title: TF ChIP-seq from whole organism (ENCLB094LDH)

description:
https://www.encodeproject.org/experiments/ENCSR031QSB/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Optix-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR031QSB
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR646GHS
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB094LDH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: Optix

value: not collected

value: ENCBS349JZQ at ENCODE; https://www.encodeproject.org/ENCBS349JZQ/


title: TF ChIP-seq from whole organism (ENCLB112NXD)

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/ENCSR031QSB/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Optix-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR031QSB
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR646GHS
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB112NXD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

library_source: genomic

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

molecule: genomic DNA

organism: Drosophila melanogaster

tag: antibody

value: whole organism

value: whole organisms

tag: biosample encode accession

tag: collection date

value: not applicable

tag: geographic location

tag: encode accession

tag: Sex

tag: dev stage

value: embryonic

tag: age

value: 0-24 hour

tag: lab

value: Kevin White, UChicago

tag: source

value: Kevin White

tag: link

value: ENCBS491RRX at ENCODE; https://www.encodeproject.org/ENCBS491RRX/


title: TF ChIP-seq from whole organism (ENCLB389RWF)

description:
https://www.encodeproject.org/experiments/ENCSR031QSB/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Optix-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR031QSB
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR646GHS
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB389RWF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: ENCBS223JPS at ENCODE; https://www.encodeproject.org/ENCBS223JPS/


title: TF ChIP-seq from whole organism (ENCLB966OER)

description:
https://www.encodeproject.org/experiments/ENCSR132JFU/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG14667-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR132JFU
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR888NUC
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB966OER
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG14667-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG14667

value: ENCBS355JIZ at ENCODE; https://www.encodeproject.org/ENCBS355JIZ/


title: TF ChIP-seq from whole organism (ENCLB198VZX)

description:
https://www.encodeproject.org/experiments/ENCSR306TVS/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing tgo-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR306TVS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR400MGD
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB198VZX
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: tgo

value: ENCBS836LEX at ENCODE; https://www.encodeproject.org/ENCBS836LEX/


title: TF ChIP-seq from whole organism (ENCLB705YNL)

description:
https://www.encodeproject.org/experiments/ENCSR132JFU/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG14667-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR132JFU
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR888NUC
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB705YNL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: ENCBS884VJE at ENCODE; https://www.encodeproject.org/ENCBS884VJE/


title: TF ChIP-seq from whole organism (ENCLB728QNA)

description:
https://www.encodeproject.org/experiments/ENCSR306TVS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing tgo-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR306TVS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR400MGD
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB728QNA
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: ENCBS113GRM at ENCODE; https://www.encodeproject.org/ENCBS113GRM/


title: TF ChIP-seq from whole organism (ENCLB229EGM)

description:
https://www.encodeproject.org/experiments/ENCSR304JBT/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing lov-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR304JBT
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR634KMJ
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB229EGM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: lov

value: ENCBS624RON at ENCODE; https://www.encodeproject.org/ENCBS624RON/


title: TF ChIP-seq from whole organism (ENCLB048LWH)

description:
https://www.encodeproject.org/experiments/ENCSR221GVM/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG8119-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR221GVM
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR611GTN
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB048LWH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG8119-GFP prepupa (1 day) insertion targeting D. melanogaster CG8119

value: not collected

value: prepupa

value: 1 day

value: ENCBS879FNA at ENCODE; https://www.encodeproject.org/ENCBS879FNA/


title: TF ChIP-seq from whole organism (ENCLB439LFK)

description:
https://www.encodeproject.org/experiments/ENCSR306TVS/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing tgo-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR306TVS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR400MGD
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB439LFK
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: whole organisms

value: not applicable

value: embryonic

value: ENCBS785GIF at ENCODE; https://www.encodeproject.org/ENCBS785GIF/


title: TF ChIP-seq from whole organism (ENCLB740KCK)

description:
https://www.encodeproject.org/experiments/ENCSR029JYB/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing hbn-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR029JYB
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR157MPF
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB740KCK
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain hbn-GFP embryo (0-18 hours) insertion targeting D. melanogaster hbn

value: hbn

value: 0-18 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS719ZKS at ENCODE; https://www.encodeproject.org/ENCBS719ZKS/


title: TF ChIP-seq from whole organism (ENCLB670FDT)

description:
https://www.encodeproject.org/experiments/ENCSR029JYB/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing hbn-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR029JYB
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR157MPF
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB670FDT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: ENCBS700NLE at ENCODE; https://www.encodeproject.org/ENCBS700NLE/


title: TF ChIP-seq from whole organism (ENCLB526KOG)

description:
https://www.encodeproject.org/experiments/ENCSR302KZT/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG14050-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR302KZT
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR305XHO
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB526KOG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG14050-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG14050

value: 0-24 hour

value: ENCBS077AMH at ENCODE; https://www.encodeproject.org/ENCBS077AMH/


title: TF ChIP-seq from whole organism (ENCLB318NGG)

description:
https://www.encodeproject.org/experiments/ENCSR302KZT/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG14050-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR302KZT
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR305XHO
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB318NGG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not collected

value: ENCBS179YYD at ENCODE; https://www.encodeproject.org/ENCBS179YYD/


title: Control ChIP-seq from whole organism (ENCLB772HAF)

description:
https://www.encodeproject.org/experiments/ENCSR301XFQ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG7963-eGFP fusion proteins.
experiment encode accession: ENCSR301XFQ
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB772HAF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG7963-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG7963

value: ENCBS491OBK at ENCODE; https://www.encodeproject.org/ENCBS491OBK/


title: TF ChIP-seq from whole organism (ENCLB917VPF)

description:
https://www.encodeproject.org/experiments/ENCSR299JLA/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG10366-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR299JLA
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR215ERX
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB917VPF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG10366-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG10366

value: ENCBS541GJE at ENCODE; https://www.encodeproject.org/ENCBS541GJE/


title: Control ChIP-seq from whole organism (ENCLB843XND)

description:
https://www.encodeproject.org/experiments/ENCSR303WIW/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing sr-eGFP fusion proteins.
experiment encode accession: ENCSR303WIW
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB843XND
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain sr-GFP embryo (8-24 hours) insertion targeting D. melanogaster sr

value: whole organism

value: ENCBS015XGE at ENCODE; https://www.encodeproject.org/ENCBS015XGE/


title: Control ChIP-seq from whole organism (ENCLB994LAR)

description:
https://www.encodeproject.org/experiments/ENCSR305XHO/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG14050-eGFP fusion proteins.
experiment encode accession: ENCSR305XHO
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB994LAR
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: not applicable

value: ENCBS276XCG at ENCODE; https://www.encodeproject.org/ENCBS276XCG/


title: TF ChIP-seq from whole organism (ENCLB265SPI)

description:
https://www.encodeproject.org/experiments/ENCSR302KZT/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG14050-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR302KZT
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR305XHO
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB265SPI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: embryonic

value: ENCBS226FOI at ENCODE; https://www.encodeproject.org/ENCBS226FOI/


title: Control ChIP-seq from whole organism (ENCLB804CNM)

description:
https://www.encodeproject.org/experiments/ENCSR297WYF/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing z-eGFP fusion proteins.
experiment encode accession: ENCSR297WYF
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB804CNM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: Kevin White, UChicago

