCBS830PGF/


title: TF ChIP-seq from whole organism (ENCLB744TFC)

description:
https://www.encodeproject.org/experiments/ENCSR436KRV/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-2 in mixed stage (embryonic) worms.
experiment encode accession: ENCSR436KRV
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR732THT
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB744TFC
size range: 150-350

value: whole organisms

tag: collection date

value: ENCBS222KDA at ENCODE; https://www.encodeproject.org/ENCBS222KDA/


title: lung_ adenocarcinoma_brain_metastasis_1

description: BM-LUAD 1

tag: smoking status

value: smoker

value: Other


title: lung_ adenocarcinoma_brain_metastasis_2

description: BM-LUAD 2

value: lung adenocarcinoma

value: male

value: former-smoker

value: Radiotherapy


title: lung_ adenocarcinoma_brain_metastasis_3

description: BM-LUAD 3

value: brain

value: adenocaricnoma


title: Control ChIP-seq from whole organism (ENCLB982CMM)

description:
https://www.encodeproject.org/experiments/ENCSR435IYX/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR435IYX
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB982CMM
size range: 150-350

source_name: Caenorhabditis elegans strain OP318 (unc-119(ed3) III; wgIs318) mixed sex mixed stage (embryo) insertion targeting C. elegans nhr-12

value: whole organism

value: not applicable

tag: geographic location

tag: encode accession

value: ENCBS353JUJ at ENCODE; https://www.encodeproject.org/ENCBS353JUJ/


title: Control ChIP-seq from whole organism (ENCLB608YKI)

description:
https://www.encodeproject.org/experiments/ENCSR435IYX/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR435IYX
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB608YKI
size range: 150-350

tag: Sex

value: pooled male and female

value: mixed stage (embryonic)

value: unknown

value: ENCBS754JNO at ENCODE; https://www.encodeproject.org/ENCBS754JNO/


title: breast_cancer_brain_metastasis_11

description: BCBM 11

source_name: breast_brain metastasis

value: breast cancer

value: female

value: ER+ PR+ HER2-

tag: treatment after surgery of bm

value: Radiotherapy & Chemoterapy


title: TF ChIP-seq from whole organism (ENCLB375QMD)

description:
https://www.encodeproject.org/experiments/ENCSR972RZE/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing sens-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR972RZE
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR599UYD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB375QMD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain sens-GFP mixed sex embryo (4-14 hours) insertion targeting D. melanogaster sens

value: sens

value: whole organisms

tag: note

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to sens

tag: dev stage

value: embryonic

value: Kevin White, UChicago

value: Kevin White

value: ENCBS432CQW at ENCODE; https://www.encodeproject.org/ENCBS432CQW/


title: breast_cancer_brain_metastasis_8

description: BCBM 8

value: brain

value: TNBC

value: Other


title: breast_cancer_brain_metastasis_10

description: BCBM 10

value: ER+ PR- HER2-

value: Radiotherapy


title: TF ChIP-seq from whole organism (ENCLB254ERN)

description:
https://www.encodeproject.org/experiments/ENCSR801AQB/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing lilli-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR801AQB
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR230GUY
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB254ERN
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: lilli

value: whole organism

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to lilli

value: pooled male and female

tag: age

value: 0-24 hour

tag: lab

value: ENCBS780LFC at ENCODE; https://www.encodeproject.org/ENCBS780LFC/


title: breast_cancer_brain_metastasis_9

description: BCBM 9

tag: tissue

value: breast cancer

value: female


title: TF ChIP-seq from whole organism (ENCLB858LSX)

description:
https://www.encodeproject.org/experiments/ENCSR972RZE/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing sens-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR972RZE
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR599UYD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB858LSX
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: sens

value: whole organisms

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to sens

value: embryonic

value: Kevin White, UChicago

tag: source

value: ENCBS894EAQ at ENCODE; https://www.encodeproject.org/ENCBS894EAQ/


title: breast_cancer_brain_metastasis_6

description: BCBM 6

tag: metastatic site

value: brain

value: TNBC


title: Control ChIP-seq from whole organism (ENCLB580XCE)

description:
https://www.encodeproject.org/experiments/ENCSR641JZF/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR641JZF
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB580XCE
size range: 150-350

