title: Control ChIP-seq from whole organism (ENCLB348FCA)

description:
https://www.encodeproject.org/experiments/ENCSR589NOT/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR589NOT
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2018-02-14
lab: Michael Snyder, Stanford
library encode accession: ENCLB348FCA
fragmentation methods: sonication (generic microtip)

value: whole organisms

value: not applicable

value: ENCBS667CWL at ENCODE; https://www.encodeproject.org/ENCBS667CWL/


title: NIH3T3_EZdirect_1cell_WorkflowC_22

status: Public on Feb 27 2024

type: genomic

city: Phialdelphia

first: Wanding

last: Zhou

state: Pennsylvania

address: 3501 Civic Center Blvd, Philadelphia, PA 19104, Colket Translational Research Building, 9300, Colket Translational Research Building

department: Pathology & Lab Medicine

country: USA

institute: Children's Hospital of Philadelphia

description:
Testing MM285 Array on low input DNA
207363410011_R01C01
20240207_GEO_processed_matrix_GPL30650.csv
20240207_GEO_signal_intensity_matrix_GPL30650.csv

hyb_protocol: Standard Illumina Protocol

scan_protocol: Standard Illumina Protocol

data_processing:
SeSAMe software v1.18
Normalized average Beta
Unmethylated and methylated signal intensities

label: Cy5 and Cy3

molecule: genomic DNA

organism: Mus musculus

source_name: NIH3T3 ATCC, P4

label_protocol: Standard Illumina Protocol

growth_protocol: After obtaining cells from ATCC, they were cultured according to the instructions provided in the product sheet

extract_protocol: Genomic DNA was isolated using The DNeasy Blood and Tissue Kit (Qiagen, 69504) with the manufactural protocols

tag: cell line

value: 1 cell


title: TF ChIP-seq from whole organism (ENCLB325SZC)

type: SRA

city: Stanford

first: ENCODE

last: DCC

state: CA

address: 300 Pasteur Dr

institute: ENCODE DCC

description:
https://www.encodeproject.org/experiments/ENCSR354KRW/
***************
biological replicate number: 4
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG14965-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR354KRW
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR311GKZ
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB325SZC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

library_source: genomic

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

organism: Drosophila melanogaster

source_name: Drosophila melanogaster strain CG14965-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG14965

tag: antibody

value: whole organism

tag: biosample encode accession

tag: collection date

tag: geographic location

tag: encode accession

tag: note

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG14965

tag: Sex

value: pooled male and female

tag: dev stage

value: embryonic

tag: age

value: 0-24 hour

tag: lab

value: Kevin White, UChicago

tag: source

value: Kevin White

tag: link

value: ENCBS881GSR at ENCODE; https://www.encodeproject.org/ENCBS881GSR/


title: E14.5F_1_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R05C02

source_name: E14.5, female, Primordial germ cells

tag: cell type

value: Primordial germ cells

value: Low number of PGCs


title: Bulk RNAseq MYOD1 AroLite Rep 2

city: Berlin

first: Alexandre

middle: P

last: Magalhaes

address: Ihnestrasse 63-73

country: Germany

institute: Max Planck Institute for Molecular Genetics

description: Bulk RNA-seq

library_source: transcriptomic

data_processing:
Reads were mapped to a genome using STAR aligner. Count read tables were generated by the same program
genome_build: mm39

molecule: polyA RNA

extract_protocol:
C2C12 induced cells  were harvested following the Direct-zolTM RNA MicroPrep Kit (Zymo Research) standard protocol
1 μg of RNA of each sample was used as input for library preparation using the KAPA Stranded mRNA-Seq Kit (Roche) following the manufacturer’s instructions. Unique Dual-Indexed Set-B (UDI; KAPA biosystems) adapters were ligated and the library was amplified for 8 cycles
Paired-end 100 with 50 million fragments per library


title: E13.5F_2_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R02C02

source_name: E13.5, female, Primordial germ cells


title: E14.5M_2_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R04C02

source_name: E14.5, male, Primordial germ cells


title: E14.5M_1_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R03C02

source_name: E14.5, male2, Primordial germ cells


title: E12.5F_2_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R06C01

source_name: E12.5, female, Primordial germ cells


title: Control ChIP-seq from whole organism (ENCLB674DUC)

description:
https://www.encodeproject.org/experiments/ENCSR097GQQ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing NC2alpha-eGFP fusion proteins.
experiment encode accession: ENCSR097GQQ
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB674DUC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

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

value: ENCBS928HQN at ENCODE; https://www.encodeproject.org/ENCBS928HQN/


title: TF ChIP-seq from whole organism (ENCLB773PKS)

description:
https://www.encodeproject.org/experiments/ENCSR360TFL/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG31388-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR360TFL
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR023XBU
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB773PKS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG31388-GFP mixed sex embryo (0-16 hours) insertion targeting D. melanogaster CG31388

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG31388

value: 0-16 hour

value: ENCBS239QKM at ENCODE; https://www.encodeproject.org/ENCBS239QKM/


title: Control ChIP-seq from whole organism (ENCLB762GDI)

description:
https://www.encodeproject.org/experiments/ENCSR344HOX/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing disco-eGFP fusion proteins.
experiment encode accession: ENCSR344HOX
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB762GDI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organisms

value: not applicable

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

value: ENCBS191ZNA at ENCODE; https://www.encodeproject.org/ENCBS191ZNA/


title: TF ChIP-seq from whole organism (ENCLB359JPF)

description:
https://www.encodeproject.org/experiments/ENCSR588ZPD/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against UNC-39 in L3 larva worms.
experiment encode accession: ENCSR588ZPD
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR994WLI
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB359JPF
fragmentation methods: sonication (generic microtip)

organism: Caenorhabditis elegans

source_name: Caenorhabditis elegans strain OP186 (unc-119(ed3) III; wgIs186) mixed sex L3 larva insertion targeting C. elegans unc-39

extract_protocol: not provided

value: whole organism

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to UNC-39

value: pooled male and female

value: L3 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS829QSU at ENCODE; https://www.encodeproject.org/ENCBS829QSU/


title: Control ChIP-seq from whole organism (ENCLB421UUG)

description:
https://www.encodeproject.org/experiments/ENCSR089QIZ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG12155-eGFP fusion proteins.
experiment encode accession: ENCSR089QIZ
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB421UUG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG12155-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG12155

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG12155

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS981MXV at ENCODE; https://www.encodeproject.org/ENCBS981MXV/


title: E13.5M_1_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R01C02

source_name: E13.5, male, Primordial germ cells

value: Primordial germ cells

value: Low number of PGCs


title: Bulk RNAseq C2C12 WT Rep 2

description: Bulk RNA-seq


title: E12.5F_1_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R05C01


title: E12.5M_1_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R04C01

source_name: E12.5, male, Primordial germ cells


title: Control ChIP-seq from whole organism (ENCLB084WEO)

description:
https://www.encodeproject.org/experiments/ENCSR251CBF/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing sv-eGFP fusion proteins.
experiment encode accession: ENCSR251CBF
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB084WEO
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: whole organisms

value: not applicable

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

value: wandering third instar larva

value: ENCBS398UHJ at ENCODE; https://www.encodeproject.org/ENCBS398UHJ/


title: E11.5F_1_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R03C01

source_name: E11.5, female, Primordial germ cells


title: E11.5M_2_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R02C01

source_name: E11.5, male, Primordial germ cells


title: TF ChIP-seq from whole organism (ENCLB400ASV)

description:
https://www.encodeproject.org/experiments/ENCSR588ZPD/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq against UNC-39 in L3 larva worms.
experiment encode accession: ENCSR588ZPD
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR994WLI
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB400ASV
fragmentation methods: sonication (generic microtip)

value: whole organism

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to UNC-39

value: pooled male and female

value: L3 larva

value: unknown

value: ENCBS708JIB at ENCODE; https://www.encodeproject.org/ENCBS708JIB/


title: TF ChIP-seq from whole organism (ENCLB214SKN)

description:
https://www.encodeproject.org/experiments/ENCSR588ZPD/
***************
biological replicate number: 4
technical replicate number: 1
description: ChIP-seq against UNC-39 in L3 larva worms.
experiment encode accession: ENCSR588ZPD
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR994WLI
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB214SKN
fragmentation methods: sonication (generic microtip)