value: ENCBS168ZMO at ENCODE; https://www.encodeproject.org/ENCBS168ZMO/


title: Control ChIP-seq from whole organism (ENCLB469ESR)

description:
https://www.encodeproject.org/experiments/ENCSR203TZL/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing fd96Ca-eGFP fusion proteins.
experiment encode accession: ENCSR203TZL
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB469ESR
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain fd96Ca-GFP pupa (1 day) insertion targeting D. melanogaster fd96Ca

value: pupa

value: 1 day

value: Kevin White

value: ENCBS064GJW at ENCODE; https://www.encodeproject.org/ENCBS064GJW/


title: TF ChIP-seq from whole organism (ENCLB536SLQ)

description:
https://www.encodeproject.org/experiments/ENCSR200OFA/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG2199-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR200OFA
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR371XPI
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB536SLQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG2199-GFP embryo (8-24 hours) insertion targeting D. melanogaster CG2199

value: not collected

value: ENCBS354ORR at ENCODE; https://www.encodeproject.org/ENCBS354ORR/


title: TF ChIP-seq from whole organism (ENCLB666ARH)

description:
https://www.encodeproject.org/experiments/ENCSR304JBT/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing lov-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR304JBT
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR634KMJ
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB666ARH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: lov

value: 0-24 hour

value: ENCBS432HDE at ENCODE; https://www.encodeproject.org/ENCBS432HDE/


title: TF ChIP-seq from whole organism (ENCLB248AQT)

description:
https://www.encodeproject.org/experiments/ENCSR299JLA/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG10366-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR299JLA
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR215ERX
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB248AQT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: ENCBS515HVB at ENCODE; https://www.encodeproject.org/ENCBS515HVB/


title: TF ChIP-seq from whole organism (ENCLB884CKK)

description:
https://www.encodeproject.org/experiments/ENCSR304JBT/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing lov-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR304JBT
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR634KMJ
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB884CKK
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: not applicable

value: ENCBS490BCK at ENCODE; https://www.encodeproject.org/ENCBS490BCK/


title: TF ChIP-seq from whole organism (ENCLB322DIW)

description:
https://www.encodeproject.org/experiments/ENCSR130TNS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing ro-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR130TNS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR563UMA
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB322DIW
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: ro

value: embryonic

value: ENCBS429UWT at ENCODE; https://www.encodeproject.org/ENCBS429UWT/


title: TF ChIP-seq from whole organism (ENCLB288MEL)

description:
https://www.encodeproject.org/experiments/ENCSR200OFA/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG2199-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR200OFA
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR371XPI
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB288MEL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Kevin White, UChicago

value: ENCBS691GND at ENCODE; https://www.encodeproject.org/ENCBS691GND/


title: TF ChIP-seq from whole organism (ENCLB626AVW)

description:
https://www.encodeproject.org/experiments/ENCSR200OFA/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG2199-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR200OFA
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR371XPI
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB626AVW
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Kevin White

value: ENCBS468NNL at ENCODE; https://www.encodeproject.org/ENCBS468NNL/


title: TF ChIP-seq from whole organism (ENCLB336EOX)

description:
https://www.encodeproject.org/experiments/ENCSR294JDU/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing chinmo-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR294JDU
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR641AIJ
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB336EOX
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain chinmo-GFP embryo (6-24 hours) insertion targeting D. melanogaster chinmo

value: chinmo

value: not collected

value: ENCBS340OZK at ENCODE; https://www.encodeproject.org/ENCBS340OZK/


title: TF ChIP-seq from whole organism (ENCLB922SMT)

description:
https://www.encodeproject.org/experiments/ENCSR129UZN/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing rib-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR129UZN
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR600RUY
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB922SMT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: rib

value: 0-24 hour

value: ENCBS913OGQ at ENCODE; https://www.encodeproject.org/ENCBS913OGQ/


title: TF ChIP-seq from whole organism (ENCLB888YPC)

description:
https://www.encodeproject.org/experiments/ENCSR129UZN/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing rib-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR129UZN
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR600RUY
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB888YPC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: ENCBS740MRC at ENCODE; https://www.encodeproject.org/ENCBS740MRC/


title: TF ChIP-seq from whole organism (ENCLB319RLT)

description:
https://www.encodeproject.org/experiments/ENCSR294JDU/
***************
biological replicate number: 4
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing chinmo-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR294JDU
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR641AIJ
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB319RLT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: not applicable

value: ENCBS027QDF at ENCODE; https://www.encodeproject.org/ENCBS027QDF/


title: TF ChIP-seq from whole organism (ENCLB674KSU)

description:
https://www.encodeproject.org/experiments/ENCSR126PUC/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing inv-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR126PUC
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR580CYL
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB674KSU
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: inv

value: embryonic

value: ENCBS350ZZR at ENCODE; https://www.encodeproject.org/ENCBS350ZZR/


title: TF ChIP-seq from whole organism (ENCLB071YPY)

description:
https://www.encodeproject.org/experiments/ENCSR294JDU/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing chinmo-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR294JDU
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR641AIJ
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB071YPY
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Kevin White, UChicago

value: ENCBS938RPO at ENCODE; https://www.encodeproject.org/ENCBS938RPO/


title: Control ChIP-seq from whole organism (ENCLB577FLI)

description:
https://www.encodeproject.org/experiments/ENCSR293JEX/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG4360-eGFP fusion proteins.
experiment encode accession: ENCSR293JEX
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB577FLI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG4360-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG4360

value: Kevin White

value: ENCBS791FDF at ENCODE; https://www.encodeproject.org/ENCBS791FDF/


title: Control ChIP-seq from whole organism (ENCLB827GLW)

description:
https://www.encodeproject.org/experiments/ENCSR024KKU/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing seq-eGFP fusion proteins.
experiment encode accession: ENCSR024KKU
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB827GLW
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: not collected

value: ENCBS066NHZ at ENCODE; https://www.encodeproject.org/ENCBS066NHZ/


title: TF ChIP-seq from whole organism (ENCLB873AUL)

description:
https://www.encodeproject.org/experiments/ENCSR125LUS/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing HLH3B-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR125LUS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR518MOD
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB873AUL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain HLH3B-GFP embryo (8-24 hours) insertion targeting D. melanogaster HLH3B

value: ENCBS927CXZ at ENCODE; https://www.encodeproject.org/ENCBS927CXZ/


title: TF ChIP-seq from whole organism (ENCLB530VID)

description:
https://www.encodeproject.org/experiments/ENCSR130TNS/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing ro-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR130TNS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR563UMA
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB530VID
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: ro

value: 0-24 hour

value: ENCBS154BUG at ENCODE; https://www.encodeproject.org/ENCBS154BUG/


title: Control ChIP-seq from whole organism (ENCLB431GAV)

description:
https://www.encodeproject.org/experiments/ENCSR021QTZ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG17328-eGFP fusion proteins.
experiment encode accession: ENCSR021QTZ
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB431GAV
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG17328-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG17328

value: whole organism

value: ENCBS006CCC at ENCODE; https://www.encodeproject.org/ENCBS006CCC/


title: TF ChIP-seq from whole organism (ENCLB713TEU)

