title: brain; Sleep; CFC; hilus; rep3 [protein expression level]

tag: region

value: hilus

tag: slide


title: TF ChIP-seq from whole organism (ENCLB287TBW)

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/ENCSR728ADS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-zag-1 in L1 larva worms.
experiment encode accession: ENCSR728ADS
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR779YVP
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB287TBW
size range: 150-350

library_source: genomic

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

molecule: genomic DNA

organism: Caenorhabditis elegans

source_name: Caenorhabditis elegans strain OP83 (unc-119(ed3) III; wgIs83) mixed sex L1 larva insertion targeting C. elegans zag-1

extract_protocol: not provided

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

value: pooled male and female

tag: dev stage

value: L1 larva

tag: age

value: unknown

tag: lab

value: Michael Snyder, Stanford

tag: source

value: CGC

tag: link

value: ENCBS685PXR at ENCODE; https://www.encodeproject.org/ENCBS685PXR/


title: TF ChIP-seq from whole organism (ENCLB825JGM)

description:
https://www.encodeproject.org/experiments/ENCSR728ADS/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-zag-1 in L1 larva worms.
experiment encode accession: ENCSR728ADS
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR779YVP
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB825JGM
size range: 150-350

value: ENCBS984UBW at ENCODE; https://www.encodeproject.org/ENCBS984UBW/


title: brain; Sleep; CFC; DG_inf; rep3 [protein expression level]

city: Ann Arbor

first: Bioinformatics

last: Core

state: MI

address: BRCF Bioinformatics Core, 2800 Plymouth Rd

institute: University of Michigan

library_source: other

data_processing:
library strategy: GeoMx NGS readout
Raw FASTQ files were processed via Nanostring's NGS pipeline (v1.0) with default parameters. According to the manufacturer, reads are first processed for quality before trimming adapters and merging paired-end reads. The resulting high quality reads are then aligned to the proprietary Readout Tag Sequence-ID (RTS-ID) barcode. PCR duplicates are removed by matching on the Unique Molecular Index (UMI) and output DCC files are then generated for each region of interest (ROI) or area of illumination (AOI).
Processed DCC files were then mapped to protein targets and collapsed into a single count table using the R package GeoMxTools (v 3.3.0) and themanufactor's reference for each of the target panels ( .pkc files).
Assembly: N/A, sequencing of synthetic tags and alignment to whitelist of RTS_IDs (probe barcodes)
Supplementary files format and content: GeoMx pipeline readable digital counts (DCC) - contains software versions, scan attributes, GeoMx NGS pipeline parameters and output metrics, Q30 scores, and list of deduplicated counts per RTS_ID (probe barcode)
Supplementary files format and content: Values represented in the collapsed target count table are the raw counts of the probes for a given protein target - or in the case that multiple probes were used, the averaged raw counts.

molecule: protein

organism: Mus musculus

source_name: brain

extract_protocol:
Samples were incubated with the following target panels for the Nanostring GeoMx DSP: (v1.0) Mouse NGS Protein Core, (v1.0) Mouse NGS Alzheimer's Pathology Extended Protein, (v1.0) Mouse NGS Alzheimer's Pathology Protein, (v1.0) Mouse NGS Autophagy Protein, (v1.0) Mouse NGS Cell Death Protein, (v1.0) Mouse NGS Glial Cell Subtyping Protein, (v1.0) Mouse NGS MAPK Signaling Protein, (v1.0) Mouse NGS Neural Cell Typing Protein, (v1.0) Mouse NGS PI3K/AKT Signaling Protein, (v1.0) Mouse NGS Parkinson's Pathology Protein. For extraction, regions of interest within the tissue were illuminated with UV light and oligo barcodes were physically aspirated from the tissue and collected into microtiter plates by the GeoMx® Digital Spatial Profiler (DSP) platform. For more information about DSP protocols please see Merritt et al. Nature Biotech 2020 (doi: 10.1038/s41598-020-63539-x).
Manufactor's protocol for Nanostring GeoMx DSP with NGS readout; Each collection of oligo tags from one well (representing an ROI from the tissue section) was indexed with i7xi5 unique dual indexes using GeoMx SeqCode primers with 18 cycles of PCR. After PCR, indexed ROIs were pooled and purified prior to sequencing.

tag: tissue

value: brain

tag: treatment

value: Sleep;CFC

tag: roi


title: Control ChIP-seq from whole organism (ENCLB004KPE)

description:
https://www.encodeproject.org/experiments/ENCSR911MXZ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing toe-eGFP fusion proteins.
experiment encode accession: ENCSR911MXZ
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB004KPE
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

organism: Drosophila melanogaster

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

tag: note

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

value: male

value: adult

value: Kevin White, UChicago

value: Kevin White

value: ENCBS317WDK at ENCODE; https://www.encodeproject.org/ENCBS317WDK/


title: TF ChIP-seq from whole organism (ENCLB232RCV)

description:
https://www.encodeproject.org/experiments/ENCSR722RUT/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing dpn-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR722RUT
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR278WHS
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB232RCV
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: dpn

value: whole organism

value: whole organisms

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

value: embryonic

value: 0-16 hour

value: ENCBS360LZB at ENCODE; https://www.encodeproject.org/ENCBS360LZB/


title: Control ChIP-seq from whole organism (ENCLB557WMK)

description:
https://www.encodeproject.org/experiments/ENCSR917HXG/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR917HXG
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2018-02-15
lab: Michael Snyder, Stanford
library encode accession: ENCLB557WMK
fragmentation methods: sonication (generic microtip)

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

value: not applicable

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

value: pooled male and female

value: L3 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS581KLY at ENCODE; https://www.encodeproject.org/ENCBS581KLY/


title: TF ChIP-seq from whole organism (ENCLB253UBY)

description:
https://www.encodeproject.org/experiments/ENCSR726TWU/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against ZK546.5 in L4 worms.
experiment encode accession: ENCSR726TWU
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR073PON
encode release date: 2017-11-30
lab: Michael Snyder, Stanford
library encode accession: ENCLB253UBY
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP231 (unc-119(ed3) III; wgIs231) mixed sex L4 larva insertion targeting C. elegans ZK546.5

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to ZK546.5

value: L4 larva

value: ENCBS034MLA at ENCODE; https://www.encodeproject.org/ENCBS034MLA/


title: brain; Sleep; CFC; CA3; rep3 [protein expression level]

value: brain

value: Sleep;CFC

tag: region


title: brain; Sleep; CFC; DG_sup; rep3 [protein expression level]

tag: slide


title: Control ChIP-seq from whole organism (ENCLB394VRP)

description:
https://www.encodeproject.org/experiments/ENCSR599UYD/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing sens-eGFP fusion proteins.
experiment encode accession: ENCSR599UYD
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB394VRP
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organism

value: whole organisms

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

value: Kevin White, UChicago

value: Kevin White

value: ENCBS991JQN at ENCODE; https://www.encodeproject.org/ENCBS991JQN/


title: brain; SD; No_CFC; DG_inf; rep4 [protein expression level]


title: brain; SD; No_CFC; hilus; rep4 [protein expression level]

value: hilus


title: brain; Sleep; CFC; DG_inf; rep4 [protein expression level]


title: brain; SD; No_CFC; DG_sup; rep3 [protein expression level]


title: TF ChIP-seq from whole organism (ENCLB551RYX)

description:
https://www.encodeproject.org/experiments/ENCSR726OQC/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing T02C12.2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR726OQC
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR280USI
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB551RYX
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain YL497 hermaphrodite young adult insertion targeting C. elegans snpc-3.4

tag: antibody

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to T02C12.2

value: hermaphrodite

value: young adult

value: Valerie Reinke, Yale

value: Valerie Reinke

value: ENCBS744JOA at ENCODE; https://www.encodeproject.org/ENCBS744JOA/


title: brain; SD; No_CFC; CA3; rep3 [protein expression level]