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS836XMX at ENCODE; https://www.encodeproject.org/ENCBS836XMX/


title: E11.5M_1_2_EZdirect_Low_WorkflowJ_21

description:
Testing MM285 Array on low input DNA with PGCs
207090630001_R01C01


title: TF ChIP-seq from whole organism (ENCLB850BKH)

description:
https://www.encodeproject.org/experiments/ENCSR082RBU/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Antp-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR082RBU
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR543PPU
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB850BKH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: Antp

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

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Hugo Bellen

value: ENCBS574YHX at ENCODE; https://www.encodeproject.org/ENCBS574YHX/


title: E14.5F_1_1_EZdirect_Low_WorkflowJ_20

description:
Testing MM285 Array on low input DNA with PGCs
207097260043_R02C02

value: Primordial germ cells

value: Low number of PGCs


title: TF ChIP-seq from whole organism (ENCLB350PZA)

description:
https://www.encodeproject.org/experiments/ENCSR702UKO/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic worms expressing dox-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR702UKO
assay title: TF ChIP-seq
assembly: ce11
possible controls: ENCSR739VJU
encode release date: 2022-11-01
lab: Valerie Reinke, Yale
library encode accession: ENCLB350PZA
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Caenorhabditis elegans strain RW12180 (st12180[dox-1::TY1::EGFP::3xFLAG] I) young adult (66 hours) at L1 larva starved after bleaching stage whole organism genetically modified (insertion) using CRISPR targeting C. elegans dxbp-1

value: whole organism

value: whole organisms

value: not applicable

value: not collected

value: young adult

value: 66 hour

value: Valerie Reinke, Yale

value: Valerie Reinke

tag: worm synchronization stage

value: L1 larva starved after bleaching

value: ENCBS616UUC at ENCODE; https://www.encodeproject.org/ENCBS616UUC/


title: TF ChIP-seq from whole organism (ENCLB511YZK)

description:
https://www.encodeproject.org/experiments/ENCSR082RBU/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Antp-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR082RBU
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR543PPU
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB511YZK
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Antp

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

value: pooled male and female

value: embryonic

value: ENCBS603YXU at ENCODE; https://www.encodeproject.org/ENCBS603YXU/


title: E14.5M_2_1_EZdirect_Low_WorkflowJ_20

description:
Testing MM285 Array on low input DNA with PGCs
207097260043_R06C01

value: Primordial germ cells


title: E14.5M_1_1_EZdirect_Low_WorkflowJ_20

description:
Testing MM285 Array on low input DNA with PGCs
207097260043_R05C01

value: Low number of PGCs


title: E13.5F_2_1_EZdirect_Low_WorkflowJ_20

description:
Testing MM285 Array on low input DNA with PGCs
207097260043_R04C01


title: TF ChIP-seq from whole organism (ENCLB825TMH)

description:
https://www.encodeproject.org/experiments/ENCSR588ZPD/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against UNC-39 in L3 larva worms.
experiment encode accession: ENCSR588ZPD
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR994WLI
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB825TMH
fragmentation methods: sonication (generic microtip)

value: whole organism

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to UNC-39

value: L3 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS376LAP at ENCODE; https://www.encodeproject.org/ENCBS376LAP/


title: E13.5F_1_1_EZdirect_Low_WorkflowJ_20

description:
Testing MM285 Array on low input DNA with PGCs
207097260043_R03C01


title: TF ChIP-seq from whole organism (ENCLB137MDI)

description:
https://www.encodeproject.org/experiments/ENCSR395BWO/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-snpc-4 in young adult worms.
experiment encode accession: ENCSR395BWO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR844JGM
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB137MDI
size range: 150-350

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

value: whole organisms

value: not applicable

value: young adult

value: CGC

value: ENCBS267HHO at ENCODE; https://www.encodeproject.org/ENCBS267HHO/


title: Control ChIP-seq from whole organism (ENCLB433TNX)

description:
https://www.encodeproject.org/experiments/ENCSR340PDD/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG3163-eGFP fusion proteins.
experiment encode accession: ENCSR340PDD
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB433TNX
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG3163-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG3163

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG3163

value: pooled male and female

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS913KXB at ENCODE; https://www.encodeproject.org/ENCBS913KXB/


title: E12.5F_2_1_EZdirect_Low_WorkflowJ_19

description:
Testing MM285 Array on low input DNA with PGCs
207097260023_R06C02

value: Primordial germ cells

value: Low number of PGCs


title: TF ChIP-seq from whole organism (ENCLB145BHD)

description:
https://www.encodeproject.org/experiments/ENCSR340CQF/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG15073-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR340CQF
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR020AAP
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB145BHD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG15073-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG15073

value: whole organism

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG15073

value: embryonic

value: ENCBS212WPA at ENCODE; https://www.encodeproject.org/ENCBS212WPA/


title: Control ChIP-seq from whole organism (ENCLB667ZPK)

description:
https://www.encodeproject.org/experiments/ENCSR075LYH/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG12744-eGFP fusion proteins.
experiment encode accession: ENCSR075LYH
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB667ZPK
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG12744-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG12744

value: whole organisms

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG12744

value: ENCBS067PJH at ENCODE; https://www.encodeproject.org/ENCBS067PJH/


title: E12.5M_2_1_EZdirect_Low_WorkflowJ_19

description:
Testing MM285 Array on low input DNA with PGCs
207097260023_R04C02


title: E12.5F_1_1_EZdirect_Low_WorkflowJ_19

description:
Testing MM285 Array on low input DNA with PGCs
207097260023_R05C02

source_name: E12.5, female, Primordial germ cells


title: TF ChIP-seq from whole organism (ENCLB209GKN)

description:
https://www.encodeproject.org/experiments/ENCSR395BWO/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-snpc-4 in young adult worms.
experiment encode accession: ENCSR395BWO
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR844JGM
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB209GKN
size range: 150-350

value: not applicable

value: young adult

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS888TAD at ENCODE; https://www.encodeproject.org/ENCBS888TAD/


title: E12.5M_1_1_EZdirect_Low_WorkflowJ_19

description:
Testing MM285 Array on low input DNA with PGCs
207097260023_R03C02


title: TF ChIP-seq from whole organism (ENCLB529NAQ)

description:
https://www.encodeproject.org/experiments/ENCSR588GIM/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-R02D3.7 in L4 larva worms.
experiment encode accession: ENCSR588GIM
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR938FCA
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB529NAQ
size range: 150-350

source_name: Caenorhabditis elegans strain OP218 (unc-119(ed3) III; wgIs218) mixed sex L4 larva insertion targeting C. elegans R02D3.7

value: pooled male and female

value: L4 larva

value: ENCBS147MZT at ENCODE; https://www.encodeproject.org/ENCBS147MZT/


title: TF ChIP-seq from whole organism (ENCLB389BHU)

description:
https://www.encodeproject.org/experiments/ENCSR588GIM/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq against eGFP-R02D3.7 in L4 larva worms.
experiment encode accession: ENCSR588GIM
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR938FCA
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB389BHU
fragmentation methods: sonication (generic microtip)