description:
https://www.encodeproject.org/experiments/ENCSR123OZS/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG11695-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR123OZS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR359AIH
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB713TEU
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG11695-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG11695

value: whole organisms

value: not applicable

value: ENCBS201QAK at ENCODE; https://www.encodeproject.org/ENCBS201QAK/


title: TF ChIP-seq from whole organism (ENCLB101SOD)

description:
https://www.encodeproject.org/experiments/ENCSR123OZS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG11695-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR123OZS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR359AIH
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB101SOD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: embryonic

value: ENCBS288CLE at ENCODE; https://www.encodeproject.org/ENCBS288CLE/


title: TF ChIP-seq from whole organism (ENCLB351NYH)

description:
https://www.encodeproject.org/experiments/ENCSR123OZS/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG11695-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR123OZS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR359AIH
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB351NYH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Kevin White, UChicago

value: ENCBS640FBZ at ENCODE; https://www.encodeproject.org/ENCBS640FBZ/


title: TF ChIP-seq from whole organism (ENCLB420MCV)

description:
https://www.encodeproject.org/experiments/ENCSR288VXK/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Dip2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR288VXK
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR753WWN
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB420MCV
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Dip2-GFP embryo (0-18 hours) insertion targeting D. melanogaster Dlip2

value: 0-18 hour

value: Kevin White

value: ENCBS702JVJ at ENCODE; https://www.encodeproject.org/ENCBS702JVJ/


title: Control ChIP-seq from whole organism (ENCLB649VUU)

description:
https://www.encodeproject.org/experiments/ENCSR013OET/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG9932-eGFP fusion proteins.
experiment encode accession: ENCSR013OET
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB649VUU
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG9932-GFP embryo (8-24 hours) insertion targeting D. melanogaster CG9932

value: not collected

value: ENCBS660JVS at ENCODE; https://www.encodeproject.org/ENCBS660JVS/


title: TF ChIP-seq from whole organism (ENCLB468FNU)

description:
https://www.encodeproject.org/experiments/ENCSR013QWF/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing prd-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR013QWF
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR570FSI
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB468FNU
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain prd-GFP embryo (0-8 hours) insertion targeting D. melanogaster prd

value: prd

value: 0-8 hour

value: ENCBS251HAZ at ENCODE; https://www.encodeproject.org/ENCBS251HAZ/


title: TF ChIP-seq from whole organism (ENCLB435RUT)

description:
https://www.encodeproject.org/experiments/ENCSR013QWF/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing prd-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR013QWF
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR570FSI
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB435RUT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: ENCBS884WUA at ENCODE; https://www.encodeproject.org/ENCBS884WUA/


title: TF ChIP-seq from whole organism (ENCLB062IVQ)

description:
https://www.encodeproject.org/experiments/ENCSR207TGU/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG13287-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR207TGU
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR409JCT
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB062IVQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG13287-GFP embryo (6-24 hours) insertion targeting D. melanogaster CG13287

value: whole organisms

value: ENCBS360GJE at ENCODE; https://www.encodeproject.org/ENCBS360GJE/


title: TF ChIP-seq from whole organism (ENCLB740DNL)

description:
https://www.encodeproject.org/experiments/ENCSR288VXK/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Dip2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR288VXK
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR753WWN
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB740DNL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not applicable

value: ENCBS247PWX at ENCODE; https://www.encodeproject.org/ENCBS247PWX/


title: TF ChIP-seq from whole organism (ENCLB889NJI)

description:
https://www.encodeproject.org/experiments/ENCSR012VVW/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG4730-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR012VVW
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR378MWY
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB889NJI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG4730-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG4730

value: embryonic

value: 0-24 hour

value: ENCBS281XKL at ENCODE; https://www.encodeproject.org/ENCBS281XKL/


title: TF ChIP-seq from whole organism (ENCLB017EKM)

description:
https://www.encodeproject.org/experiments/ENCSR013QWF/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing prd-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR013QWF
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR570FSI
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB017EKM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Kevin White, UChicago

value: ENCBS764BQH at ENCODE; https://www.encodeproject.org/ENCBS764BQH/


title: TF ChIP-seq from whole organism (ENCLB051UHQ)

description:
https://www.encodeproject.org/experiments/ENCSR121SDZ/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing danr-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR121SDZ
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR583JSU
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB051UHQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG7357-GFP embryo (0-24 hours) insertion targeting D. melanogaster Odj

value: Kevin White

value: ENCBS847LVO at ENCODE; https://www.encodeproject.org/ENCBS847LVO/


title: TF ChIP-seq from whole organism (ENCLB222OUB)

description:
https://www.encodeproject.org/experiments/ENCSR126PUC/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing inv-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR126PUC
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR580CYL
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB222OUB
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: inv

value: not collected

value: ENCBS793DCI at ENCODE; https://www.encodeproject.org/ENCBS793DCI/


title: Control ChIP-seq from whole organism (ENCLB437ZUU)

description:
https://www.encodeproject.org/experiments/ENCSR121JSG/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing hkb-eGFP fusion proteins.
experiment encode accession: ENCSR121JSG
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB437ZUU
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: ENCBS510FCV at ENCODE; https://www.encodeproject.org/ENCBS510FCV/


title: Control ChIP-seq from whole organism (ENCLB713XVO)

description:
https://www.encodeproject.org/experiments/ENCSR194MGU/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Rfx-eGFP fusion proteins.
experiment encode accession: ENCSR194MGU
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB713XVO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organism

value: ENCBS750PSV at ENCODE; https://www.encodeproject.org/ENCBS750PSV/


title: TF ChIP-seq from whole organism (ENCLB440POD)

description:
https://www.encodeproject.org/experiments/ENCSR012VVW/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG4730-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR012VVW
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR378MWY
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB440POD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: ENCBS526PKX at ENCODE; https://www.encodeproject.org/ENCBS526PKX/


title: TF ChIP-seq from whole organism (ENCLB932OAN)

description:
https://www.encodeproject.org/experiments/ENCSR121SDZ/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing danr-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR121SDZ
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR583JSU
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB932OAN
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not applicable

value: ENCBS636GBQ at ENCODE; https://www.encodeproject.org/ENCBS636GBQ/


title: TF ChIP-seq from whole organism (ENCLB397ZVK)

description:
https://www.encodeproject.org/experiments/ENCSR125LUS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing HLH3B-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR125LUS
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR518MOD
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB397ZVK
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: embryonic

value: ENCBS995BCQ at ENCODE; https://www.encodeproject.org/ENCBS995BCQ/


title: TF ChIP-seq from whole organism (ENCLB418GYS)

description:
https://www.encodeproject.org/experiments/ENCSR110JOZ/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Lim3-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR110JOZ
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR852DOZ
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB418GYS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Lim3-GFP embryo (8-24 hours) insertion targeting D. melanogaster Lim3

value: ENCBS149PRN at ENCODE; https://www.encodeproject.org/ENCBS149PRN/


title: TF ChIP-seq from whole organism (ENCLB002UZO)

description:
https://www.encodeproject.org/experiments/ENCSR110JOZ/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Lim3-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR110JOZ
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR852DOZ
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB002UZO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Kevin White, UChicago