title: brain; Sleep; CFC; DG_sup; rep4 [protein expression level]


title: TF ChIP-seq from whole organism (ENCLB599SBG)

description:
https://www.encodeproject.org/experiments/ENCSR726OQC/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing T02C12.2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR726OQC
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR280USI
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB599SBG
fragmentation methods: sonication (generic microtip)

tag: biosample encode accession

value: unknown

value: ENCBS258SWH at ENCODE; https://www.encodeproject.org/ENCBS258SWH/


title: TF ChIP-seq from whole organism (ENCLB411LWD)

description:
https://www.encodeproject.org/experiments/ENCSR909QHH/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing grn-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR909QHH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR030ZQQ
encode release date: 2017-12-11
lab: Kevin White, UChicago
library encode accession: ENCLB411LWD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: grn

tag: collection date

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

value: pooled male and female

value: embryonic

value: 0-24 hour

value: ENCBS721SMG at ENCODE; https://www.encodeproject.org/ENCBS721SMG/


title: brain; SD; No_CFC; CA1; rep3 [protein expression level]

value: brain


title: Control ChIP-seq from whole organism (ENCLB566YXT)

description:
https://www.encodeproject.org/experiments/ENCSR614DFZ/
***************
biological replicate number: 1
technical replicate number: 1
description: This is the ChIP-seq control of transgenic worms expressing LSY-27-eGFP fusion proteins.
experiment encode accession: ENCSR614DFZ
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2016-05-10
lab: Valerie Reinke, Yale
library encode accession: ENCLB566YXT
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP401 hermaphrodite young adult insertion targeting C. elegans lsy-27

value: whole organism

value: whole organisms

tag: geographic location

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to LSY-27

value: ENCBS460WRP at ENCODE; https://www.encodeproject.org/ENCBS460WRP/


title: TF ChIP-seq from whole organism (ENCLB484SZG)

description:
https://www.encodeproject.org/experiments/ENCSR909QHH/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing grn-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR909QHH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR030ZQQ
encode release date: 2017-12-11
lab: Kevin White, UChicago
library encode accession: ENCLB484SZG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not applicable

tag: encode accession

value: Kevin White, UChicago

value: Kevin White

value: ENCBS466HFP at ENCODE; https://www.encodeproject.org/ENCBS466HFP/


title: brain; SD; No_CFC; hilus; rep3 [protein expression level]

value: hilus


title: Control ChIP-seq from whole organism (ENCLB622RXV)

description:
https://www.encodeproject.org/experiments/ENCSR418DAW/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR418DAW
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB622RXV
size range: 150-350

source_name: Caenorhabditis elegans strain OP169 (unc-119(ed3) III; wgIs169) mixed sex mixed stage (embryo) insertion targeting C. elegans ceh-39

tag: Sex

value: mixed stage (embryonic)

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS829VGP at ENCODE; https://www.encodeproject.org/ENCBS829VGP/


title: Control ChIP-seq from whole organism (ENCLB585SOT)

description:
https://www.encodeproject.org/experiments/ENCSR904QAP/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing h-eGFP fusion proteins.
experiment encode accession: ENCSR904QAP
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB585SOT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain 15T-GFP mixed sex wandering third instar larva insertion targeting D. melanogaster h

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

value: pooled male and female

tag: dev stage

value: wandering third instar larva

value: ENCBS290VZK at ENCODE; https://www.encodeproject.org/ENCBS290VZK/


title: brain; SD; No_CFC; DG_inf; rep3 [protein expression level]

value: brain


title: TF ChIP-seq from whole organism (ENCLB035LQQ)

description:
https://www.encodeproject.org/experiments/ENCSR909QHH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing grn-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR909QHH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR030ZQQ
encode release date: 2017-12-11
lab: Kevin White, UChicago
library encode accession: ENCLB035LQQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: grn

value: whole organism

value: whole organisms

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

value: embryonic

tag: age

value: 0-24 hour

value: ENCBS187UIL at ENCODE; https://www.encodeproject.org/ENCBS187UIL/


title: brain; SD; No_CFC; DG_sup; rep2 [protein expression level]


title: TF ChIP-seq from whole organism (ENCLB452UEV)

description:
https://www.encodeproject.org/experiments/ENCSR726TWU/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against ZK546.5 in L4 worms.
experiment encode accession: ENCSR726TWU
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR073PON
encode release date: 2017-11-30
lab: Michael Snyder, Stanford
library encode accession: ENCLB452UEV
fragmentation methods: sonication (generic microtip)

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to ZK546.5

value: L4 larva

tag: lab

value: Michael Snyder

value: ENCBS748DAQ at ENCODE; https://www.encodeproject.org/ENCBS748DAQ/


title: brain; SD; No_CFC; CA1; rep2 [protein expression level]


title: brain; Sleep; CFC; CA1; rep3 [protein expression level]

value: Sleep;CFC


title: Control ChIP-seq from whole organism (ENCLB848TBW)

description:
https://www.encodeproject.org/experiments/ENCSR418DAW/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR418DAW
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB848TBW
size range: 150-350

value: pooled male and female

value: mixed stage (embryonic)

value: unknown

value: Michael Snyder, Stanford

tag: source

value: CGC

value: ENCBS476OPJ at ENCODE; https://www.encodeproject.org/ENCBS476OPJ/


title: brain; SD; No_CFC; CA3; rep2 [protein expression level]

value: brain


title: Control ChIP-seq from whole organism (ENCLB809DPJ)

description:
https://www.encodeproject.org/experiments/ENCSR613HUF/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR613HUF
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB809DPJ
size range: 150-350

source_name: Caenorhabditis elegans strain OP179 (unc-119(ed3) III; wgIs179) mixed sex L3 larva insertion targeting C. elegans snpc-4

value: whole organism

value: whole organisms

value: L3 larva

tag: link

value: ENCBS813ARE at ENCODE; https://www.encodeproject.org/ENCBS813ARE/


title: brain; Sleep; No_CFC; hilus; rep2 [protein expression level]

tag: tissue

value: hilus


title: TF ChIP-seq from whole organism (ENCLB335NUO)

description:
https://www.encodeproject.org/experiments/ENCSR407MOM/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing gcm2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR407MOM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR684NLC
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB335NUO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain gcm2-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster gcm2

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to gcm2

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS680VWS at ENCODE; https://www.encodeproject.org/ENCBS680VWS/


title: Control ChIP-seq from whole organism (ENCLB255DBI)

description:
https://www.encodeproject.org/experiments/ENCSR613HUF/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR613HUF
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB255DBI
size range: 150-350

value: pooled male and female

value: unknown

value: ENCBS133NAH at ENCODE; https://www.encodeproject.org/ENCBS133NAH/


title: brain; Sleep; No_CFC; CA3; rep2 [protein expression level]

tag: treatment


title: brain; Sleep; No_CFC; DG_sup; rep2 [protein expression level]

tag: roi


title: brain; Sleep; No_CFC; CA1; rep2 [protein expression level]


title: Control ChIP-seq from whole organism (ENCLB044IFJ)

description:
https://www.encodeproject.org/experiments/ENCSR917EGR/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in late embryonic worms.
experiment encode accession: ENCSR917EGR
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB044IFJ
size range: 150-350

source_name: Caenorhabditis elegans strain N2 (C. elegans wild isolate) mixed sex late embryo whole organism

value: late embryonic

value: Michael Snyder, Stanford

value: CGC

value: ENCBS275OTR at ENCODE; https://www.encodeproject.org/ENCBS275OTR/


title: brain; Sleep; No_CFC; hilus; rep1 [protein expression level]

value: brain


title: TF ChIP-seq from whole organism (ENCLB643KGS)

description:
https://www.encodeproject.org/experiments/ENCSR904ALL/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing ERR-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR904ALL
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR835OKW
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB643KGS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: ERR

value: whole organism

value: whole organisms

tag: note

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

value: ENCBS484YWR at ENCODE; https://www.encodeproject.org/ENCBS484YWR/


title: TF ChIP-seq from whole organism (ENCLB986EFS)