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to R02D3.7

value: Michael Snyder

value: ENCBS531SVQ at ENCODE; https://www.encodeproject.org/ENCBS531SVQ/


title: E11.5F_2_1_EZdirect_Low_WorkflowJ_19

description:
Testing MM285 Array on low input DNA with PGCs
207097260023_R02C02

value: Primordial germ cells

value: Low number of PGCs


title: Control ChIP-seq from whole organism (ENCLB495APV)

description:
https://www.encodeproject.org/experiments/ENCSR075HOL/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG5204-eGFP fusion proteins.
experiment encode accession: ENCSR075HOL
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB495APV
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organism

value: whole organisms

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

value: male

value: adult

value: Kevin White, UChicago

value: Kevin White

value: ENCBS094YHI at ENCODE; https://www.encodeproject.org/ENCBS094YHI/


title: E11.5M_2_1_EZdirect_Low_WorkflowJ_19

description:
Testing MM285 Array on low input DNA with PGCs
207097260023_R06C01


title: E11.5F_1_1_EZdirect_Low_WorkflowJ_19

description:
Testing MM285 Array on low input DNA with PGCs
207097260023_R01C02


title: TF ChIP-seq from whole organism (ENCLB252FOQ)

description:
https://www.encodeproject.org/experiments/ENCSR702UKO/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic worms expressing dox-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR702UKO
assay title: TF ChIP-seq
assembly: ce11
possible controls: ENCSR739VJU
encode release date: 2022-11-01
lab: Valerie Reinke, Yale
library encode accession: ENCLB252FOQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: not applicable

value: not collected

value: young adult

value: 66 hour

value: Valerie Reinke, Yale

value: Valerie Reinke

value: L1 larva starved after bleaching

value: ENCBS466ABA at ENCODE; https://www.encodeproject.org/ENCBS466ABA/


title: TF ChIP-seq from whole organism (ENCLB781UXS)

description:
https://www.encodeproject.org/experiments/ENCSR082RBU/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Antp-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR082RBU
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR543PPU
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB781UXS
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Antp

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

value: pooled male and female

value: embryonic

value: 0-24 hour

value: Hugo Bellen

value: ENCBS357FGQ at ENCODE; https://www.encodeproject.org/ENCBS357FGQ/


title: TF ChIP-seq from whole organism (ENCLB443LNL)

description:
https://www.encodeproject.org/experiments/ENCSR588GIM/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-R02D3.7 in L4 larva worms.
experiment encode accession: ENCSR588GIM
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR938FCA
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB443LNL
size range: 150-350

value: whole organism

value: whole organisms

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS521DON at ENCODE; https://www.encodeproject.org/ENCBS521DON/


title: TF ChIP-seq from whole organism (ENCLB898HXO)

description:
https://www.encodeproject.org/experiments/ENCSR394EZM/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against UNC-62 in L4 worms.
experiment encode accession: ENCSR394EZM
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR668TAO
encode release date: 2017-11-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB898HXO
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP600 (unc119(ed3);wgIs600(unc-62::TY1 EGFP FLAG;unc119)) mixed sex L4 larva insertion targeting C. elegans unc-62

value: not applicable

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

value: Michael Snyder

value: ENCBS087FBW at ENCODE; https://www.encodeproject.org/ENCBS087FBW/


title: NIH3T3_EMkit_0.5ng_WorkflowM_18

description:
Testing MM285 Array on low input DNA with NEB EM-kit
206975990064_R04C01

source_name: NIH3T3 ATCC, P4


title: NIH3T3_EMkit_2ng_WorkflowM_18

description:
Testing MM285 Array on low input DNA with NEB EM-kit
206975990064_R03C01

value: 2 ng


title: TF ChIP-seq from whole organism (ENCLB076HVC)

description:
https://www.encodeproject.org/experiments/ENCSR248JJL/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing chn-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR248JJL
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR159AMP
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB076HVC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: chn

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

value: pooled male and female

value: Kevin White, UChicago

value: Kevin White

value: ENCBS241LIG at ENCODE; https://www.encodeproject.org/ENCBS241LIG/


title: E11.5M_1_1_EZdirect_Low_WorkflowJ_19

description:
Testing MM285 Array on low input DNA with PGCs
207097260023_R05C01

value: Primordial germ cells

value: Low number of PGCs


title: E13.5M_1_1_EZdirect_Low_WorkflowJ_20

description:
Testing MM285 Array on low input DNA with PGCs
207097260043_R01C01

source_name: E13.5, male, Primordial germ cells


title: NIH3T3_EMkit_5ng_WorkflowM_18

description:
Testing MM285 Array on low input DNA with NEB EM-kit
206975990064_R02C01

value: 5 ng


title: TF ChIP-seq from whole organism (ENCLB652ZEF)

description:
https://www.encodeproject.org/experiments/ENCSR247ZVM/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing cato-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR247ZVM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR572WAD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB652ZEF
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: cato

value: whole organism

value: whole organisms

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

value: embryonic

value: 0-16 hour

value: ENCBS372VNM at ENCODE; https://www.encodeproject.org/ENCBS372VNM/


title: TF ChIP-seq from whole organism (ENCLB222VZK)

description:
https://www.encodeproject.org/experiments/ENCSR394EZM/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against UNC-62 in L4 worms.
experiment encode accession: ENCSR394EZM
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR668TAO
encode release date: 2017-11-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB222VZK
fragmentation methods: sonication (generic microtip)

value: not applicable

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

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS511VWC at ENCODE; https://www.encodeproject.org/ENCBS511VWC/


title: Control ChIP-seq from whole organism (ENCLB708FEQ)

description:
https://www.encodeproject.org/experiments/ENCSR702LKU/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR702LKU
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB708FEQ
size range: 150-350

source_name: Caenorhabditis elegans strain OP304 (unc-119(ed3) III; wgIs304) mixed sex L1 larva insertion targeting C. elegans fos-1

value: pooled male and female

value: L1 larva

value: CGC

value: ENCBS131NRZ at ENCODE; https://www.encodeproject.org/ENCBS131NRZ/


title: TF ChIP-seq from whole organism (ENCLB395ZHE)

description:
https://www.encodeproject.org/experiments/ENCSR248JJL/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing chn-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR248JJL
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR159AMP
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB395ZHE
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: chn

value: whole organism

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

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS707PIR at ENCODE; https://www.encodeproject.org/ENCBS707PIR/


title: NIH3T3_EMkit_50ng_WorkflowM_18

description:
Testing MM285 Array on low input DNA with NEB EM-kit
206975990064_R01C01

value: 50 ng


title: NIH3T3_EZkit_0.5ng_WorkflowA_17

description:
Testing MM285 Array on low input DNA
206402260034_R06C02


title: Control ChIP-seq from whole organism (ENCLB460LBE)

description:
https://www.encodeproject.org/experiments/ENCSR702LKU/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR702LKU
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB460LBE
size range: 150-350

value: whole organisms

value: not applicable

value: ENCBS623MBU at ENCODE; https://www.encodeproject.org/ENCBS623MBU/


title: TF ChIP-seq from whole organism (ENCLB686FQB)

description:
https://www.encodeproject.org/experiments/ENCSR069AWH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Side-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR069AWH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR805VRS
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB686FQB
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: Side

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

value: embryonic

value: Hugo Bellen

value: ENCBS649LEX at ENCODE; https://www.encodeproject.org/ENCBS649LEX/


title: TF ChIP-seq from whole organism (ENCLB218XEO)

description:
https://www.encodeproject.org/experiments/ENCSR881KXY/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against ama-1 in L1 larva worms.
experiment encode accession: ENCSR881KXY
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR338IOQ
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB218XEO
size range: 150-350

source_name: Caenorhabditis elegans strain N2 (C. elegans wild isolate) mixed sex L1 larva whole organism

value: pooled male and female

value: L1 larva

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS004JVM at ENCODE; https://www.encodeproject.org/ENCBS004JVM/


title: NIH3T3_EZkit_0.5ng_WorkflowC_27

description:
Testing MM285 Array on low input DNA
207115410019_R01C01


title: TF ChIP-seq from whole organism (ENCLB320ADK)

description:
https://www.encodeproject.org/experiments/ENCSR881KXY/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against ama-1 in L1 larva worms.
experiment encode accession: ENCSR881KXY
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR338IOQ
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB320ADK
size range: 150-350

value: whole organism

value: ENCBS879NBA at ENCODE; https://www.encodeproject.org/ENCBS879NBA/


title: TF ChIP-seq from whole organism (ENCLB864DIH)

description:
https://www.encodeproject.org/experiments/ENCSR069AWH/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Side-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR069AWH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR805VRS
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB864DIH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: 0-24 hour

value: Kevin White, UChicago

value: ENCBS208LIC at ENCODE; https://www.encodeproject.org/ENCBS208LIC/


title: NIH3T3_EZkit_50ng_WorkflowA_17

description:
Testing MM285 Array on low input DNA
206402260034_R03C02

value: 50 ng


title: NIH3T3_EZkit_5ng_WorkflowA_17

description:
Testing MM285 Array on low input DNA
206402260034_R04C02

value: 5 ng


title: Control ChIP-seq from whole organism (ENCLB283DPT)

description:
https://www.encodeproject.org/experiments/ENCSR184BVA/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing tup-eGFP fusion proteins.
experiment encode accession: ENCSR184BVA
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB283DPT
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organisms

value: not applicable

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

value: Kevin White

value: ENCBS322FBY at ENCODE; https://www.encodeproject.org/ENCBS322FBY/


title: NIH3T3_EZkit_5ng_WorkflowC_17

description:
Testing MM285 Array on low input DNA
206402260034_R02C02


title: TF ChIP-seq from whole organism (ENCLB060NLC)

description:
https://www.encodeproject.org/experiments/ENCSR247ZVM/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing cato-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR247ZVM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR572WAD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB060NLC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: cato