value: ENCBS943OYQ at ENCODE; https://www.encodeproject.org/ENCBS943OYQ/


title: Control ChIP-seq from whole organism (ENCLB057GOC)

description:
https://www.encodeproject.org/experiments/ENCSR010CSQ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG11456-eGFP fusion proteins.
experiment encode accession: ENCSR010CSQ
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB057GOC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG11456-GFP embryo (0-18 hours) insertion targeting D. melanogaster CG11456

value: 0-18 hour

value: Kevin White

value: ENCBS062PNY at ENCODE; https://www.encodeproject.org/ENCBS062PNY/


title: TF ChIP-seq from whole organism (ENCLB728VIM)

description:
https://www.encodeproject.org/experiments/ENCSR294JDU/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing chinmo-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR294JDU
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR641AIJ
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB728VIM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain chinmo-GFP embryo (6-24 hours) insertion targeting D. melanogaster chinmo

value: chinmo

value: not collected

value: ENCBS072LWB at ENCODE; https://www.encodeproject.org/ENCBS072LWB/


title: Control ChIP-seq from whole organism (ENCLB881QCI)

description:
https://www.encodeproject.org/experiments/ENCSR193TLR/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing bowl-eGFP fusion proteins.
experiment encode accession: ENCSR193TLR
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB881QCI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organism

value: 0-24 hour

value: ENCBS999RHM at ENCODE; https://www.encodeproject.org/ENCBS999RHM/


title: TF ChIP-seq from whole organism (ENCLB755YJL)

description:
https://www.encodeproject.org/experiments/ENCSR105NBC/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing knrl-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR105NBC
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR923QLN
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB755YJL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: knrl

value: whole organisms

value: ENCBS579BCW at ENCODE; https://www.encodeproject.org/ENCBS579BCW/


title: Control ChIP-seq from whole organism (ENCLB258GAO)

description:
https://www.encodeproject.org/experiments/ENCSR009STJ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG6163-eGFP fusion proteins.
experiment encode accession: ENCSR009STJ
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB258GAO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG6163-GFP prepupa (unknown stages) insertion targeting D. melanogaster CG6163

value: not applicable

value: prepupa

value: unknown stage

value: ENCBS736BQV at ENCODE; https://www.encodeproject.org/ENCBS736BQV/


title: TF ChIP-seq from whole organism (ENCLB645IFK)

description:
https://www.encodeproject.org/experiments/ENCSR105NBC/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing knrl-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR105NBC
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR923QLN
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB645IFK
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: embryonic

value: Kevin White, UChicago

value: ENCBS360KTY at ENCODE; https://www.encodeproject.org/ENCBS360KTY/


title: TF ChIP-seq from whole organism (ENCLB878LSF)

description:
https://www.encodeproject.org/experiments/ENCSR105NBC/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing knrl-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR105NBC
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR923QLN
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB878LSF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Kevin White

value: ENCBS091SFT at ENCODE; https://www.encodeproject.org/ENCBS091SFT/


title: Control ChIP-seq from whole organism (ENCLB558MLD)

description:
https://www.encodeproject.org/experiments/ENCSR017XHN/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG10321-eGFP fusion proteins.
experiment encode accession: ENCSR017XHN
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB558MLD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG10321-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG10321

value: not collected

value: ENCBS641JKV at ENCODE; https://www.encodeproject.org/ENCBS641JKV/


title: Control ChIP-seq from whole organism (ENCLB200LOI)

description:
https://www.encodeproject.org/experiments/ENCSR190GMM/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG3726-eGFP fusion proteins.
experiment encode accession: ENCSR190GMM
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB200LOI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG3726-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG3726

value: whole organism

value: ENCBS350ZCR at ENCODE; https://www.encodeproject.org/ENCBS350ZCR/


title: Control ChIP-seq from whole organism (ENCLB699YYH)

description:
https://www.encodeproject.org/experiments/ENCSR284YMU/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing HLH4C-eGFP fusion proteins.
experiment encode accession: ENCSR284YMU
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB699YYH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain HLH4C-GFP embryo (8-24 hours) insertion targeting D. melanogaster HLH4C

value: ENCBS220JEK at ENCODE; https://www.encodeproject.org/ENCBS220JEK/


title: Control ChIP-seq from whole organism (ENCLB855LVO)

description:
https://www.encodeproject.org/experiments/ENCSR284UJF/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing nerfin-2-eGFP fusion proteins.
experiment encode accession: ENCSR284UJF
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB855LVO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain nerfin-2-GFP embryo (8-24 hours) insertion targeting D. melanogaster nerfin-2

value: ENCBS808SDR at ENCODE; https://www.encodeproject.org/ENCBS808SDR/


title: TF ChIP-seq from whole organism (ENCLB934LFR)

description:
https://www.encodeproject.org/experiments/ENCSR189IPH/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing onecut-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR189IPH
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR609YOS
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB934LFR
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: onecut

value: whole organisms

value: 0-24 hour

value: ENCBS295ZXB at ENCODE; https://www.encodeproject.org/ENCBS295ZXB/


title: Control ChIP-seq from whole organism (ENCLB298WED)

description:
https://www.encodeproject.org/experiments/ENCSR186QCV/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Poxn-eGFP fusion proteins.
experiment encode accession: ENCSR186QCV
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB298WED
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: not applicable

value: ENCBS006FTT at ENCODE; https://www.encodeproject.org/ENCBS006FTT/


title: TF ChIP-seq from whole organism (ENCLB550NRH)

description:
https://www.encodeproject.org/experiments/ENCSR121SDZ/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing danr-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR121SDZ
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR583JSU
encode release date: 2022-11-23
lab: Kevin White, UChicago
library encode accession: ENCLB550NRH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: embryonic

value: ENCBS124UVB at ENCODE; https://www.encodeproject.org/ENCBS124UVB/


title: Control ChIP-seq from Patski (ENCLB821MPQ)

description:
https://www.encodeproject.org/experiments/ENCSR343HAH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR343HAH
assay title: Control ChIP-seq
assembly: mm10
encode release date: 2021-07-01
lab: Christine Disteche, UW
library encode accession: ENCLB821MPQ

organism: Mus musculus

source_name: Mus musculus strain Patski Patski cell line

extract_protocol: not provided

tag: line

value: Patski

value: cell line

value: unknown

value: Christine Disteche, UW

value: Christine Disteche

value: ENCBS826RRM at ENCODE; https://www.encodeproject.org/ENCBS826RRM/


title: Control ChIP-seq from Patski (ENCLB269HIO)

description:
https://www.encodeproject.org/experiments/ENCSR776VHJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR776VHJ
assay title: Control ChIP-seq
assembly: mm10
encode release date: 2021-07-01
lab: Christine Disteche, UW
library encode accession: ENCLB269HIO

value: not collected

value: ENCBS373MTK at ENCODE; https://www.encodeproject.org/ENCBS373MTK/


title: B6; 129P2-Pde2A < tm1Dgen> WT_E

city: Monterotondo

first: Manuela

last: Pellegrini

state: Rome

address: Via E Ramarini

country: Italy

institute: IBBC-CNR

library_source: transcriptomic

data_processing:
Illumina data processing pipeline
STAR aligner
Assembly: GRCm38-mm10
Supplementary files format and content: fiiles ".txt.gz" contain generated sequences in fasta format, files ".bam" contain processed sequences aligned to a reference genome
Supplementary files format and content: files ".out.tab" contain processed read counts per gene