description:
https://www.encodeproject.org/experiments/ENCSR407MOM/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing gcm2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR407MOM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR684NLC
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB986EFS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to gcm2

value: embryonic

value: 0-24 hour

value: ENCBS080VZY at ENCODE; https://www.encodeproject.org/ENCBS080VZY/


title: brain; Sleep; No_CFC; DG_inf; rep1 [protein expression level]

tag: region


title: Control ChIP-seq from whole organism (ENCLB659WGJ)

description:
https://www.encodeproject.org/experiments/ENCSR917EGR/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in late embryonic worms.
experiment encode accession: ENCSR917EGR
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB659WGJ
size range: 150-350

value: pooled male and female

value: unknown

value: ENCBS727IZA at ENCODE; https://www.encodeproject.org/ENCBS727IZA/


title: brain; Sleep; No_CFC; DG_sup; rep1 [protein expression level]

tag: slide


title: TF ChIP-seq from whole organism (ENCLB804AEI)

description:
https://www.encodeproject.org/experiments/ENCSR904ALL/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing ERR-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR904ALL
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR835OKW
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB804AEI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

tag: antibody

value: Kevin White, UChicago

value: Kevin White

value: ENCBS123PLI at ENCODE; https://www.encodeproject.org/ENCBS123PLI/


title: brain; Sleep; No_CFC; CA3; rep1 [protein expression level]

value: brain


title: Control ChIP-seq from whole organism (ENCLB196KCI)

description:
https://www.encodeproject.org/experiments/ENCSR903IOU/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG3065-eGFP fusion proteins.
experiment encode accession: ENCSR903IOU
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB196KCI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG3065-GFP mixed sex embryo (0-16 hours) insertion targeting D. melanogaster CG3065

tag: biosample encode accession

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG3065

value: 0-16 hour

value: ENCBS829LSX at ENCODE; https://www.encodeproject.org/ENCBS829LSX/


title: brain; Sleep; No_CFC; CA1; rep1 [protein expression level]


title: Control ChIP-seq from whole organism (ENCLB777ITB)

description:
https://www.encodeproject.org/experiments/ENCSR404KWM/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing mam-eGFP fusion proteins.
experiment encode accession: ENCSR404KWM
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB777ITB
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organism

value: whole organisms

tag: collection date

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

value: Hugo Bellen

value: ENCBS558XET at ENCODE; https://www.encodeproject.org/ENCBS558XET/


title: brain; Sleep; No_CFC; DG_inf; rep2 [protein expression level]

source_name: brain


title: brain; SD; CFC; DG_inf; rep2 [protein expression level]

value: SD;CFC


title: Control ChIP-seq from whole organism (ENCLB769HWJ)

description:
https://www.encodeproject.org/experiments/ENCSR916UPC/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR916UPC
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB769HWJ
size range: 150-350

source_name: Caenorhabditis elegans strain OP305 (unc-119(ed3) III; wgIs305) mixed sex L4 larva insertion targeting C. elegans nhr-11

value: not applicable

tag: geographic location

value: L4 larva

value: Michael Snyder, Stanford

value: CGC

value: ENCBS765HVQ at ENCODE; https://www.encodeproject.org/ENCBS765HVQ/


title: Control ChIP-seq from whole organism (ENCLB001LTG)

description:
https://www.encodeproject.org/experiments/ENCSR899CDG/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Eip93F-eGFP fusion proteins.
experiment encode accession: ENCSR899CDG
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB001LTG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Eip93F-MiMIC-GFP mixed sex prepupa insertion targeting D. melanogaster Eip93F

tag: encode accession

value: D. mel line contraining an intronic eGFP exon to create a Eip93F-GFP fusion gene

value: pooled male and female

value: prepupa

value: unknown

value: Kevin White, UChicago

value: ENCBS702QGX at ENCODE; https://www.encodeproject.org/ENCBS702QGX/


title: brain; SD; CFC; CA3; rep2 [protein expression level]

value: brain


title: brain; SD; CFC; DG_sup; rep2 [protein expression level]


title: brain; SD; CFC; CA1; rep2 [protein expression level]


title: TF ChIP-seq from whole organism (ENCLB806XCU)

description:
https://www.encodeproject.org/experiments/ENCSR415EON/
***************
biological replicate number: 5
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-76 in L3 larva worms.
experiment encode accession: ENCSR415EON
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR649KYB
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB806XCU
fragmentation methods: sonication (generic microtip)

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

value: whole organism

value: whole organisms

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

tag: Sex

value: L3 larva

value: Michael Snyder

value: ENCBS843ODB at ENCODE; https://www.encodeproject.org/ENCBS843ODB/


title: TF ChIP-seq from whole organism (ENCLB550IZS)

description:
https://www.encodeproject.org/experiments/ENCSR713FWS/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG4282-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR713FWS
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR283AVD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB550IZS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG4282-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG4282

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG4282

tag: dev stage

value: embryonic

value: 0-24 hour

value: Kevin White

value: ENCBS716THT at ENCODE; https://www.encodeproject.org/ENCBS716THT/


title: brain; SD; CFC; hilus; rep1 [protein expression level]

value: SD;CFC

value: hilus


title: TF ChIP-seq from whole organism (ENCLB881RLO)

description:
https://www.encodeproject.org/experiments/ENCSR415EON/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-76 in L3 larva worms.
experiment encode accession: ENCSR415EON
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR649KYB
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB881RLO
fragmentation methods: sonication (generic microtip)

value: pooled male and female

tag: age

value: unknown

value: Michael Snyder, Stanford

value: ENCBS931IHZ at ENCODE; https://www.encodeproject.org/ENCBS931IHZ/


title: brain; SD; CFC; DG_inf; rep1 [protein expression level]

value: brain


title: TF ChIP-seq from whole organism (ENCLB031CXZ)

description:
https://www.encodeproject.org/experiments/ENCSR713FWS/
***************
biological replicate number: 4
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG4282-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR713FWS
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR283AVD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB031CXZ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: whole organisms

tag: lab

value: Kevin White, UChicago

value: ENCBS527PGX at ENCODE; https://www.encodeproject.org/ENCBS527PGX/


title: brain; SD; CFC; DG_sup; rep1 [protein expression level]


title: Control ChIP-seq from whole organism (ENCLB718MJP)

description:
https://www.encodeproject.org/experiments/ENCSR898AGW/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Crg-1-eGFP fusion proteins.
experiment encode accession: ENCSR898AGW
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB718MJP
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Crg-1-GFP mixed sex adult insertion targeting D. melanogaster Crg-1

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Crg-1

value: adult

tag: source

value: ENCBS274PCA at ENCODE; https://www.encodeproject.org/ENCBS274PCA/


title: brain; Sleep; CFC; hilus; rep2 [protein expression level]

value: Sleep;CFC


title: brain; SD; CFC; CA3; rep1 [protein expression level]


title: Control ChIP-seq from whole organism (ENCLB012PBW)

description:
https://www.encodeproject.org/experiments/ENCSR916UPC/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR916UPC
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB012PBW
size range: 150-350

value: L4 larva

value: CGC

tag: link

value: ENCBS901RES at ENCODE; https://www.encodeproject.org/ENCBS901RES/


title: brain; SD; CFC; CA1; rep1 [protein expression level]

tag: tissue

value: SD;CFC


title: TF ChIP-seq from whole organism (ENCLB726RDD)

description:
https://www.encodeproject.org/experiments/ENCSR415EON/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-76 in L3 larva worms.
experiment encode accession: ENCSR415EON
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR649KYB
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB726RDD
size range: 150-350

value: pooled male and female

value: L3 larva

value: unknown

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


title: TF ChIP-seq from whole organism (ENCLB314PEK)