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

value: pooled male and female

value: embryonic

value: 0-16 hour

value: ENCBS572BVU at ENCODE; https://www.encodeproject.org/ENCBS572BVU/


title: Control ChIP-seq from whole organism (ENCLB064FCX)

description:
https://www.encodeproject.org/experiments/ENCSR586FLU/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR586FLU
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB064FCX
size range: 150-350

source_name: Caenorhabditis elegans strain OP236 (unc-119(ed3) III; wgIs236) mixed sex L4 larva insertion targeting C. elegans ztf-11

value: whole organism

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: CGC

value: ENCBS153UMG at ENCODE; https://www.encodeproject.org/ENCBS153UMG/


title: NIH3T3_EZdirect_2cell_WorkflowA_16

description:
Testing MM285 Array on low input DNA
206402260015_R05C02

value: 2 cells


title: NIH3T3_EZdirect_1cell_WorkflowA_16

description:
Testing MM285 Array on low input DNA
206402260015_R06C02

value: 1 cell


title: Control ChIP-seq from whole organism (ENCLB230AHD)

description:
https://www.encodeproject.org/experiments/ENCSR586FLU/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L4 larva worms.
experiment encode accession: ENCSR586FLU
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB230AHD
size range: 150-350

value: whole organisms

value: not applicable

value: ENCBS512ZWW at ENCODE; https://www.encodeproject.org/ENCBS512ZWW/


title: NIH3T3_EZdirect_5cell_WorkflowA_16

description:
Testing MM285 Array on low input DNA
206402260015_R04C02

value: 5 cells


title: NIH3T3_EZdirect_2ng_WorkflowJ_16

description:
Testing MM285 Array on low input DNA
206402260015_R02C02

value: 2 ng


title: TF ChIP-seq from whole organism (ENCLB338PKD)

description:
https://www.encodeproject.org/experiments/ENCSR245UCO/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing GATAd-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR245UCO
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR854PLB
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB338PKD
fragmentation methods: sonication (Bioruptor generic)

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

value: GATAd

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

value: pooled male and female

value: wandering third instar larva

value: Kevin White, UChicago

value: Kevin White

value: ENCBS011LYH at ENCODE; https://www.encodeproject.org/ENCBS011LYH/


title: NIH3T3_EZkit_0.5ng_WorkflowC_27_re

description:
Testing MM285 Array on low input DNA
207115410019_R02C01


title: NIH3T3_EZdirect_10cell_WorkflowA_16

description:
Testing MM285 Array on low input DNA
206402260015_R03C02

value: 10 cells


title: TF ChIP-seq from whole organism (ENCLB854LPO)

description:
https://www.encodeproject.org/experiments/ENCSR584NUS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against UNC-39 in L4 larva worms.
experiment encode accession: ENCSR584NUS
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR569BKC
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB854LPO
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP186 (unc-119(ed3) III; wgIs186) mixed sex L4 larva insertion targeting C. elegans unc-39

value: whole organism

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to UNC-39

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS365ESF at ENCODE; https://www.encodeproject.org/ENCBS365ESF/


title: Control ChIP-seq from whole organism (ENCLB113OEL)

description:
https://www.encodeproject.org/experiments/ENCSR066HHD/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing chif-eGFP fusion proteins.
experiment encode accession: ENCSR066HHD
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB113OEL
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organisms

value: not applicable

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

value: embryonic

value: 0-24 hour

value: ENCBS624BVM at ENCODE; https://www.encodeproject.org/ENCBS624BVM/


title: TF ChIP-seq from whole organism (ENCLB458LKW)

description:
https://www.encodeproject.org/experiments/ENCSR064GFC/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing tin-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR064GFC
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR996JOD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB458LKW
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: tin

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

value: pooled male and female

value: 0-16 hour

value: Kevin White, UChicago

value: ENCBS173UJK at ENCODE; https://www.encodeproject.org/ENCBS173UJK/


title: NIH3T3_EZdirect_5ng_WorkflowJ_16

description:
Testing MM285 Array on low input DNA
206402260015_R01C02

value: 5 ng


title: NIH3T3_EZdirect_50ng_WorkflowJ_16

description:
Testing MM285 Array on low input DNA
206402260015_R06C01

value: 50 ng


title: TF ChIP-seq from whole organism (ENCLB916VST)

description:
https://www.encodeproject.org/experiments/ENCSR064GFC/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing tin-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR064GFC
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR996JOD
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB916VST
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: whole organism

value: Kevin White

value: ENCBS777AGZ at ENCODE; https://www.encodeproject.org/ENCBS777AGZ/


title: NIH3T3_EZkit_2ng_WorkflowA_17

description:
Testing MM285 Array on low input DNA
206402260034_R05C02

value: 2 ng


title: TF ChIP-seq from whole organism (ENCLB258QSE)

description:
https://www.encodeproject.org/experiments/ENCSR584NUS/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against UNC-39 in L4 larva worms.
experiment encode accession: ENCSR584NUS
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR569BKC
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB258QSE
fragmentation methods: sonication (generic microtip)

value: whole organisms

value: not applicable

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to UNC-39

value: L4 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS395WAK at ENCODE; https://www.encodeproject.org/ENCBS395WAK/


title: NIH3T3_EZdirect_1cell_WorkflowC_16

description:
Testing MM285 Array on low input DNA
206402260015_R04C01

value: 1 cell


title: NIH3T3_EZdirect_50ng_WorkflowC_16

description:
Testing MM285 Array on low input DNA
206402260015_R05C01


title: TF ChIP-seq from whole organism (ENCLB987RHR)

description:
https://www.encodeproject.org/experiments/ENCSR701FUV/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-ceh-28 in L3 larva worms.
experiment encode accession: ENCSR701FUV
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR788PJR
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB987RHR
size range: 150-350

source_name: Caenorhabditis elegans strain OP241 (unc-119(ed3) III; wgIs241) mixed sex L3 larva insertion targeting C. elegans ceh-28

value: pooled male and female

value: L3 larva

value: CGC

value: ENCBS638SVK at ENCODE; https://www.encodeproject.org/ENCBS638SVK/


title: NIH3T3_EZdirect_2cell_WorkflowC_16

description:
Testing MM285 Array on low input DNA
206402260015_R03C01

value: 2 cells


title: TF ChIP-seq from whole organism (ENCLB457NHA)

description:
https://www.encodeproject.org/experiments/ENCSR059TJM/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG3995-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR059TJM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR889UFR
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB457NHA
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: whole organism

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

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS529WGA at ENCODE; https://www.encodeproject.org/ENCBS529WGA/


title: NIH3T3_EZdirect_5cell_WorkflowC_16

description:
Testing MM285 Array on low input DNA
206402260015_R02C01

value: 5 cells


title: TF ChIP-seq from whole organism (ENCLB781COA)

description:
https://www.encodeproject.org/experiments/ENCSR059TJM/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG3995-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR059TJM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR889UFR
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB781COA
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organisms

value: not applicable

value: ENCBS050GOI at ENCODE; https://www.encodeproject.org/ENCBS050GOI/


title: TF ChIP-seq from whole organism (ENCLB042NRF)

description:
https://www.encodeproject.org/experiments/ENCSR880JKS/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against CEH-22 in LE worms.
experiment encode accession: ENCSR880JKS
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR698WBS
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB042NRF
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP389 (unc-119(tm4063) III; wgIs389) mixed sex late embryo insertion targeting C. elegans ceh-22