molecule: total RNA

source_name: embryonic heart

extract_protocol:
Total RNA was isolated from embryonic cardiac tissue using Total RNA Purification kit (Norgen). RNA-sequencing, the integrity and purity of the RNA was initially checked at the Bioanalyzer (Agilent 2100 bioanalyzer) by using RNA 6000 Nano Agilent kit
stranded mRNA-seq libraries were prepared with the NEBNext RNA Ultra II kit with 300 ng as an input as 12 PCR cycles
prepared libaries were pooled in the equimolar amount and sequenced with a single-end running mode with the Illumina NextSeq 500 instrument

tag: tissue

value: embryonic heart


title: TF ChIP-seq from whole organism (ENCLB941QSM)

description:
https://www.encodeproject.org/experiments/ENCSR283CFB/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing ara-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR283CFB
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR966CJP
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB941QSM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: ara

value: whole organism

value: Kevin White, UChicago

value: Kevin White

value: ENCBS779PMO at ENCODE; https://www.encodeproject.org/ENCBS779PMO/


title: B6; 129P2-Pde2A < tm1Dgen> WT_H


title: TF ChIP-seq from whole organism (ENCLB379ZKI)

description:
https://www.encodeproject.org/experiments/ENCSR283CFB/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing ara-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR283CFB
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR966CJP
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB379ZKI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: not applicable

value: 0-24 hour

value: ENCBS270YYI at ENCODE; https://www.encodeproject.org/ENCBS270YYI/


title: TF ChIP-seq from whole organism (ENCLB532QGR)

description:
https://www.encodeproject.org/experiments/ENCSR103OZL/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing gsb-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR103OZL
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR139TOJ
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB532QGR
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain gsb-GFP embryo (0-18 hours) insertion targeting D. melanogaster gsb

value: gsb

value: embryonic

value: 0-18 hour

value: ENCBS354JIG at ENCODE; https://www.encodeproject.org/ENCBS354JIG/


title: Control ChIP-seq from whole organism (ENCLB109UIS)

description:
https://www.encodeproject.org/experiments/ENCSR194HLU/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing ttk-eGFP fusion proteins.
experiment encode accession: ENCSR194HLU
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB109UIS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: ENCBS921ZGT at ENCODE; https://www.encodeproject.org/ENCBS921ZGT/


title: B6; 129P2-Pde2A < tm1Dgen> WT_11


title: B6; 129P2-Pde2A < tm1Dgen> WT_6


title: TF ChIP-seq from whole organism (ENCLB938QWC)

description:
https://www.encodeproject.org/experiments/ENCSR103OZL/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing gsb-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR103OZL
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR139TOJ
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB938QWC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not collected

value: ENCBS156WXB at ENCODE; https://www.encodeproject.org/ENCBS156WXB/


title: B6; 129P2-Pde2A < tm1Dgen> WT_7

value: embryonic heart


title: B6; 129P2-Pde2A < tm1Dgen> KO_B


title: B6; 129P2-Pde2A < tm1Dgen> KO_15


title: B6; 129P2-Pde2A < tm1Dgen> KO_14


title: Multiplexing Capture WT 17 days

city: Boston

first: Hui

last: Pan

address: 1 Joslin Place

department: Bioinformatics and Biostatistics Core

institute: Joslin Diabetes Center

description:
hashtag oligo
count_table.csv
metadata.csv

library_source: other

data_processing:
Raw sequencing data were demultiplexed, aligned to the mouse genome (mm10) and UMI-collapsed using CellRanger.
Assembly: mm10
Supplementary files format and content: CSV gene counts
Supplementary files format and content: CSV metadata

molecule: other

source_name: beta cell graft

extract_protocol:
Cells were  lysed in droplets using the 10X Chromium instrument.
10x Genomics 3' single cell RNA sequencing protocol v3.1 & Cell hashing protocol (https://citeseq.files.wordpress.com/2019/02/cell_hashing_protocol_190213.pdf)

value: beta cell graft

tag: cell line

tag: cell type

value: beta cell

tag: genotype

value: Wild type

tag: treatment

value: syngenic autoreactive splenocytes


title: Multiplexing Capture KO 17 days

value: Rnls mutant


title: Multiplexing Capture KO 10 days


title: Multiplexing Capture WT 10 days


title: Patient_4_IE_NonResponding

city: Aurora

first: Stanca

last: Birlea

state: CO

department: Dermatology

institute: University of Colorado, Anschutz Medical Campus

data_processing:
For whole transcriptome analysis, data alignment and normalization were performed by dividing each gene’s count by the sum of all counts in each sample, then multiplying by 5E10^6. Differential expression analysis was performed using TempO-SeqR program (BioSpyder Technologies Inc.), which employs DeSeq2 methodology to detect statistically significant changes in expression (Love et al. 2014).
Assembly: GRCh37/hg19
Supplementary files format and content: .CSV file

organism: Homo sapiens

source_name: Full-thickness skin

extract_protocol:
Using archived 4µm FFPE tissue sections from paired biopsies of non-responder and responder vitiligo lesions, we applied a novel method, TempO-Seq (Templated Oligo Assay with Sequencing Readout) (BioSpyder Technologies, Inc). We used transverse sections of FFPE slides from paired responding and non-responding lesions from 4 vitiligo patients (8 paired samples total). 1mm^2 epidermal scrapes were homogenized and lysed after dissolving paraffin. Most of the epidermis was collected, and there could be some minimum contamination with dermal tissue. The immense majority of cells collected were epidermal KCs, MCs, immune cells and Merkel cells present in epidermis.
The resulting lysates were added to the TempO-Seq assay, where DOs were annealed, unbound DOs were enzymatically removed, and bound probes were ligated and amplified. The amplified assay products were pooled and purified, then directly sequenced using the Illumina NextSeq 550 platform. The whole transcriptome DO pools consisted of 22,537 DO pairs targeting 19703 genes. The 8 epidermal scrape samples were sequenced to an average depth of 5M reads (equivalent to ~50M reads in RNA-seq). All 8 samples achieved >3M mapped reads; there were no samples that failed to produce any usable data.

treatment_protocol: Patient biopsies were fixed in 10% neutral buffered formalin for 24 hours, followed by processing and sectioning in the Histology Core at the Gates Institute for Regenerative Medicine.