description:
https://www.encodeproject.org/experiments/ENCSR415EON/
***************
biological replicate number: 4
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-76 in L3 larva worms.
experiment encode accession: ENCSR415EON
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR649KYB
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB314PEK
fragmentation methods: sonication (generic microtip)

value: whole organism

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS626RMT at ENCODE; https://www.encodeproject.org/ENCBS626RMT/


title: brain; Sleep; CFC; DG_inf; rep2 [protein expression level]

value: brain

tag: treatment


title: Control ChIP-seq from whole organism (ENCLB478JQD)

description:
https://www.encodeproject.org/experiments/ENCSR415CLB/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR415CLB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB478JQD
size range: 150-350

source_name: Caenorhabditis elegans strain OP37 (unc-119(ed3) III; wgIs37) mixed sex L3 larva insertion targeting C. elegans pha-4

value: whole organisms

value: not applicable

value: ENCBS900MYD at ENCODE; https://www.encodeproject.org/ENCBS900MYD/


title: brain; Sleep; CFC; CA3; rep2 [protein expression level]

value: Sleep;CFC

tag: roi


title: brain; SD; CFC; hilus; rep2 [protein expression level]

value: hilus


title: TF ChIP-seq from whole organism (ENCLB943PHE)

description:
https://www.encodeproject.org/experiments/ENCSR596YNC/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Crg-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR596YNC
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR898AGW
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB943PHE
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

tag: note

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Crg-1

value: adult

value: Kevin White, UChicago

value: Kevin White

value: ENCBS706QTQ at ENCODE; https://www.encodeproject.org/ENCBS706QTQ/


title: brain; Sleep; CFC; CA1; rep2 [protein expression level]

tag: region


title: Control ChIP-seq from whole organism (ENCLB116OTT)

description:
https://www.encodeproject.org/experiments/ENCSR415CLB/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR415CLB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB116OTT
size range: 150-350

value: pooled male and female

value: L3 larva

value: unknown

value: CGC

value: ENCBS113SQC at ENCODE; https://www.encodeproject.org/ENCBS113SQC/


title: brain; Sleep; CFC; hilus; rep1 [protein expression level]

tag: slide


title: TF ChIP-seq from whole organism (ENCLB456DIL)

description:
https://www.encodeproject.org/experiments/ENCSR596YNC/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Crg-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR596YNC
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR898AGW
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB456DIL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

tag: antibody

value: whole organism

value: ENCBS328XZS at ENCODE; https://www.encodeproject.org/ENCBS328XZS/


title: brain; Sleep; CFC; DG_inf; rep1 [protein expression level]

value: brain


title: Control ChIP-seq from whole organism (ENCLB719DED)

description:
https://www.encodeproject.org/experiments/ENCSR912HOD/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR912HOD
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB719DED
size range: 150-350

source_name: Caenorhabditis elegans strain OP353 (unc-119(tm4063) III; wgIs353) mixed sex L1 larva insertion targeting C. elegans nhr-77

value: whole organisms

tag: biosample encode accession

value: not applicable

value: L1 larva

value: Michael Snyder, Stanford

value: ENCBS700LMM at ENCODE; https://www.encodeproject.org/ENCBS700LMM/


title: brain; Sleep; CFC; DG_sup; rep1 [protein expression level]

value: Sleep;CFC


title: Control ChIP-seq from whole organism (ENCLB091TBY)

description:
https://www.encodeproject.org/experiments/ENCSR912HOD/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR912HOD
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB091TBY
size range: 150-350

tag: collection date

value: ENCBS188ILF at ENCODE; https://www.encodeproject.org/ENCBS188ILF/


title: Control ChIP-seq from whole organism (ENCLB269CAB)

description:
https://www.encodeproject.org/experiments/ENCSR893TGG/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG11902-eGFP fusion proteins.
experiment encode accession: ENCSR893TGG
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB269CAB
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG11902-GFP mixed sex prepupa insertion targeting D. melanogaster CG11902

tag: geographic location

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG11902

value: prepupa

value: Kevin White, UChicago

value: Kevin White

value: ENCBS372CXL at ENCODE; https://www.encodeproject.org/ENCBS372CXL/


title: brain; Sleep; CFC; CA3; rep1 [protein expression level]


title: brain; Sleep; CFC; CA1; rep1 [protein expression level]


title: Control ChIP-seq from whole organism (ENCLB899BRS)

description:
https://www.encodeproject.org/experiments/ENCSR897QOF/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG18764-eGFP fusion proteins.
experiment encode accession: ENCSR897QOF
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB899BRS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG18764-GFP mixed sex embryo (0-16 hours) insertion targeting D. melanogaster CG18764

tag: encode accession

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG18764

value: pooled male and female

value: embryonic

value: 0-16 hour

value: ENCBS047PDZ at ENCODE; https://www.encodeproject.org/ENCBS047PDZ/


title: TF ChIP-seq from whole organism (ENCLB259FNT)

description:
https://www.encodeproject.org/experiments/ENCSR911QHC/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-efl-1 in L1 larva worms.
experiment encode accession: ENCSR911QHC
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR738KPG
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB259FNT
size range: 150-350

source_name: Caenorhabditis elegans strain YL424 (unc-119(ed3)III; vrIs68[pEFL-1::EFL-1::GFP FLAG: EFL-1 3'UTR, unc-119 (+)]) mixed sex L1 larva insertion targeting C. elegans efl-1

value: whole organism

value: whole organisms

tag: Sex

value: unknown

value: CGC

value: ENCBS264VNW at ENCODE; https://www.encodeproject.org/ENCBS264VNW/


title: Control ChIP-seq from whole organism (ENCLB520LBG)

description:
https://www.encodeproject.org/experiments/ENCSR889UFR/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG3995-eGFP fusion proteins.
experiment encode accession: ENCSR889UFR
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB520LBG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG3995-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG3995

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG3995

tag: dev stage

value: 0-24 hour

value: ENCBS706KPV at ENCODE; https://www.encodeproject.org/ENCBS706KPV/


title: brain; SD; No_CFC; hilus; rep2 [protein expression level]

value: brain

value: hilus


title: TF ChIP-seq from whole organism (ENCLB821CNN)

description:
https://www.encodeproject.org/experiments/ENCSR415EON/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-76 in L3 larva worms.
experiment encode accession: ENCSR415EON
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR649KYB
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB821CNN
size range: 150-350

value: L3 larva

tag: age

value: Michael Snyder, Stanford

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


title: brain; SD; No_CFC; DG_inf; rep2 [protein expression level]


title: TF ChIP-seq from whole organism (ENCLB781ADQ)

description:
https://www.encodeproject.org/experiments/ENCSR399DAW/
***************
biological replicate number: 4
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing net-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR399DAW
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR996PHG
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB781ADQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: net

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

value: pooled male and female

value: prepupa

tag: lab

value: Kevin White, UChicago

value: Kevin White

value: ENCBS882TIM at ENCODE; https://www.encodeproject.org/ENCBS882TIM/


title: brain; SD; No_CFC; CA1; rep1 [protein expression level]


title: brain; SD; No_CFC; DG_sup; rep1 [protein expression level]


title: brain; SD; No_CFC; CA3; rep1 [protein expression level]


title: TF ChIP-seq from whole organism (ENCLB779MQI)

description:
https://www.encodeproject.org/experiments/ENCSR399DAW/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing net-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR399DAW
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR996PHG
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB779MQI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: whole organisms

value: unknown

tag: source

value: ENCBS007JAI at ENCODE; https://www.encodeproject.org/ENCBS007JAI/


title: brain; Sleep; CFC; DG_sup; rep2 [protein expression level]

value: Sleep;CFC


title: brain; Sleep; No_CFC; CA3; rep5

molecule: other

extract_protocol:
Samples were incubated with the following target panels for the Nanostring GeoMx DSP: (v1.0) Mouse NGS Whole Transcriptome Atlas RNA (Lot# MWTA12001). For extraction, regions of interest within the tissue were illuminated with UV light and oligo barcodes were physically aspirated from the tissue and collected into microtiter plates by the GeoMx® Digital Spatial Profiler (DSP) platform. For more information about DSP protocols please see Merritt et al. Nature Biotech 2020 (doi: 10.1038/s41598-020-63539-x).
Manufactor's protocol for Nanostring GeoMx DSP with NGS readout; Each collection of oligo tags from one well (representing an ROI from the tissue section) was indexed with i7xi5 unique dual indexes using GeoMx SeqCode primers with 18 cycles of PCR. After PCR, indexed ROIs were pooled and purified prior to sequencing.