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to CEH-22

value: late embryonic

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS078JCM at ENCODE; https://www.encodeproject.org/ENCBS078JCM/


title: TF ChIP-seq from whole organism (ENCLB602MRY)

description:
https://www.encodeproject.org/experiments/ENCSR059TJM/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG3995-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR059TJM
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR889UFR
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB602MRY
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: pooled male and female

value: ENCBS878BKY at ENCODE; https://www.encodeproject.org/ENCBS878BKY/


title: NIH3T3_EZdirect_10cell_WorkflowC_16

description:
Testing MM285 Array on low input DNA
206402260015_R01C01

value: 10 cells


title: B16-F0_EZdirect_100cell_WorkflowJ_15

description:
Testing MM285 Array on low input DNA
206402260018_R06C02

source_name: B16 ATCC, P4

value: 100 cells


title: B16-F0_EZdirect_5cell_WorkflowJ_15_rep4

description:
Testing MM285 Array on low input DNA
206402260018_R05C02

source_name: B16 ATCC, P2


title: B16-F0_EZdirect_5cell_WorkflowJ_15_rep3

description:
Testing MM285 Array on low input DNA
206402260018_R04C02


title: B16-F0_EZdirect_5cell_WorkflowJ_15_rep2

description:
Testing MM285 Array on low input DNA
206402260018_R03C02


title: B16-F0_EZdirect_5cell_WorkflowJ_15_rep

description:
Testing MM285 Array on low input DNA
206402260018_R02C02


title: Control ChIP-seq from whole organism (ENCLB584KXF)

description:
https://www.encodeproject.org/experiments/ENCSR178PAG/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG4617-eGFP fusion proteins.
experiment encode accession: ENCSR178PAG
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB584KXF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

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

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS123KWU at ENCODE; https://www.encodeproject.org/ENCBS123KWU/


title: TF ChIP-seq from whole organism (ENCLB355FTT)

description:
https://www.encodeproject.org/experiments/ENCSR701EEG/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-10 in L4 larva worms.
experiment encode accession: ENCSR701EEG
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR287RHD
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB355FTT
size range: 150-350

source_name: Caenorhabditis elegans strain OP239 (unc-119(ed3) III; wgIs239) mixed sex L4 larva insertion targeting C. elegans nhr-10

value: whole organisms

value: not applicable

value: L4 larva

value: CGC

value: ENCBS478LSI at ENCODE; https://www.encodeproject.org/ENCBS478LSI/


title: Control ChIP-seq from whole organism (ENCLB613KMY)

description:
https://www.encodeproject.org/experiments/ENCSR178NGG/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG7368-eGFP fusion proteins.
experiment encode accession: ENCSR178NGG
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB613KMY
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

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

value: prepupa

value: unknown

value: ENCBS555APV at ENCODE; https://www.encodeproject.org/ENCBS555APV/


title: TF ChIP-seq from whole organism (ENCLB985RZV)

description:
https://www.encodeproject.org/experiments/ENCSR701FUV/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-ceh-28 in L3 larva worms.
experiment encode accession: ENCSR701FUV
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR788PJR
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB985RZV
size range: 150-350

value: whole organism

value: pooled male and female

value: L3 larva

value: Michael Snyder, Stanford

value: ENCBS803BPT at ENCODE; https://www.encodeproject.org/ENCBS803BPT/


title: Control ChIP-seq from whole organism (ENCLB173OHR)

description:
https://www.encodeproject.org/experiments/ENCSR583FIC/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR583FIC
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB173OHR
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP357 (unc-119(tm4063) III; wgIs357) mixed sex L1 larva insertion targeting C. elegans nhr-84

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to NHR-84

value: L1 larva

value: Michael Snyder

value: ENCBS691NIV at ENCODE; https://www.encodeproject.org/ENCBS691NIV/


title: NIH3T3_EZdirect_5cell_WorkflowJ_15_rep3

description:
Testing MM285 Array on low input DNA
206402260018_R04C01

source_name: NIH3T3 ATCC, P4

value: 5 cells


title: TF ChIP-seq from whole organism (ENCLB438SEX)

description:
https://www.encodeproject.org/experiments/ENCSR176PDW/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Six4-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR176PDW
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR103JYD
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB438SEX
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Six4-GFP mixed sex embryo (0-16 hours) insertion targeting D. melanogaster Six4

value: whole organisms

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Six4

value: embryonic

value: 0-16 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS398WTT at ENCODE; https://www.encodeproject.org/ENCBS398WTT/


title: NIH3T3_EZdirect_5cell_WorkflowJ_15_rep4

description:
Testing MM285 Array on low input DNA
206402260018_R05C01


title: NIH3T3_EZdirect_5cell_WorkflowJ_15_rep2

description:
Testing MM285 Array on low input DNA
206402260018_R03C01


title: Control ChIP-seq from whole organism (ENCLB566MNJ)

description:
https://www.encodeproject.org/experiments/ENCSR583FIC/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR583FIC
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB566MNJ
fragmentation methods: sonication (generic microtip)

value: whole organism

value: pooled male and female

value: unknown

value: ENCBS788QOB at ENCODE; https://www.encodeproject.org/ENCBS788QOB/


title: TF ChIP-seq from whole organism (ENCLB249PHW)

description:
https://www.encodeproject.org/experiments/ENCSR880JKS/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against CEH-22 in LE worms.
experiment encode accession: ENCSR880JKS
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR698WBS
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB249PHW
fragmentation methods: sonication (generic microtip)

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to CEH-22

value: late embryonic

value: Michael Snyder, Stanford

value: ENCBS745XGD at ENCODE; https://www.encodeproject.org/ENCBS745XGD/


title: TF ChIP-seq from whole organism (ENCLB372TME)

description:
https://www.encodeproject.org/experiments/ENCSR176PDW/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Six4-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR176PDW
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR103JYD
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB372TME
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: ENCBS941PGQ at ENCODE; https://www.encodeproject.org/ENCBS941PGQ/


title: NIH3T3_EZdirect_5cell_WorkflowJ_15_rep

description:
Testing MM285 Array on low input DNA
206402260018_R02C01

value: 5 cells


title: Control ChIP-seq from whole organism (ENCLB123RFN)

description:
https://www.encodeproject.org/experiments/ENCSR242RQJ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Eip78C-eGFP fusion proteins.
experiment encode accession: ENCSR242RQJ
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB123RFN
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain Eip78C-GFP mixed sex prepupa at white prepupa stage insertion targeting D. melanogaster Eip78C

value: whole organisms

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to Eip78C

value: prepupa

tag: fly synchronization stage

value: white prepupa

value: ENCBS253ANS at ENCODE; https://www.encodeproject.org/ENCBS253ANS/


title: NIH3T3_EZdirect_5cell_WorkflowJ_15

description:
Testing MM285 Array on low input DNA
206402260018_R01C01


title: Control ChIP-seq from whole organism (ENCLB649VVW)

description:
https://www.encodeproject.org/experiments/ENCSR582YPQ/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR582YPQ
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB649VVW
size range: 150-350

source_name: Caenorhabditis elegans strain OP240 (unc-119(ed3) III; wgIs240) mixed sex L2 larva insertion targeting C. elegans lsy-2

value: L2 larva

value: CGC

value: ENCBS510PZP at ENCODE; https://www.encodeproject.org/ENCBS510PZP/


title: B16-F0_EZdirect_5cell_WorkflowJ_15

description:
Testing MM285 Array on low input DNA
206402260018_R01C02


title: B16-F0_EZdirect_1cell_WorkflowJ_13_rep

description:
Testing MM285 Array on low input DNA
206402260004_R06C02

value: 1 cell


title: NIH3T3_EZdirect_100cell_WorkflowJ_15

description:
Testing MM285 Array on low input DNA
206402260018_R06C01

value: 100 cells


title: B16-F0_EZdirect_2cell_WorkflowJ_13_rep

description:
Testing MM285 Array on low input DNA
206402260004_R05C02

value: 2 cells


title: Control ChIP-seq from whole organism (ENCLB678MFE)