value: Full-thickness skin

value: Interfollicular Epidermis

value: Epidermal KCs, MCs, immune cells and Merkel cells

value: Non-Repigmented skin

value: NBUVB-Treated for 3-6 months


title: Patient_3_IE_NonResponding


title: Patient_4_IE_Responding

value: Repigmented skin


title: Patient_2_IE_NonResponding


title: Patient_1_IE_NonResponding


title: Patient_3_IE_Responding


title: B6; 129P2-Pde2A < tm1Dgen> WT_8


title: TF ChIP-seq from whole organism (ENCLB057AOZ)

description:
https://www.encodeproject.org/experiments/ENCSR511YXX/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG31441-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR511YXX
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR851BDY
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB057AOZ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG31441-GFP embryo (0-16 hours) insertion targeting D. melanogaster CG31441

tag: antibody

value: whole organism

value: whole organisms

value: not applicable

value: embryonic

value: 0-16 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS395BZJ at ENCODE; https://www.encodeproject.org/ENCBS395BZJ/


title: TF ChIP-seq from whole organism (ENCLB068YFI)

description:
https://www.encodeproject.org/experiments/ENCSR511YXX/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG31441-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR511YXX
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR851BDY
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB068YFI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

tag: biosample encode accession

value: not collected

value: ENCBS706IML at ENCODE; https://www.encodeproject.org/ENCBS706IML/


title: B6; 129P2-Pde2A < tm1Dgen> KO_A

value: embryonic heart


title: TF ChIP-seq from whole organism (ENCLB757CHN)

description:
https://www.encodeproject.org/experiments/ENCSR189IPH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing onecut-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR189IPH
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR609YOS
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB757CHN
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: onecut

tag: collection date

value: 0-24 hour

value: ENCBS281BQL at ENCODE; https://www.encodeproject.org/ENCBS281BQL/


title: Patient_2_IE_Responding

value: Full-thickness skin

value: Interfollicular Epidermis

value: Epidermal KCs, MCs, immune cells and Merkel cells


title: TF ChIP-seq from whole organism (ENCLB881UWZ)

description:
https://www.encodeproject.org/experiments/ENCSR593IEE/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG17361-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR593IEE
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR195DZI
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB881UWZ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG17361-GFP embryo (0-24 hours) insertion targeting D. melanogaster CG17361

value: whole organism

tag: geographic location

value: ENCBS690IMR at ENCODE; https://www.encodeproject.org/ENCBS690IMR/


title: TF ChIP-seq from whole organism (ENCLB036ATO)

description:
https://www.encodeproject.org/experiments/ENCSR593IEE/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG17361-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR593IEE
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR195DZI
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB036ATO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: not applicable

tag: encode accession

value: ENCBS872ALR at ENCODE; https://www.encodeproject.org/ENCBS872ALR/


title: Control ChIP-seq from whole organism (ENCLB764ZVC)

description:
https://www.encodeproject.org/experiments/ENCSR195DZI/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG17361-eGFP fusion proteins.
experiment encode accession: ENCSR195DZI
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB764ZVC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

tag: Sex

value: embryonic

value: Kevin White, UChicago

value: ENCBS222PNV at ENCODE; https://www.encodeproject.org/ENCBS222PNV/


title: Control ChIP-seq from whole organism (ENCLB858UZP)

description:
https://www.encodeproject.org/experiments/ENCSR851BDY/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG31441-eGFP fusion proteins.
experiment encode accession: ENCSR851BDY
assay title: Control ChIP-seq
assembly: dm6
encode release date: 2022-12-19
lab: Kevin White, UChicago
library encode accession: ENCLB858UZP
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not collected

tag: dev stage

value: 0-16 hour

value: Kevin White

value: ENCBS564AZB at ENCODE; https://www.encodeproject.org/ENCBS564AZB/


title: Control ChIP-seq from whole organism (ENCLB692MYN)

description:
https://www.encodeproject.org/experiments/ENCSR534YJS/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR534YJS
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-28
lab: Michael Snyder, Stanford
library encode accession: ENCLB692MYN
fragmentation methods: sonication (generic microtip)

organism: Caenorhabditis elegans

source_name: Caenorhabditis elegans strain OP355 (unc-119(tm4063) III; wgIs355) mixed sex L4 larva insertion targeting C. elegans mdl-1

tag: note

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

value: pooled male and female

value: L4 larva

tag: age

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS870DFV at ENCODE; https://www.encodeproject.org/ENCBS870DFV/


title: TF ChIP-seq from whole organism (ENCLB278EZL)

description:
https://www.encodeproject.org/experiments/ENCSR593IEE/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG17361-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR593IEE
assay title: TF ChIP-seq
assembly: dm6
possible controls: ENCSR195DZI
encode release date: 2022-11-01
lab: Kevin White, UChicago
library encode accession: ENCLB278EZL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: whole organisms

value: 0-24 hour

tag: lab

tag: source

value: ENCBS806MTI at ENCODE; https://www.encodeproject.org/ENCBS806MTI/


title: TF ChIP-seq from whole organism (ENCLB122OUE)

description:
https://www.encodeproject.org/experiments/ENCSR535LKO/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-pqm-1 in L3 larva worms.
experiment encode accession: ENCSR535LKO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR042QHV
encode release date: 2017-12-04
lab: Michael Snyder, Stanford
library encode accession: ENCLB122OUE
size range: 150-350

source_name: Caenorhabditis elegans strain OP201 (unc-119(tm4063) III; wgIs201) mixed sex L3 larva insertion targeting C. elegans pqm-1

value: not applicable

value: L3 larva

value: CGC

tag: link

value: ENCBS272FIY at ENCODE; https://www.encodeproject.org/ENCBS272FIY/


title: TF ChIP-seq from whole organism (ENCLB947YBL)

description:
https://www.encodeproject.org/experiments/ENCSR535LKO/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-pqm-1 in L3 larva worms.
experiment encode accession: ENCSR535LKO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR042QHV
encode release date: 2017-12-04
lab: Michael Snyder, Stanford
library encode accession: ENCLB947YBL
size range: 150-350

value: ENCBS240VLJ at ENCODE; https://www.encodeproject.org/ENCBS240VLJ/


title: Control ChIP-seq from whole organism (ENCLB904KSV)

description:
https://www.encodeproject.org/experiments/ENCSR534YJS/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR534YJS
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-28
lab: Michael Snyder, Stanford
library encode accession: ENCLB904KSV
fragmentation methods: sonication (generic microtip)

value: ENCBS435IWG at ENCODE; https://www.encodeproject.org/ENCBS435IWG/


title: Control ChIP-seq from whole organism (ENCLB642JGO)

description:
https://www.encodeproject.org/experiments/ENCSR534JVP/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in late embryonic worms.
experiment encode accession: ENCSR534JVP
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB642JGO
size range: 150-350

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

value: late embryonic

value: ENCBS854JBH at ENCODE; https://www.encodeproject.org/ENCBS854JBH/


title: Patient_1_IE_Responding

tag: tissue

value: Full-thickness skin

value: Interfollicular Epidermis

value: Epidermal KCs, MCs, immune cells and Merkel cells

value: Repigmented skin

value: NBUVB-Treated for 3-6 months


title: Control ChIP-seq from whole organism (ENCLB376RJD)

description:
https://www.encodeproject.org/experiments/ENCSR534JVP/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in late embryonic worms.
experiment encode accession: ENCSR534JVP
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB376RJD
size range: 150-350

value: whole organism

value: pooled male and female

value: unknown

value: Michael Snyder, Stanford

value: ENCBS433BKH at ENCODE; https://www.encodeproject.org/ENCBS433BKH/


title: TF ChIP-seq from whole organism (ENCLB744JGC)

description:
https://www.encodeproject.org/experiments/ENCSR530KWH/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-sptf-1 in L1 larva worms.
experiment encode accession: ENCSR530KWH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR122WYP
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB744JGC
size range: 150-350