value: brain

tag: molecule type

value: targeted RNA


title: TF ChIP-seq from whole organism (ENCLB645TKX)

description:
https://www.encodeproject.org/experiments/ENCSR725SQB/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-ceh-82 in L1 larva worms.
experiment encode accession: ENCSR725SQB
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR032JLQ
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB645TKX
size range: 150-350

source_name: Caenorhabditis elegans strain OP212 (unc-119(ed3) III; ddEx58) mixed sex L1 larva insertion targeting C. elegans ceh-82

value: not applicable

value: L1 larva

value: CGC

tag: link

value: ENCBS682CAM at ENCODE; https://www.encodeproject.org/ENCBS682CAM/


title: brain; SD; No_CFC; DG_inf; rep1 [protein expression level]

tag: tissue

tag: treatment


title: TF ChIP-seq from whole organism (ENCLB493FVO)

description:
https://www.encodeproject.org/experiments/ENCSR911QHC/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-efl-1 in L1 larva worms.
experiment encode accession: ENCSR911QHC
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR738KPG
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB493FVO
size range: 150-350

value: Michael Snyder, Stanford

value: ENCBS411FLF at ENCODE; https://www.encodeproject.org/ENCBS411FLF/


title: Control ChIP-seq from whole organism (ENCLB656NFS)

description:
https://www.encodeproject.org/experiments/ENCSR725FSB/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR725FSB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-21
lab: Michael Snyder, Stanford
library encode accession: ENCLB656NFS
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP75 (unc-119(ed3) III; wgIs75) mixed sex L3 larva insertion targeting C. elegans elt-3

tag: note

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to ELT-3

value: pooled male and female

value: L3 larva

value: Michael Snyder

value: ENCBS784PIW at ENCODE; https://www.encodeproject.org/ENCBS784PIW/


title: TF ChIP-seq from whole organism (ENCLB672JQV)

description:
https://www.encodeproject.org/experiments/ENCSR725SQB/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-ceh-82 in L1 larva worms.
experiment encode accession: ENCSR725SQB
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR032JLQ
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB672JQV
size range: 150-350

value: whole organism

value: whole organisms

value: ENCBS658OLX at ENCODE; https://www.encodeproject.org/ENCBS658OLX/


title: brain; Sleep; No_CFC; CA1; rep5

tag: region

tag: roi


title: brain; SD; No_CFC; hilus; rep1 [protein expression level]

value: hilus

tag: slide


title: brain; Sleep; No_CFC; DG_inf; rep8

value: brain


title: brain; Sleep; No_CFC; Hilus; rep8

value: Hilus

value: targeted RNA


title: TF ChIP-seq from whole organism (ENCLB073WME)

description:
https://www.encodeproject.org/experiments/ENCSR584XDP/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG7368-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR584XDP
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR178NGG
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB073WME
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG7368-GFP mixed sex prepupa insertion targeting D. melanogaster CG7368

tag: antibody

tag: biosample encode accession

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG7368

value: prepupa

value: unknown

value: Kevin White, UChicago

value: Kevin White

value: ENCBS745LHL at ENCODE; https://www.encodeproject.org/ENCBS745LHL/


title: brain; Sleep; No_CFC; DG_sup; rep8


title: Control ChIP-seq from whole organism (ENCLB661EYR)

description:
https://www.encodeproject.org/experiments/ENCSR725FSB/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR725FSB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-21
lab: Michael Snyder, Stanford
library encode accession: ENCLB661EYR
fragmentation methods: sonication (generic microtip)

tag: collection date

tag: geographic location

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to ELT-3

value: pooled male and female

value: L3 larva

value: Michael Snyder, Stanford

value: ENCBS456BMS at ENCODE; https://www.encodeproject.org/ENCBS456BMS/


title: brain; Sleep; No_CFC; DG_inf; rep7


title: TF ChIP-seq from whole organism (ENCLB911AFM)

description:
https://www.encodeproject.org/experiments/ENCSR584XDP/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG7368-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR584XDP
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR178NGG
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB911AFM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: whole organisms

tag: encode accession

tag: Sex

value: ENCBS991QFL at ENCODE; https://www.encodeproject.org/ENCBS991QFL/


title: brain; Sleep; No_CFC; Hilus; rep7

value: brain

value: Hilus


title: brain; SD; No_CFC; CA3; rep3

value: targeted RNA


title: Control ChIP-seq from whole organism (ENCLB601PNR)

description:
https://www.encodeproject.org/experiments/ENCSR725FSB/
***************
biological replicate number: 4
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR725FSB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-21
lab: Michael Snyder, Stanford
library encode accession: ENCLB601PNR
fragmentation methods: sonication (generic microtip)

value: not applicable

tag: dev stage

tag: age

value: Michael Snyder

value: ENCBS254XUU at ENCODE; https://www.encodeproject.org/ENCBS254XUU/


title: brain; Sleep; No_CFC; DG_sup; rep7


title: Control ChIP-seq from whole organism (ENCLB440RCK)

description:
https://www.encodeproject.org/experiments/ENCSR724QCI/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR724QCI
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB440RCK
size range: 150-350

source_name: Caenorhabditis elegans strain OP355 (unc-119(tm4063) III; wgIs355) mixed sex L1 larva insertion targeting C. elegans mdl-1

value: L1 larva

value: unknown

tag: lab

tag: source

value: CGC

value: ENCBS915BYB at ENCODE; https://www.encodeproject.org/ENCBS915BYB/


title: TF ChIP-seq from whole organism (ENCLB800ANN)

description:
https://www.encodeproject.org/experiments/ENCSR875FVD/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Mad-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR875FVD
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR676EOD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB800ANN
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: Mad

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

value: pooled male and female

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

tag: link

value: ENCBS982GLS at ENCODE; https://www.encodeproject.org/ENCBS982GLS/


title: TF ChIP-seq from whole organism (ENCLB594YFI)

description:
https://www.encodeproject.org/experiments/ENCSR399DAW/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing net-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR399DAW
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR996PHG
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB594YFI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: net

value: whole organism

value: whole organisms

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

value: prepupa

value: ENCBS169UTG at ENCODE; https://www.encodeproject.org/ENCBS169UTG/


title: brain; SD; No_CFC; DG_inf; rep6

source_name: brain

tag: tissue

value: brain

tag: molecule type

value: targeted RNA


title: TF ChIP-seq from whole organism (ENCLB043AKJ)

description:
https://www.encodeproject.org/experiments/ENCSR584XDP/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG7368-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR584XDP
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR178NGG
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB043AKJ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not applicable

tag: note

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG7368

value: unknown

value: ENCBS981VRB at ENCODE; https://www.encodeproject.org/ENCBS981VRB/


title: brain; SD; No_CFC; DG_inf; rep5

tag: treatment

tag: region


title: brain; SD; No_CFC; Hilus; rep6

value: Hilus

tag: slide

tag: roi


title: Control ChIP-seq from whole organism (ENCLB022FGP)

description:
https://www.encodeproject.org/experiments/ENCSR724QCI/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR724QCI
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB022FGP
size range: 150-350

tag: biosample encode accession

value: pooled male and female

value: L1 larva

value: Michael Snyder, Stanford

value: CGC

value: ENCBS291XMH at ENCODE; https://www.encodeproject.org/ENCBS291XMH/


title: brain; SD; No_CFC; DG_sup; rep6


title: TF ChIP-seq from whole organism (ENCLB988WHR)

description:
https://www.encodeproject.org/experiments/ENCSR698UZG/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Esplmgamma-HLH-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR698UZG
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR318AGT
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB988WHR
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

tag: antibody

value: E(spl)mγ-HLH

value: whole organism

tag: collection date

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

value: embryonic

value: 0-16 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS825MIK at ENCODE; https://www.encodeproject.org/ENCBS825MIK/


title: TF ChIP-seq from whole organism (ENCLB364ZUN)

description:
https://www.encodeproject.org/experiments/ENCSR875FVD/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Mad-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR875FVD
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR676EOD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB364ZUN
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Mad

value: whole organisms

value: not applicable

tag: geographic location

tag: encode accession

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

value: 0-24 hour

value: ENCBS514SZN at ENCODE; https://www.encodeproject.org/ENCBS514SZN/


title: Control ChIP-seq from whole organism (ENCLB660ZVB)

description:
https://www.encodeproject.org/experiments/ENCSR702YWZ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG33213-eGFP fusion proteins.
experiment encode accession: ENCSR702YWZ
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB660ZVB
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG33213-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG33213