description:
https://www.encodeproject.org/experiments/ENCSR582YPQ/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR582YPQ
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB678MFE
size range: 150-350

value: whole organism

value: pooled male and female

value: unknown

value: ENCBS660DYN at ENCODE; https://www.encodeproject.org/ENCBS660DYN/


title: B16-F0_EZdirect_5cell_WorkflowJ_13_rep

description:
Testing MM285 Array on low input DNA
206402260004_R04C02

value: 5 cells


title: TF ChIP-seq from whole organism (ENCLB677FWC)

description:
https://www.encodeproject.org/experiments/ENCSR335QAE/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing svp-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR335QAE
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR144XHB
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB677FWC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: svp

value: whole organisms

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

value: Kevin White, UChicago

value: Kevin White

value: ENCBS397BIV at ENCODE; https://www.encodeproject.org/ENCBS397BIV/


title: TF ChIP-seq from whole organism (ENCLB687KNJ)

description:
https://www.encodeproject.org/experiments/ENCSR878HTM/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq against efl-1 in L1 larva worms.
experiment encode accession: ENCSR878HTM
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR239PCG
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB687KNJ
size range: 150-350

source_name: Caenorhabditis elegans strain MT10430 (lin-35(n745) I) mixed sex L1 larva whole organism

value: not applicable

value: L1 larva

value: Michael Snyder, Stanford

value: ENCBS497KZB at ENCODE; https://www.encodeproject.org/ENCBS497KZB/


title: B16-F0_EZdirect_1cell_WorkflowJ_13

description:
Testing MM285 Array on low input DNA
206402260004_R01C02

value: 1 cell


title: TF ChIP-seq from whole organism (ENCLB807FPB)

description:
https://www.encodeproject.org/experiments/ENCSR701EEG/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against eGFP-nhr-10 in L4 larva worms.
experiment encode accession: ENCSR701EEG
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR287RHD
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB807FPB
size range: 150-350

value: L4 larva

value: CGC

value: ENCBS775AZH at ENCODE; https://www.encodeproject.org/ENCBS775AZH/


title: TF ChIP-seq from whole organism (ENCLB294XYQ)

description:
https://www.encodeproject.org/experiments/ENCSR878HTM/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq against efl-1 in L1 larva worms.
experiment encode accession: ENCSR878HTM
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR239PCG
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB294XYQ
size range: 150-350

value: whole organism

value: pooled male and female

value: unknown

value: ENCBS465HPX at ENCODE; https://www.encodeproject.org/ENCBS465HPX/


title: TF ChIP-seq from whole organism (ENCLB567FIZ)

description:
https://www.encodeproject.org/experiments/ENCSR335QAE/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing svp-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR335QAE
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR144XHB
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB567FIZ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: svp

value: whole organisms

value: prepupa

value: white prepupa

value: ENCBS619IMZ at ENCODE; https://www.encodeproject.org/ENCBS619IMZ/


title: B16-F0_EZdirect_100cell_WorkflowJ_13_rep

description:
Testing MM285 Array on low input DNA
206402260004_R02C02

value: 100 cells


title: B16-F0_EZdirect_2cell_WorkflowJ_13

description:
Testing MM285 Array on low input DNA
206402260004_R06C01

value: 2 cells


title: Control ChIP-seq from whole organism (ENCLB775IAS)

description:
https://www.encodeproject.org/experiments/ENCSR876GLE/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR876GLE
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB775IAS
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP418 (unc-119(tm4063) III; wgIs418) mixed sex L2 larva insertion targeting C. elegans dmd-4

value: not applicable

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

value: L2 larva

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS880ORQ at ENCODE; https://www.encodeproject.org/ENCBS880ORQ/


title: TF ChIP-seq from whole organism (ENCLB652JGR)

description:
https://www.encodeproject.org/experiments/ENCSR172KOI/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing kay-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR172KOI
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR685RPG
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB652JGR
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: kay

value: whole organism

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

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS025NWA at ENCODE; https://www.encodeproject.org/ENCBS025NWA/


title: B16-F0_EZdirect_5cell_WorkflowJ_13

description:
Testing MM285 Array on low input DNA
206402260004_R05C01

value: 5 cells


title: Control ChIP-seq from whole organism (ENCLB934OZR)

description:
https://www.encodeproject.org/experiments/ENCSR876GLE/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR876GLE
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB934OZR
fragmentation methods: sonication (generic microtip)

value: whole organisms

value: pooled male and female

value: unknown

value: ENCBS390SHY at ENCODE; https://www.encodeproject.org/ENCBS390SHY/


title: B16-F0_EZdirect_10cell_WorkflowJ_13

description:
Testing MM285 Array on low input DNA
206402260004_R04C01

value: 10 cells


title: B16-F0_EZdirect_100cell_WorkflowJ_13

description:
Testing MM285 Array on low input DNA
206402260004_R03C01

value: 100 cells


title: B16-F0_EZkit_250ng_WorkflowC_24

description:
A B16-F0 standard, passage number 3, EZ kit
206402260037_R01C01

source_name: B16 ATCC, P3


title: Control ChIP-seq from whole organism (ENCLB048IDB)

description:
https://www.encodeproject.org/experiments/ENCSR055XXE/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Plzf-eGFP fusion proteins.
experiment encode accession: ENCSR055XXE
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB048IDB
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG6792-GFP mixed sex prepupa insertion targeting D. melanogaster Plzf

value: not applicable

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

value: prepupa

value: ENCBS123HCT at ENCODE; https://www.encodeproject.org/ENCBS123HCT/


title: TF ChIP-seq from whole organism (ENCLB430GMB)

description:
https://www.encodeproject.org/experiments/ENCSR581THE/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing NFYA-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR581THE
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR116BMC
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB430GMB
fragmentation methods: sonication (generic microtip)

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

value: whole organism

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

value: hermaphrodite

value: young adult

value: Valerie Reinke, Yale

value: Valerie Reinke

value: ENCBS103WCK at ENCODE; https://www.encodeproject.org/ENCBS103WCK/


title: TF ChIP-seq from whole organism (ENCLB795EDD)

description:
https://www.encodeproject.org/experiments/ENCSR054BLW/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing az2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR054BLW
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR641VHQ
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB795EDD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain az2-GFP mixed sex embryo (0-16 hours) insertion targeting D. melanogaster az2

value: whole organisms

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to az2

value: embryonic

value: 0-16 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS524IEB at ENCODE; https://www.encodeproject.org/ENCBS524IEB/


title: B16-F0_EZkit_250ng_WorkflowC_13

description:
A B16-F0 standard, passage number 2, EZ kit
206402260004_R01C01


title: NIH3T3_EZdirect_1cell_WorkflowJ_12_rep7

description:
Testing MM285 Array on low input DNA
206102340054_R06C02

value: 1 cell


title: TF ChIP-seq from whole organism (ENCLB579NVK)

description:
https://www.encodeproject.org/experiments/ENCSR335QAE/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing svp-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR335QAE
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR144XHB
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB579NVK
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: svp

value: not applicable

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

value: pooled male and female

value: prepupa

value: unknown

value: white prepupa

value: ENCBS915ZES at ENCODE; https://www.encodeproject.org/ENCBS915ZES/


title: TF ChIP-seq from whole organism (ENCLB054QAM)

description:
https://www.encodeproject.org/experiments/ENCSR054BLW/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing az2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR054BLW
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR641VHQ
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB054QAM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: ENCBS165GRU at ENCODE; https://www.encodeproject.org/ENCBS165GRU/


title: B16-F0_EZdirect_10cell_WorkflowJ_13_rep

description:
Testing MM285 Array on low input DNA
206402260004_R03C02

source_name: B16 ATCC, P2

value: 10 cells


title: TF ChIP-seq from whole organism (ENCLB192UBI)

description:
https://www.encodeproject.org/experiments/ENCSR581THE/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq of transgenic worms expressing NFYA-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR581THE
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR116BMC
encode release date: 2017-11-22
lab: Valerie Reinke, Yale
library encode accession: ENCLB192UBI
fragmentation methods: sonication (generic microtip)