source_name: Caenorhabditis elegans strain OP196 (unc-119(ed3) III; wgIs196) mixed sex L1 larva insertion targeting C. elegans sptf-1

value: whole organisms

value: not applicable

value: L1 larva

value: ENCBS999JZX at ENCODE; https://www.encodeproject.org/ENCBS999JZX/


title: TF ChIP-seq from whole organism (ENCLB944NYQ)

description:
https://www.encodeproject.org/experiments/ENCSR530KWH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-sptf-1 in L1 larva worms.
experiment encode accession: ENCSR530KWH
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR122WYP
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB944NYQ
size range: 150-350

value: CGC

value: ENCBS293QGJ at ENCODE; https://www.encodeproject.org/ENCBS293QGJ/


title: B6; 129P2-Pde2A < tm1Dgen> KO_D

value: embryonic heart


title: TF ChIP-seq from whole organism (ENCLB521IRZ)

description:
https://www.encodeproject.org/experiments/ENCSR529PIJ/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing F49E8.2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR529PIJ
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR892ECY
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB521IRZ
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP383 (unc-119(tm4063) III; wgIs383) hermaphrodite young adult 48 hours post synchronization at L1 larva starved after bleaching stage insertion targeting C. elegans oef-1

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to F49E8-2

value: hermaphrodite

value: young adult

value: Valerie Reinke, Yale

value: Valerie Reinke

tag: worm synchronization stage

value: L1 larva starved after bleaching

tag: post synchronization time

tag: post synchronization time units

value: hour

value: ENCBS156BAR at ENCODE; https://www.encodeproject.org/ENCBS156BAR/


title: #3 KO large intestine

type: RNA

city: Columbia

first: YAN-HUA

last: Chen

state: SC

address: 631 Sumter Street

department: Chemistry and Biochemistry

institute: University of South Carolina

hyb_protocol: Mulhybridization, 1 color amplify and hybridization on Agilent 8x60K mouse GE

scan_protocol: Agilent SureScan Dx Microarray Scanner

data_processing:
Microarray data were background-corrected and normalized using R software (version 3.3.0). Differential expression was tested using an equal variance t-test, and p-values were transformed to q-values using Benjamini and Hochberg’s approach[33].
Genes were identified as differentially expressed if the q-value was < 0.05 and absolute fold-change was > 2.

source_name: KO large intestines

label_protocol: RNA quality was assessed by electrophoresis using Bioanalyzer, and the high-integrity RNA samples were used for microarray hybridization. Microarray profiling was conducted at the Genomics and Bioinformatics Core at the University of North Carolina at Chapel Hill using the Agilent SurePrint GE 8x60K mouse whole genome chip (Agilent Technologies, Inc.).

growth_protocol: The claudin-7 KO mouse colony was housed in the microisolation barrier. To determine mouse genotypes, tail snips were obtained while newborn mice were tattooed. All animal experiments were approved by the East Carolina University Animal Care and Use Committee.

extract_protocol: For genome-wide gene expression microarray experiments, intestinal fragments (2 cm) from 3-days old of WT and KO pups were collected in RNAlater solution (Thermo Fisher Scientific, Catalog number, AM7020). The total RNA was isolated using RNeasy mini kit (Qiagen, Catalog number 74104) following the manufacturer's instructions. RNA quality was assessed by electrophoresis using Bioanalyzer, and the high-integrity RNA samples were used for microarray hybridization.

treatment_protocol: No treatment

value: Mouse large intestines

value: 3-days old pups

tag: strain

tag: genotype

value: claudin-7 KO


title: #3 WT large intestine

source_name: WT large intestines

value: wild type


title: #3 KO small intestine

source_name: KO small intestines

value: Mouse small intestines


title: #2 KO large intestine


title: #3 WT small intestine

source_name: WT small intestines


title: #2 KO small intestine


title: Control ChIP-seq from whole organism (ENCLB603WUQ)

description:
https://www.encodeproject.org/experiments/ENCSR528YHA/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in young adult worms.
experiment encode accession: ENCSR528YHA
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB603WUQ
size range: 150-350

source_name: Caenorhabditis elegans strain OP37 (unc-119(ed3) III; wgIs37) mixed sex young adult insertion targeting C. elegans pha-4

value: whole organism

value: whole organisms

tag: biosample encode accession

value: not applicable

value: pooled male and female

value: unknown

value: Michael Snyder, Stanford

value: ENCBS921MPR at ENCODE; https://www.encodeproject.org/ENCBS921MPR/


title: TF ChIP-seq from whole organism (ENCLB352LNE)

description:
https://www.encodeproject.org/experiments/ENCSR529PIJ/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing F49E8.2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR529PIJ
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR892ECY
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB352LNE
fragmentation methods: sonication (generic microtip)

tag: antibody

tag: collection date

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to F49E8-2

value: hermaphrodite

value: young adult

value: Valerie Reinke, Yale

value: ENCBS957WQG at ENCODE; https://www.encodeproject.org/ENCBS957WQG/


title: #2 WT small intestine


title: TF ChIP-seq from whole organism (ENCLB912PIE)

description:
https://www.encodeproject.org/experiments/ENCSR529PIJ/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing F49E8.2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR529PIJ
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR892ECY
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB912PIE
fragmentation methods: sonication (generic microtip)

tag: geographic location

tag: encode accession

value: Valerie Reinke

value: L1 larva starved after bleaching

value: hour

value: ENCBS261HTK at ENCODE; https://www.encodeproject.org/ENCBS261HTK/


title: #2 WT large intestine

value: Mouse large intestines

value: 3-days old pups

value: wild type


title: TF ChIP-seq from whole organism (ENCLB685TUF)

description:
https://www.encodeproject.org/experiments/ENCSR528UQO/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-12 in mixed stage (embryonic) worms.
experiment encode accession: ENCSR528UQO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR435IYX
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB685TUF
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: whole organisms

value: not applicable

tag: Sex

tag: dev stage

value: mixed stage (embryonic)

value: CGC

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


title: Control ChIP-seq from whole organism (ENCLB594RVG)

description:
https://www.encodeproject.org/experiments/ENCSR843CSI/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR843CSI
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB594RVG
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

tag: note

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

value: pooled male and female

value: L1 larva

tag: age

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS719VXY at ENCODE; https://www.encodeproject.org/ENCBS719VXY/


title: TF ChIP-seq from whole organism (ENCLB292RCA)

description:
https://www.encodeproject.org/experiments/ENCSR528UQO/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-12 in mixed stage (embryonic) worms.
experiment encode accession: ENCSR528UQO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR435IYX
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB292RCA
size range: 150-350

tag: lab

tag: source

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


title: Control ChIP-seq from whole organism (ENCLB285BEF)

description:
https://www.encodeproject.org/experiments/ENCSR841ZAM/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR841ZAM
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB285BEF
size range: 150-350

source_name: Caenorhabditis elegans strain OP174 (unc-119(ed3); wgIs174(ces-1::TY1 EGFP FLAG;unc-119)) mixed sex L4 larva insertion targeting C. elegans ces-1

value: L4 larva

tag: link

value: ENCBS800DFU at ENCODE; https://www.encodeproject.org/ENCBS800DFU/


title: Control ChIP-seq from whole organism (ENCLB880RHG)