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG33213

tag: Sex

value: pooled male and female

tag: dev stage

value: ENCBS381YZN at ENCODE; https://www.encodeproject.org/ENCBS381YZN/


title: TF ChIP-seq from whole organism (ENCLB435IKY)

description:
https://www.encodeproject.org/experiments/ENCSR698UZG/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Esplmgamma-HLH-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR698UZG
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR318AGT
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB435IKY
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: E(spl)mγ-HLH

tag: age

tag: lab

value: ENCBS378APG at ENCODE; https://www.encodeproject.org/ENCBS378APG/


title: Control ChIP-seq from whole organism (ENCLB809CDU)

description:
https://www.encodeproject.org/experiments/ENCSR725FSB/
***************
biological replicate number: 5
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR725FSB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-21
lab: Michael Snyder, Stanford
library encode accession: ENCLB809CDU
fragmentation methods: sonication (generic microtip)

value: whole organism

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to ELT-3

value: L3 larva

value: unknown

value: Michael Snyder, Stanford

tag: source

value: Michael Snyder

tag: link

value: ENCBS969RMO at ENCODE; https://www.encodeproject.org/ENCBS969RMO/


title: brain; SD; No_CFC; DG_sup; rep5

tag: tissue

value: brain

tag: molecule type

value: targeted RNA


title: brain; SD; No_CFC; Hilus; rep5

tag: treatment

value: Hilus


title: Control ChIP-seq from whole organism (ENCLB062WML)

description:
https://www.encodeproject.org/experiments/ENCSR606NPE/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR606NPE
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB062WML
size range: 150-350

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

value: whole organisms

value: not applicable

value: CGC

value: ENCBS049EST at ENCODE; https://www.encodeproject.org/ENCBS049EST/


title: brain; Sleep; CFC; CA1; rep5

value: Sleep;CFC

tag: region


title: TF ChIP-seq from whole organism (ENCLB290MBN)

description:
https://www.encodeproject.org/experiments/ENCSR698UZG/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Esplmgamma-HLH-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR698UZG
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR318AGT
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB290MBN
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: E(spl)mγ-HLH

tag: note

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

value: pooled male and female

value: embryonic

value: 0-16 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS096ZBK at ENCODE; https://www.encodeproject.org/ENCBS096ZBK/


title: Control ChIP-seq from whole organism (ENCLB282GCF)

description:
https://www.encodeproject.org/experiments/ENCSR606HQA/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR606HQA
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB282GCF
size range: 150-350

source_name: Caenorhabditis elegans strain OP222 (unc-119(ed3) III; wgIs222) mixed sex L4 larva insertion targeting C. elegans daf-12

value: whole organism

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: ENCBS742QXZ at ENCODE; https://www.encodeproject.org/ENCBS742QXZ/


title: brain; Sleep; CFC; DG_inf; rep8

value: brain

tag: slide

tag: roi

value: targeted RNA


title: TF ChIP-seq from whole organism (ENCLB672MGI)

description:
https://www.encodeproject.org/experiments/ENCSR698IEF/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Xbp1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR698IEF
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR609JSK
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB672MGI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Xbp1-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster Xbp1

tag: antibody

value: whole organisms

tag: biosample encode accession

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Xbp1

value: 0-24 hour

value: ENCBS723FUL at ENCODE; https://www.encodeproject.org/ENCBS723FUL/


title: brain; Sleep; CFC; Hilus; rep8

value: Sleep;CFC

value: Hilus


title: Control ChIP-seq from whole organism (ENCLB749ZPZ)

description:
https://www.encodeproject.org/experiments/ENCSR606HQA/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR606HQA
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB749ZPZ
size range: 150-350

tag: collection date

tag: geographic location

value: pooled male and female

value: CGC

value: ENCBS491RFM at ENCODE; https://www.encodeproject.org/ENCBS491RFM/


title: brain; Sleep; CFC; DG_sup; rep8


title: TF ChIP-seq from whole organism (ENCLB055WUM)

description:
https://www.encodeproject.org/experiments/ENCSR698IEF/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Xbp1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR698IEF
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR609JSK
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB055WUM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

tag: encode accession

tag: Sex

value: embryonic

value: Kevin White, UChicago

value: Kevin White

value: ENCBS789ZPR at ENCODE; https://www.encodeproject.org/ENCBS789ZPR/


title: TF ChIP-seq from whole organism (ENCLB526CLQ)

description:
https://www.encodeproject.org/experiments/ENCSR605FMW/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-ces-1 in mixed stage (embryonic) worms.
experiment encode accession: ENCSR605FMW
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR483GHB
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB526CLQ
size range: 150-350

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

tag: dev stage

value: mixed stage (embryonic)

tag: age

value: unknown

value: Michael Snyder, Stanford

value: ENCBS902NMB at ENCODE; https://www.encodeproject.org/ENCBS902NMB/


title: brain; SD; No_CFC; CA1; rep5

value: brain

value: targeted RNA


title: brain; Sleep; CFC; Hilus; rep7


title: brain; Sleep; CFC; DG_inf; rep7


title: TF ChIP-seq from whole organism (ENCLB957GSM)

description:
https://www.encodeproject.org/experiments/ENCSR698IEF/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Xbp1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR698IEF
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR609JSK
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB957GSM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Xbp1

value: 0-24 hour

tag: lab

tag: source

value: ENCBS612QUF at ENCODE; https://www.encodeproject.org/ENCBS612QUF/


title: brain; Sleep; CFC; CA3; rep5

tag: tissue

value: Sleep;CFC


title: brain; Sleep; CFC; DG_sup; rep7

tag: molecule type


title: brain; SD; CFC; CA3; rep5

tag: treatment

value: SD;CFC


title: brain; SD; CFC; DG_inf; rep8

tag: region


title: TF ChIP-seq from whole organism (ENCLB901GRF)

description:
https://www.encodeproject.org/experiments/ENCSR720ZUU/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against ELT-3 in L2 larva worms.
experiment encode accession: ENCSR720ZUU
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR799ODD
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB901GRF
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP75 (unc-119(ed3) III; wgIs75) mixed sex L2 larva insertion targeting C. elegans elt-3

value: whole organism

tag: note

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to ELT-3

value: pooled male and female

value: L2 larva

value: Michael Snyder

tag: link

value: ENCBS531GPG at ENCODE; https://www.encodeproject.org/ENCBS531GPG/


title: TF ChIP-seq from whole organism (ENCLB529SWB)

description:
https://www.encodeproject.org/experiments/ENCSR605FMW/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-ces-1 in mixed stage (embryonic) worms.
experiment encode accession: ENCSR605FMW
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR483GHB
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB529SWB
size range: 150-350

value: mixed stage (embryonic)