source_name: Caenorhabditis elegans strain OP51 (unc-119(ed3) III; wgIs51) mixed sex mixed stage (embryo) insertion targeting C. elegans lin-13

value: mixed stage (embryonic)

value: unknown

value: Michael Snyder, Stanford

value: CGC

tag: link

value: ENCBS147FQD at ENCODE; https://www.encodeproject.org/ENCBS147FQD/


title: Control ChIP-seq from whole organism (ENCLB608VNN)

description:
https://www.encodeproject.org/experiments/ENCSR641JZF/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR641JZF
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB608VNN
size range: 150-350

value: whole organism

value: not applicable

value: pooled male and female

value: ENCBS645AKG at ENCODE; https://www.encodeproject.org/ENCBS645AKG/


title: TF ChIP-seq from whole organism (ENCLB340JNX)

description:
https://www.encodeproject.org/experiments/ENCSR797YWF/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing HLHm7-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR797YWF
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR564PVU
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB340JNX
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain HLHm7-GFP mixed sex embryo (0-16 hours) insertion targeting D. melanogaster E(spl)m7-HLH

tag: antibody

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to HLHm7

value: 0-16 hour

value: Kevin White

value: ENCBS943RCF at ENCODE; https://www.encodeproject.org/ENCBS943RCF/


title: TF ChIP-seq from whole organism (ENCLB690ZGM)

description:
https://www.encodeproject.org/experiments/ENCSR640NTR/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-fkh-2 in L3 larva worms.
experiment encode accession: ENCSR640NTR
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR606NPE
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB690ZGM
size range: 150-350

source_name: Caenorhabditis elegans strain OP185 (unc-119(ed3) III; wgIs185) mixed sex L3 larva insertion targeting C. elegans fkh-2

value: whole organisms

value: L3 larva

value: ENCBS177HIQ at ENCODE; https://www.encodeproject.org/ENCBS177HIQ/


title: breast_cancer_brain_metastasis_7

description: BCBM 7

value: breast cancer

value: brain

tag: age at diagnosis

value: female

tag: histology

value: ER- PR- HER2+

value: Radiotherapy


title: breast_cancer_brain_metastasis_4

description: BCBM 4


title: breast_cancer_brain_metastasis_5

description: BCBM 5

value: Unknown

value: Other


title: breast_cancer_brain_metastasis_3

description: BCBM 3

value: ER- PR+ HER2-

value: Chemoterapy


title: TF ChIP-seq from whole organism (ENCLB833TBY)

description:
https://www.encodeproject.org/experiments/ENCSR801AQB/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing lilli-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR801AQB
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR230GUY
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB833TBY
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: lilli

value: whole organism

tag: biosample encode accession

tag: collection date

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to lilli

value: pooled male and female

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: ENCBS659RKO at ENCODE; https://www.encodeproject.org/ENCBS659RKO/


title: breast_cancer_brain_metastasis_2

description: BCBM 2

value: breast cancer

value: brain

value: ER+ PR- HER2-

tag: smoking status

value: Radiotherapy & Chemoterapy


title: Control ChIP-seq from whole organism (ENCLB110EYF)

description:
https://www.encodeproject.org/experiments/ENCSR640BRI/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in D4 worms.
experiment encode accession: ENCSR640BRI
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB110EYF
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP600 (unc119(ed3);wgIs600(unc-62::TY1 EGFP FLAG;unc119)) mixed sex dauer insertion targeting C. elegans unc-62

value: whole organisms

tag: geographic location

tag: encode accession

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to UNC-62

value: dauer

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS703WRR at ENCODE; https://www.encodeproject.org/ENCBS703WRR/


title: TF ChIP-seq from whole organism (ENCLB031QTJ)

description:
https://www.encodeproject.org/experiments/ENCSR797YWF/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing HLHm7-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR797YWF
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR564PVU
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB031QTJ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to HLHm7

tag: Sex

value: 0-16 hour

value: Kevin White

value: ENCBS375BEE at ENCODE; https://www.encodeproject.org/ENCBS375BEE/


title: breast_cancer_brain_metastasis_1

description: BCBM 1

value: breast cancer

value: female

value: ER- PR+ HER2-

tag: treatment after surgery of bm

value: Chemoterapy