value: whole organisms

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

value: hermaphrodite

value: young adult

value: Valerie Reinke, Yale

value: Valerie Reinke

value: ENCBS760RUI at ENCODE; https://www.encodeproject.org/ENCBS760RUI/


title: Control ChIP-seq from whole organism (ENCLB524PXW)

description:
https://www.encodeproject.org/experiments/ENCSR581MER/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR581MER
assay title: Control ChIP-seq
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB524PXW
size range: 150-350

source_name: Caenorhabditis elegans strain YL416 (unc119(ed3)III; vrIs64[pGES-1::HPL-2::GFP FLAG: HPL-2 3'UTR, unc-119 (+)]) mixed sex L1 larva insertion targeting C. elegans hpl-2

value: not applicable

value: L1 larva

value: Michael Snyder, Stanford

value: CGC

value: ENCBS767OFK at ENCODE; https://www.encodeproject.org/ENCBS767OFK/


title: TF ChIP-seq from whole organism (ENCLB045KIO)

description:
https://www.encodeproject.org/experiments/ENCSR054BLW/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing az2-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR054BLW
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR641VHQ
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB045KIO
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to az2

value: pooled male and female

value: embryonic

value: 0-16 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS360EFV at ENCODE; https://www.encodeproject.org/ENCBS360EFV/


title: NIH3T3_EZdirect_1cell_WorkflowJ_12_rep4

description:
Testing MM285 Array on low input DNA
206102340054_R03C02

value: 1 cell


title: NIH3T3_EZdirect_1cell_WorkflowJ_12_rep3

description:
Testing MM285 Array on low input DNA
206102340054_R02C02


title: Control ChIP-seq from whole organism (ENCLB136HIV)

description:
https://www.encodeproject.org/experiments/ENCSR581MER/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR581MER
assay title: Control ChIP-seq
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB136HIV
size range: 150-350

value: whole organism

value: whole organisms

value: unknown

value: ENCBS203KDU at ENCODE; https://www.encodeproject.org/ENCBS203KDU/


title: NIH3T3_EZdirect_1cell_WorkflowJ_12_rep2

description:
Testing MM285 Array on low input DNA
206102340054_R01C02


title: NIH3T3_EZdirect_1cell_WorkflowJ_12

description:
Testing MM285 Array on low input DNA
206102340054_R05C01


title: NIH3T3_EZdirect_1cell_WorkflowJ_12_rep

description:
Testing MM285 Array on low input DNA
206102340054_R06C01


title: Control ChIP-seq from whole organism (ENCLB200SOQ)

description:
https://www.encodeproject.org/experiments/ENCSR874NAF/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR874NAF
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB200SOQ
size range: 150-350

source_name: Caenorhabditis elegans strain OP212 (unc-119(ed3) III; ddEx58) mixed sex L2 larva insertion targeting C. elegans ceh-82

value: not applicable

value: L2 larva

value: ENCBS374HNK at ENCODE; https://www.encodeproject.org/ENCBS374HNK/


title: B16-F0_EZkit_0.5ng_WorkflowC_13

description:
Testing MM285 Array on low input DNA
206402260004_R02C01


title: NIH3T3_EZkit_0.5ng_WorkflowA_12

description:
Testing MM285 Array on low input DNA
206102340054_R02C01


title: NIH3T3_EZdirect_250ng_WorkflowC_12

description:
A NIH3T3 standard, passge number 4, EZ direct kit
206102340054_R04C01


title: TF ChIP-seq from whole organism (ENCLB772JYQ)

description:
https://www.encodeproject.org/experiments/ENCSR332DSH/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Plzf-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR332DSH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR055XXE
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB772JYQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: prepupa

value: ENCBS969JPW at ENCODE; https://www.encodeproject.org/ENCBS969JPW/


title: TF ChIP-seq from whole organism (ENCLB639WXQ)

description:
https://www.encodeproject.org/experiments/ENCSR332DSH/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Plzf-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR332DSH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR055XXE
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB639WXQ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: pooled male and female

value: ENCBS900JKQ at ENCODE; https://www.encodeproject.org/ENCBS900JKQ/


title: NIH3T3_EZgold_10cell_WorkflowJ_11

description:
Testing MM285 Array on low input DNA
206130600032_R06C02

value: 10 cells


title: Control ChIP-seq from whole organism (ENCLB294WZE)

description:
https://www.encodeproject.org/experiments/ENCSR874NAF/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L2 larva worms.
experiment encode accession: ENCSR874NAF
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB294WZE
size range: 150-350

value: Michael Snyder, Stanford

value: CGC

value: ENCBS715YUH at ENCODE; https://www.encodeproject.org/ENCBS715YUH/


title: NIH3T3_EZdirect_1cell_WorkflowJ_12_rep6

description:
Testing MM285 Array on low input DNA
206102340054_R05C02

value: 1 cell


title: NIH3T3_EZgold_5cell_WorkflowJ_11

description:
Testing MM285 Array on low input DNA
206130600032_R05C02

value: 5 cells


title: Control ChIP-seq from whole organism (ENCLB399RPU)

description:
https://www.encodeproject.org/experiments/ENCSR698WBS/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in LE larva worms.
experiment encode accession: ENCSR698WBS
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB399RPU
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP389 (unc-119(tm4063) III; wgIs389) mixed sex late embryo insertion targeting C. elegans ceh-22

value: whole organism

value: whole organisms

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to CEH-22

value: late embryonic

value: Michael Snyder

value: ENCBS100ZXY at ENCODE; https://www.encodeproject.org/ENCBS100ZXY/


title: NIH3T3_EZdirect_1cell_WorkflowJ_11_rep

description:
Testing MM285 Array on low input DNA
206130600032_R04C02


title: Control ChIP-seq from whole organism (ENCLB122FBM)

description:
https://www.encodeproject.org/experiments/ENCSR331XEF/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing kay-eGFP fusion proteins.
experiment encode accession: ENCSR331XEF
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB122FBM
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: not applicable

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

value: male

value: adult

value: unknown

value: Kevin White, UChicago

value: Kevin White

value: ENCBS442QVZ at ENCODE; https://www.encodeproject.org/ENCBS442QVZ/


title: NIH3T3_EZdirect_1cell_WorkflowJ_12_rep5

description:
Testing MM285 Array on low input DNA
206102340054_R04C02

source_name: NIH3T3 ATCC, P4


title: NIH3T3_EZdirect_10cell_WorkflowJ_11

description:
Testing MM285 Array on low input DNA
206130600032_R03C02

value: 10 cells


title: Control ChIP-seq from whole organism (ENCLB431SPZ)

description:
https://www.encodeproject.org/experiments/ENCSR698WBS/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in LE larva worms.
experiment encode accession: ENCSR698WBS
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-06
lab: Michael Snyder, Stanford
library encode accession: ENCLB431SPZ
fragmentation methods: sonication (generic microtip)

value: pooled male and female

value: Michael Snyder, Stanford

value: ENCBS591YXY at ENCODE; https://www.encodeproject.org/ENCBS591YXY/


title: Control ChIP-seq from whole organism (ENCLB552UAU)

description:
https://www.encodeproject.org/experiments/ENCSR698DCH/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR698DCH
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB552UAU
size range: 150-350

source_name: Caenorhabditis elegans strain OP317 (unc-119(ed3) III; wgIs317) mixed sex mixed stage (embryo) insertion targeting C. elegans nhr-28

value: whole organism

value: whole organisms

value: mixed stage (embryonic)

value: CGC

value: ENCBS603QQZ at ENCODE; https://www.encodeproject.org/ENCBS603QQZ/


title: NIH3T3_EZdirect_5cell_WorkflowJ_11

description:
Testing MM285 Array on low input DNA
206130600032_R02C02

value: 5 cells


title: NIH3T3_EZdirect_1cell_WorkflowJ_11

description:
Testing MM285 Array on low input DNA
206130600032_R06C01

value: 1 cell


title: TF ChIP-seq from whole organism (ENCLB752FSF)

description:
https://www.encodeproject.org/experiments/ENCSR044IDQ/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG12236-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR044IDQ
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR191UXN
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB752FSF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

source_name: Drosophila melanogaster strain CG12236-GFP mixed sex embryo (0-24 hours) insertion targeting D. melanogaster CG12236

value: not applicable

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG12236

value: embryonic

value: 0-24 hour

value: ENCBS026RQH at ENCODE; https://www.encodeproject.org/ENCBS026RQH/


title: TF ChIP-seq from whole organism (ENCLB372MYC)

description:
https://www.encodeproject.org/experiments/ENCSR168NHD/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CrebA-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR168NHD
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR920JDE
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB372MYC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: CrebA