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS128QQG at ENCODE; https://www.encodeproject.org/ENCBS128QQG/


title: brain; SD; CFC; CA1; rep5

value: brain

tag: slide

tag: roi

value: targeted RNA


title: Control ChIP-seq from whole organism (ENCLB780KEV)

description:
https://www.encodeproject.org/experiments/ENCSR606NPE/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L3 larva worms.
experiment encode accession: ENCSR606NPE
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB780KEV
size range: 150-350

value: whole organisms

tag: biosample encode accession

value: not applicable

value: L3 larva

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


title: brain; SD; CFC; DG_inf; rep7

value: SD;CFC


title: brain; SD; CFC; DG_sup; rep8


title: TF ChIP-seq from whole organism (ENCLB311ZMW)

description:
https://www.encodeproject.org/experiments/ENCSR869ZGG/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing TFAM-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR869ZGG
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR129EXW
encode release date: 2017-01-11
lab: Kevin White, UChicago
library encode accession: ENCLB311ZMW
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

tag: antibody

value: TFAM

value: whole organism

tag: collection date

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

value: embryonic

value: 0-16 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS541WJN at ENCODE; https://www.encodeproject.org/ENCBS541WJN/


title: TF ChIP-seq from whole organism (ENCLB140UJT)

description:
https://www.encodeproject.org/experiments/ENCSR867MPT/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing toe-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR867MPT
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR911MXZ
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB140UJT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: toe

tag: geographic location

tag: encode accession

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

value: male

value: adult

value: unknown

value: ENCBS694VRY at ENCODE; https://www.encodeproject.org/ENCBS694VRY/


title: brain; SD; CFC; Hilus; rep7

value: brain

value: Hilus

value: targeted RNA


title: brain; SD; CFC; Hilus; rep8

value: SD;CFC


title: TF ChIP-seq from whole organism (ENCLB893HFK)

description:
https://www.encodeproject.org/experiments/ENCSR720ZUU/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against ELT-3 in L2 larva worms.
experiment encode accession: ENCSR720ZUU
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR799ODD
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB893HFK
fragmentation methods: sonication (generic microtip)

value: whole organism

value: whole organisms

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to ELT-3

tag: Sex

value: pooled male and female

tag: dev stage

value: L2 larva

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS564AGF at ENCODE; https://www.encodeproject.org/ENCBS564AGF/


title: TF ChIP-seq from whole organism (ENCLB382ITD)

description:
https://www.encodeproject.org/experiments/ENCSR867MPT/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing toe-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR867MPT
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR911MXZ
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB382ITD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: toe

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

value: male

tag: age

tag: lab

value: Kevin White, UChicago

value: Kevin White

value: ENCBS944MIP at ENCODE; https://www.encodeproject.org/ENCBS944MIP/


title: brain; SD; CFC; DG_sup; rep7

tag: tissue

value: brain

value: targeted RNA


title: Control ChIP-seq from whole organism (ENCLB487IUZ)

description:
https://www.encodeproject.org/experiments/ENCSR572WAD/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing cato-eGFP fusion proteins.
experiment encode accession: ENCSR572WAD
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB487IUZ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organism

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

value: embryonic

value: 0-16 hour

tag: source

value: ENCBS095BHY at ENCODE; https://www.encodeproject.org/ENCBS095BHY/


title: TF ChIP-seq from whole organism (ENCLB190ZUC)

description:
https://www.encodeproject.org/experiments/ENCSR604JOF/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against SNPC-4 in YA worms.
experiment encode accession: ENCSR604JOF
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR653UXP
encode release date: 2018-01-19
lab: Michael Snyder, Stanford
library encode accession: ENCLB190ZUC
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain YL457 (unc-119(ed3)III;vrIs87[pPIE-1::GEI-11::GFP::GEI-11 3'UTR,unc-119(+)) mixed sex young adult insertion targeting C. elegans snpc-4

value: whole organisms

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to SNPC-4

value: pooled male and female

value: young adult

value: unknown

value: ENCBS938IRP at ENCODE; https://www.encodeproject.org/ENCBS938IRP/


title: brain; Sleep; No_CFC; CA3; rep4

tag: treatment

tag: molecule type


title: TF ChIP-seq from whole organism (ENCLB294XWW)

description:
https://www.encodeproject.org/experiments/ENCSR604JOF/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against SNPC-4 in YA worms.
experiment encode accession: ENCSR604JOF
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR653UXP
encode release date: 2018-01-19
lab: Michael Snyder, Stanford
library encode accession: ENCLB294XWW
fragmentation methods: sonication (generic microtip)

tag: note

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS717ARI at ENCODE; https://www.encodeproject.org/ENCBS717ARI/


title: Control ChIP-seq from whole organism (ENCLB958JWH)

description:
https://www.encodeproject.org/experiments/ENCSR604IAP/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR604IAP
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB958JWH
size range: 150-350

source_name: Caenorhabditis elegans strain OP75 (unc-119(ed3) III; wgIs75) mixed sex mixed stage (embryo) insertion targeting C. elegans elt-3

value: mixed stage (embryonic)

value: CGC

tag: link

value: ENCBS318XMD at ENCODE; https://www.encodeproject.org/ENCBS318XMD/


title: TF ChIP-seq from whole organism (ENCLB447OHO)

description:
https://www.encodeproject.org/experiments/ENCSR572ERS/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG31627-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR572ERS
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR197FZB
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB447OHO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG31627-GFP mixed sex prepupa at white prepupa stage insertion targeting D. melanogaster CG31627

value: whole organism

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG31627

value: prepupa

value: Kevin White, UChicago

value: Kevin White

tag: fly synchronization stage

value: white prepupa

value: ENCBS226PVE at ENCODE; https://www.encodeproject.org/ENCBS226PVE/


title: brain; Sleep; No_CFC; CA3; rep3

value: brain

tag: region

tag: slide

tag: roi

value: targeted RNA


title: brain; Sleep; No_CFC; CA1; rep4


title: TF ChIP-seq from whole organism (ENCLB219OJQ)

description:
https://www.encodeproject.org/experiments/ENCSR572ERS/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG31627-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR572ERS
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR197FZB
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB219OJQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

tag: antibody

value: whole organisms

tag: biosample encode accession

tag: collection date

value: not applicable

value: pooled male and female

value: unknown

value: ENCBS257INR at ENCODE; https://www.encodeproject.org/ENCBS257INR/


title: brain; Sleep; No_CFC; CA1; rep3


title: Control ChIP-seq from whole organism (ENCLB502GHE)

description:
https://www.encodeproject.org/experiments/ENCSR911MDB/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR911MDB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB502GHE
size range: 150-350

source_name: Caenorhabditis elegans strain OP342 (unc-119(ed3) III; wgIs342) mixed sex L4 larva insertion targeting C. elegans skn-1

tag: geographic location

tag: encode accession

tag: Sex

value: L4 larva

value: Michael Snyder, Stanford

value: ENCBS833FZH at ENCODE; https://www.encodeproject.org/ENCBS833FZH/


title: brain; Sleep; No_CFC; DG_inf; rep6


title: Control ChIP-seq from whole organism (ENCLB910UXJ)

description:
https://www.encodeproject.org/experiments/ENCSR604IAP/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR604IAP
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB910UXJ
size range: 150-350

value: whole organism

tag: dev stage

value: mixed stage (embryonic)

tag: age

tag: lab

value: CGC

value: ENCBS975FUG at ENCODE; https://www.encodeproject.org/ENCBS975FUG/


title: Control ChIP-seq from whole organism (ENCLB332IFP)

description:
https://www.encodeproject.org/experiments/ENCSR911MDB/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR911MDB
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB332IFP
size range: 150-350

tag: source

value: ENCBS906WAX at ENCODE; https://www.encodeproject.org/ENCBS906WAX/


title: brain; Sleep; No_CFC; Hilus; rep6

tag: tissue

tag: treatment

value: Hilus

tag: molecule type


title: brain; SD; No_CFC; CA1; rep4


title: brain; Sleep; No_CFC; DG_sup; rep5


title: brain; Sleep; No_CFC; DG_sup; rep6


title: TF ChIP-seq from whole organism (ENCLB482WXG)