description:
https://www.encodeproject.org/experiments/ENCSR841ZAM/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR841ZAM
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB880RHG
size range: 150-350

value: ENCBS586OKO at ENCODE; https://www.encodeproject.org/ENCBS586OKO/


title: Control ChIP-seq from whole organism (ENCLB495GOJ)

description:
https://www.encodeproject.org/experiments/ENCSR528TJN/
***************
biological replicate number: 1
technical replicate number: 1
description: This is the ChIP-seq control of transgenic worms expressing B0336.3-eGFP fusion proteins.
experiment encode accession: ENCSR528TJN
assay title: Control ChIP-seq
assembly: ce11
encode release date: 2022-12-19
lab: Valerie Reinke, Yale
library encode accession: ENCLB495GOJ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Caenorhabditis elegans strain OP801 (wgIs801(B0336.3::TY1 EGFP 3xFLAG(p_wTRG5_insertion_c_0040_1B04);unc-119(+));unc-119 (tm4063)) young adult (66 hours) at L1 larva starved after bleaching stage insertion targeting C. elegans rbm-26

value: whole organism

value: not collected

value: young adult

value: 66 hour

value: Valerie Reinke, Yale

value: Valerie Reinke

tag: worm synchronization stage

value: L1 larva starved after bleaching

value: ENCBS111NTT at ENCODE; https://www.encodeproject.org/ENCBS111NTT/


title: Control ChIP-seq from whole organism (ENCLB809AAO)

description:
https://www.encodeproject.org/experiments/ENCSR528CPO/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR528CPO
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB809AAO
size range: 150-350

source_name: Caenorhabditis elegans strain OP367 (unc-119(tm4063) III; wgIs367) mixed sex mixed stage (embryo) insertion targeting C. elegans lsy-2

value: whole organisms

value: not applicable

value: pooled male and female

value: mixed stage (embryonic)

value: CGC

value: ENCBS354BQD at ENCODE; https://www.encodeproject.org/ENCBS354BQD/


title: Control ChIP-seq from whole organism (ENCLB305EBJ)

description:
https://www.encodeproject.org/experiments/ENCSR840BQX/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR840BQX
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB305EBJ
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP367 (unc-119(tm4063) III; wgIs367) mixed sex L4 larva insertion targeting C. elegans lsy-2

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to LSY-2

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS993SAD at ENCODE; https://www.encodeproject.org/ENCBS993SAD/


title: Control ChIP-seq from whole organism (ENCLB847BIU)

description:
https://www.encodeproject.org/experiments/ENCSR840BQX/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR840BQX
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB847BIU
fragmentation methods: sonication (generic microtip)

value: whole organism

value: ENCBS723VFE at ENCODE; https://www.encodeproject.org/ENCBS723VFE/


title: Control ChIP-seq from whole organism (ENCLB510KLJ)

description:
https://www.encodeproject.org/experiments/ENCSR528CPO/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR528CPO
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB510KLJ
size range: 150-350

value: ENCBS106MDZ at ENCODE; https://www.encodeproject.org/ENCBS106MDZ/


title: Control ChIP-seq from whole organism (ENCLB312ITW)

description:
https://www.encodeproject.org/experiments/ENCSR837ZAW/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR837ZAW
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB312ITW
size range: 150-350

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

value: ENCBS048XGP at ENCODE; https://www.encodeproject.org/ENCBS048XGP/


title: Control ChIP-seq from whole organism (ENCLB410GLW)

description:
https://www.encodeproject.org/experiments/ENCSR837ZAW/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR837ZAW
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB410GLW
size range: 150-350

value: ENCBS866INU at ENCODE; https://www.encodeproject.org/ENCBS866INU/


title: TF ChIP-seq from whole organism (ENCLB810GSU)

description:
https://www.encodeproject.org/experiments/ENCSR837MHO/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-zip-2 in L4 larva worms.
experiment encode accession: ENCSR837MHO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR459YGR
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB810GSU
size range: 150-350

source_name: Caenorhabditis elegans strain OP432 (unc-119(tm4063) III; wgIs432) mixed sex L4 larva insertion targeting C. elegans zip-2

value: whole organisms

value: ENCBS361RJA at ENCODE; https://www.encodeproject.org/ENCBS361RJA/


title: Control ChIP-seq from whole organism (ENCLB139KHL)

description:
https://www.encodeproject.org/experiments/ENCSR528YHA/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in young adult worms.
experiment encode accession: ENCSR528YHA
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB139KHL
size range: 150-350

value: not applicable

value: pooled male and female

value: young adult

value: ENCBS741ZBX at ENCODE; https://www.encodeproject.org/ENCBS741ZBX/


title: TF ChIP-seq from whole organism (ENCLB356VFA)

description:
https://www.encodeproject.org/experiments/ENCSR520YHR/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-gmeb-1 in L2 larva worms.
experiment encode accession: ENCSR520YHR
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR570PSN
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB356VFA
size range: 150-350

source_name: Caenorhabditis elegans strain OP343 (unc-119(ed3) III; wgIs343) mixed sex L2 larva insertion targeting C. elegans gmeb-1

value: L2 larva

value: CGC

value: ENCBS437HUM at ENCODE; https://www.encodeproject.org/ENCBS437HUM/


title: TF ChIP-seq from whole organism (ENCLB827GAS)

description:
https://www.encodeproject.org/experiments/ENCSR837MHO/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-zip-2 in L4 larva worms.
experiment encode accession: ENCSR837MHO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR459YGR
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB827GAS
size range: 150-350

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: ENCBS627DHN at ENCODE; https://www.encodeproject.org/ENCBS627DHN/


title: Control ChIP-seq from whole organism (ENCLB149AQU)

description:
https://www.encodeproject.org/experiments/ENCSR520RET/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR520RET
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB149AQU
size range: 150-350

source_name: Caenorhabditis elegans strain OP322 (unc-119(ed3) III; wgIs322) mixed sex L1 larva insertion targeting C. elegans ztf-4

value: whole organism

value: L1 larva

value: ENCBS785NWL at ENCODE; https://www.encodeproject.org/ENCBS785NWL/


title: TF ChIP-seq from whole organism (ENCLB343FRW)

description:
https://www.encodeproject.org/experiments/ENCSR520YHR/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-gmeb-1 in L2 larva worms.
experiment encode accession: ENCSR520YHR
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR570PSN
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB343FRW
size range: 150-350

value: ENCBS690ABL at ENCODE; https://www.encodeproject.org/ENCBS690ABL/


title: Control ChIP-seq from whole organism (ENCLB000CTM)

description:
https://www.encodeproject.org/experiments/ENCSR843CSI/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR843CSI
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB000CTM
fragmentation methods: sonication (generic microtip)

value: whole organisms

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

value: Michael Snyder

value: ENCBS300ARU at ENCODE; https://www.encodeproject.org/ENCBS300ARU/


title: Control ChIP-seq from whole organism (ENCLB833PAD)

description:
https://www.encodeproject.org/experiments/ENCSR520RET/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR520RET
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB833PAD
size range: 150-350

value: not applicable

value: pooled male and female

value: ENCBS029SWV at ENCODE; https://www.encodeproject.org/ENCBS029SWV/