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

value: wandering third instar larva

value: unknown

value: Kevin White, UChicago

value: Hugo Bellen

value: ENCBS961OFO at ENCODE; https://www.encodeproject.org/ENCBS961OFO/


title: NIH3T3_EZdirect_2cell_WorkflowJ_11

description:
Testing MM285 Array on low input DNA
206130600032_R01C02

value: 2 cells


title: TF ChIP-seq from whole organism (ENCLB618FUD)

description:
https://www.encodeproject.org/experiments/ENCSR332DSH/
***************
biological replicate number: 2
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing Plzf-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR332DSH
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR055XXE
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB618FUD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: whole organism

value: whole organisms

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

value: pooled male and female

value: prepupa

value: Kevin White

value: ENCBS895GGB at ENCODE; https://www.encodeproject.org/ENCBS895GGB/


title: Control ChIP-seq from whole organism (ENCLB675QXS)

description:
https://www.encodeproject.org/experiments/ENCSR698DCH/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in mixed stage (embryonic) worms.
experiment encode accession: ENCSR698DCH
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2014-03-31
lab: Michael Snyder, Stanford
library encode accession: ENCLB675QXS
size range: 150-350

value: not applicable

value: mixed stage (embryonic)

value: Michael Snyder, Stanford

value: CGC

value: ENCBS955SOO at ENCODE; https://www.encodeproject.org/ENCBS955SOO/


title: Control ChIP-seq from whole organism (ENCLB212RKD)

description:
https://www.encodeproject.org/experiments/ENCSR234AVI/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing CG12104-eGFP fusion proteins.
experiment encode accession: ENCSR234AVI
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-09-29
lab: Kevin White, UChicago
library encode accession: ENCLB212RKD
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

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

value: embryonic

value: 0-24 hour

value: ENCBS158ZYP at ENCODE; https://www.encodeproject.org/ENCBS158ZYP/


title: TF ChIP-seq from whole organism (ENCLB955RDF)

description:
https://www.encodeproject.org/experiments/ENCSR044IDQ/
***************
biological replicate number: 3
technical replicate number: 1
description: ChIP-seq on transgenic flies expressing CG12236-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR044IDQ
assay title: TF ChIP-seq
assembly: dm6, dm3
possible controls: ENCSR191UXN
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB955RDF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

value: Transgenic D. mel line, stably expressing a C-terminal GFP fused to CG12236

value: Kevin White, UChicago

value: ENCBS482TBX at ENCODE; https://www.encodeproject.org/ENCBS482TBX/


title: NIH3T3_EZdirect_10cell_WorkflowI_11

description:
Testing MM285 Array on low input DNA
206130600032_R05C01

value: 10 cells


title: Control ChIP-seq from whole organism (ENCLB543LZI)

description:
https://www.encodeproject.org/experiments/ENCSR161RRC/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing Trl-eGFP fusion proteins.
experiment encode accession: ENCSR161RRC
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB543LZI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

value: whole organism

value: whole organisms

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

value: pooled male and female

value: Hugo Bellen

value: ENCBS186AKD at ENCODE; https://www.encodeproject.org/ENCBS186AKD/


title: NIH3T3_EZdirect_5cell_WorkflowI_11

description:
Testing MM285 Array on low input DNA
206130600032_R04C01

value: 5 cells


title: NIH3T3_EZdirect_1cell_WorkflowI_11

description:
Testing MM285 Array on low input DNA
206130600032_R02C01

value: 1 cell


title: NIH3T3_EZdirect_250ng_WorkflowC_11

description:
A NIH3T3 standard, passge number 4, EZ kit
206130600032_R01C01


title: TF ChIP-seq from whole organism (ENCLB171CIN)

description:
https://www.encodeproject.org/experiments/ENCSR697KIC/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq against ELT-3 in L1 larva worms.
experiment encode accession: ENCSR697KIC
assay title: TF ChIP-seq
assembly: ce11, ce10
possible controls: ENCSR544TSB
encode release date: 2018-02-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB171CIN
fragmentation methods: sonication (generic microtip)

source_name: Caenorhabditis elegans strain OP75 (unc-119(ed3) III; wgIs75) mixed sex L1 larva insertion targeting C. elegans elt-3

value: not applicable

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

value: L1 larva

value: unknown

value: Michael Snyder, Stanford

value: Michael Snyder

value: ENCBS979RQR at ENCODE; https://www.encodeproject.org/ENCBS979RQR/


title: NIH3T3_EZdirect_2cell_WorkflowI_11

description:
Testing MM285 Array on low input DNA
206130600032_R03C01

value: 2 cells


title: Control ChIP-seq from whole organism (ENCLB427SNJ)

description:
https://www.encodeproject.org/experiments/ENCSR159AMP/
***************
biological replicate number: 1
technical replicate number: 1
description: Input control for ChIP-seq on transgenic flies expressing chn-eGFP fusion proteins.
experiment encode accession: ENCSR159AMP
assay title: Control ChIP-seq
assembly: dm6, dm3
encode release date: 2016-07-06
lab: Kevin White, UChicago
library encode accession: ENCLB427SNJ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800

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

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

value: embryonic

value: 0-24 hour

value: Kevin White, UChicago

value: Kevin White

value: ENCBS115MUM at ENCODE; https://www.encodeproject.org/ENCBS115MUM/


title: NIH3T3_EZdirect_10cell_WorkflowL_21cycle_10_rep

description:
Testing MM285 Array on low input DNA
205333480069_R05C02

value: 10 cells


title: NIH3T3_EZdirect_10cell_WorkflowL_26cycle_10_rep

description:
Testing MM285 Array on low input DNA
205333480069_R06C02


title: NIH3T3_EZdirect_10cell_WorkflowL_16cycle_10_rep

description:
Testing MM285 Array on low input DNA
205333480069_R04C02


title: Control ChIP-seq from whole organism (ENCLB997GZW)

description:
https://www.encodeproject.org/experiments/ENCSR578VGI/
***************
biological replicate number: 2
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR578VGI
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB997GZW
fragmentation methods: sonication (generic microtip)

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

value: whole organism

value: whole organisms

value: Transgenic C. elegans line, stably expressing a C-terminal GFP-FLAG tag fused to F45C12.2

value: pooled male and female

value: ENCBS939NJX at ENCODE; https://www.encodeproject.org/ENCBS939NJX/


title: Control ChIP-seq from whole organism (ENCLB468FTH)

description:
https://www.encodeproject.org/experiments/ENCSR578VGI/
***************
biological replicate number: 1
technical replicate number: 1
description: Input ChIP-seq in L1 larva worms.
experiment encode accession: ENCSR578VGI
assay title: Control ChIP-seq
assembly: ce11, ce10
encode release date: 2017-11-22
lab: Michael Snyder, Stanford
library encode accession: ENCLB468FTH
fragmentation methods: sonication (generic microtip)

value: not applicable

value: L1 larva

value: unknown

value: ENCBS239YCL at ENCODE; https://www.encodeproject.org/ENCBS239YCL/


title: NIH3T3_EZdirect_10cell_WorkflowI_10_rep

description:
Testing MM285 Array on low input DNA
205333480069_R02C02


title: NIH3T3_EZdirect_10cell_WorkflowL_13cycle_10_rep

description:
Testing MM285 Array on low input DNA
205333480069_R03C02


title: NIH3T3_EZdirect_10cell_WorkflowL_26cycle_10

description:
Testing MM285 Array on low input DNA
205333480069_R01C02


title: NIH3T3_EZdirect_10cell_WorkflowL_21cycle_10

description:
Testing MM285 Array on low input DNA
205333480069_R06C01