description:
https://www.encodeproject.org/experiments/ENCSR572ERS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG31627-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR572ERS
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR197FZB
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB482WXG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

tag: note

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG31627

value: prepupa

value: Kevin White, UChicago

value: Kevin White

tag: fly synchronization stage

value: white prepupa

tag: link

value: ENCBS925QZO at ENCODE; https://www.encodeproject.org/ENCBS925QZO/


title: brain; Sleep; No_CFC; DG_inf; rep5

value: brain

tag: region

tag: slide

tag: roi

value: targeted RNA


title: brain; SD; No_CFC; CA1; rep3


title: TF ChIP-seq from whole organism (ENCLB125BNR)

description:
https://www.encodeproject.org/experiments/ENCSR386BKJ/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG1602-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR386BKJ
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR772QGN
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB125BNR
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG1602-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG1602

tag: antibody

value: whole organisms

tag: biosample encode accession

tag: collection date

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG1602

value: pooled male and female

value: embryonic

value: 0-24 hour

value: ENCBS812JIX at ENCODE; https://www.encodeproject.org/ENCBS812JIX/


title: TF ChIP-seq from whole organism (ENCLB035SPF)

description:
https://www.encodeproject.org/experiments/ENCSR386BKJ/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG1602-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR386BKJ
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR772QGN
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB035SPF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

tag: geographic location

tag: encode accession

tag: Sex

value: ENCBS126GIH at ENCODE; https://www.encodeproject.org/ENCBS126GIH/


title: brain; Sleep; No_CFC; Hilus; rep5

value: Hilus


title: brain; Sleep; CFC; CA3; rep4

value: Sleep;CFC


title: TF ChIP-seq from whole organism (ENCLB977QOB)

description:
https://www.encodeproject.org/experiments/ENCSR599VYW/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-6 in L2 larva worms.
experiment encode accession: ENCSR599VYW
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR124RLN
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB977QOB
size range: 150-350

source_name: Caenorhabditis elegans strain OP90 (unc-119(ed3) III; wgIs90) mixed sex L2 larva insertion targeting C. elegans nhr-6

tag: dev stage

value: L2 larva

tag: age

value: unknown

tag: lab

value: Michael Snyder, Stanford

value: CGC

value: ENCBS222EIS at ENCODE; https://www.encodeproject.org/ENCBS222EIS/


title: TF ChIP-seq from whole organism (ENCLB535HFC)

description:
https://www.encodeproject.org/experiments/ENCSR386BKJ/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG1602-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR386BKJ
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR772QGN
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB535HFC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Kevin White, UChicago

tag: source

value: Kevin White

value: ENCBS311XPK at ENCODE; https://www.encodeproject.org/ENCBS311XPK/


title: TF ChIP-seq from whole organism (ENCLB822PXK)

description:
https://www.encodeproject.org/experiments/ENCSR599VYW/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-6 in L2 larva worms.
experiment encode accession: ENCSR599VYW
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR124RLN
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB822PXK
size range: 150-350

value: whole organisms

value: not applicable

value: ENCBS149YKA at ENCODE; https://www.encodeproject.org/ENCBS149YKA/


title: TF ChIP-seq from whole organism (ENCLB132REP)

description:
https://www.encodeproject.org/experiments/ENCSR570ADO/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing sv-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR570ADO
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR251CBF
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB132REP
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: sv

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

value: pooled male and female

value: wandering third instar larva

value: ENCBS676TFF at ENCODE; https://www.encodeproject.org/ENCBS676TFF/


title: brain; Sleep; CFC; CA1; rep4

source_name: brain

tag: tissue

value: brain

tag: treatment

value: Sleep;CFC

tag: molecule type

value: targeted RNA


title: TF ChIP-seq from whole organism (ENCLB365HYL)

description:
https://www.encodeproject.org/experiments/ENCSR598ZXU/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against ZK546.5 in L2 worms.
experiment encode accession: ENCSR598ZXU
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR540YYL
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB365HYL
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP231 (unc-119(ed3) III; wgIs231) mixed sex L2 larva insertion targeting C. elegans ZK546.5

value: whole organism

tag: note

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to ZK546.5

value: L2 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

tag: link

value: ENCBS917BKK at ENCODE; https://www.encodeproject.org/ENCBS917BKK/


title: brain; Sleep; CFC; CA1; rep3

tag: region

tag: slide


title: brain; Sleep; CFC; DG_inf; rep6

tag: roi


title: TF ChIP-seq from whole organism (ENCLB346DDV)

description:
https://www.encodeproject.org/experiments/ENCSR570ADO/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing sv-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR570ADO
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR251CBF
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB346DDV
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

tag: antibody

value: whole organisms

tag: biosample encode accession

value: not applicable

value: Kevin White, UChicago

value: Kevin White

value: ENCBS410QHY at ENCODE; https://www.encodeproject.org/ENCBS410QHY/


title: Control ChIP-seq from whole organism (ENCLB959SCG)

description:
https://www.encodeproject.org/experiments/ENCSR596UEF/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Ets21C-eGFP fusion proteins.
experiment encode accession: ENCSR596UEF
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB959SCG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain d.ets6-GFP mixed sex prepupa at white prepupa stage insertion targeting D. melanogaster Ets21C

tag: collection date

tag: geographic location

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Ets21C

value: pooled male and female

value: prepupa

tag: fly synchronization stage

value: white prepupa

value: ENCBS326VMZ at ENCODE; https://www.encodeproject.org/ENCBS326VMZ/


title: TF ChIP-seq from whole organism (ENCLB220ODB)

description:
https://www.encodeproject.org/experiments/ENCSR598ZXU/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against ZK546.5 in L2 worms.
experiment encode accession: ENCSR598ZXU
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR540YYL
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB220ODB
fragmentation methods: sonication (generic microtip)

value: whole organism

tag: encode accession

tag: Sex

tag: dev stage

value: ENCBS007WSH at ENCODE; https://www.encodeproject.org/ENCBS007WSH/


title: brain; Sleep; CFC; Hilus; rep6

value: brain

value: Sleep;CFC

value: Hilus

value: targeted RNA


title: TF ChIP-seq from whole organism (ENCLB999LJO)

description:
https://www.encodeproject.org/experiments/ENCSR570ADO/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing sv-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR570ADO
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR251CBF
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB999LJO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: sv

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

value: wandering third instar larva

tag: age

value: unknown

tag: lab

tag: source

value: ENCBS780VSZ at ENCODE; https://www.encodeproject.org/ENCBS780VSZ/


title: brain; Sleep; CFC; DG_sup; rep6

tag: tissue

tag: treatment

tag: molecule type


title: TF ChIP-seq from whole organism (ENCLB610KPM)

description:
https://www.encodeproject.org/experiments/ENCSR412LYV/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against ALY-2 in L4 larva worms.
experiment encode accession: ENCSR412LYV
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR589NOT
encode release date: 2018-02-15
lab: Michael Snyder, Stanford
library encode accession: ENCLB610KPM
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP217 (unc-119(ed3) III; ddIs172) mixed sex L4 larva insertion targeting C. elegans aly-2

value: whole organisms

value: not applicable

tag: note

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

value: L4 larva

value: Michael Snyder, Stanford

value: Michael Snyder

tag: link

value: ENCBS812VET at ENCODE; https://www.encodeproject.org/ENCBS812VET/


title: brain; Sleep; CFC; DG_inf; rep5

tag: region

tag: slide

tag: roi


title: brain; SD; CFC; CA3; rep3

value: SD;CFC


title: brain; Sleep; CFC; Hilus; rep5

value: brain


title: brain; Sleep; CFC; CA3; rep3

value: Sleep;CFC


title: brain; SD; CFC; CA3; rep4


title: brain; SD; CFC; CA1; rep3


title: brain; SD; CFC; CA1; rep4