Tools
Tools Overview & Help
Query by symbols/IDs
Batch Download
Sequence Downloader
ID Validator
Feature Mapper
Search/Browse Portals
QuickSearch
Vocabularies
QueryBuilder
CytoSearch
Interactions Browser
ImageBrowse
Genomics Tools
BLAST
JBrowse
CytoSearch
Feature Mapper
Chromosome Maps
Coordinates Converter
Sequence Downloader
modENCODE RNA-Seq
Overview
RNA-Seq Similarity
RNA-Seq Profile
RNA-Seq By Region
JBrowse
Submit Data
Fast-Track Your Paper
Submit Personal Communication
Feedback on Gene Snapshots
Downloads
Overview
Current Release
Archived Data
Map Conversion
FTP Site:
Releases (FTP)
Genomes (FTP)
Links
External Resources
Model Organisms (MODs)
Alliance of Genome Resources
BeeBase
DictyBase
EcoCyc
Gramene
MGI
PomBase
Pseudobase
RGD
SGD
TAIR
VectorBase
WormBase
Xenbase
ZFIN
Stock Collections
Bloomington Drosophila Stock Center (BDSC)
FlyORF
Korea Drosophila Resource Center (KDRC)
Kyoto Stock Center
NIG-FLY
Tsinghua Fly Center (THFC)
Vienna Drosophila Resource Center (VDRC)
BDGP
DGRC
DRSC/TRiP
DIS by issue
FlyBook
FlyExpress
Interactive Fly
Virtual Fly Brain
FlyCyc
Community
Fast-Track Your Paper
FlyBase Community
Advisory Group
Fly Lab List
Recent Papers With
Technical Advances
Gene Snapshots
FlyBase Forum
Newsletter
FlySlack Community
Mastodon
Bluesky
X (formerly Twitter)
Fly Board
NIH Funding
Species
Phylogeny
Sequenced Species
Synteny Table
Color Illustrations
About
Release Notes
New In This Release
Release Schedule
FlyBase Positions
Citing FlyBase
FlyBase Licensing
FlyBase Consortium
FlyBase Publications
FlyBase Presentations
Grants Supporting FlyBase
Help
Contact FlyBase
FlyBase Wiki:
Help Index
Tool help
Report help
FlyBase FAQ
Info for Authors
Author guidelines
Citing FlyBase
Fast-Track Your Paper Help
Gene Snapshots
Personal communications
Linking to/from FlyBase
Nomenclature
Curation documentation
Controlled Vocabularies in FlyBase
Gene Model Annotation
Gene Ontology (GO) Annotation
Nontraditional alleles
Vectors & Constructs
New to Flies?
Video Tutorials
Programmatic Access
to FlyBase: APIs, etc.
New Metabolic Pathway reports
Bulk data best practices
Previous
Next
FB2025_02
,
released April 17, 2025
Sign In
Tools
Tools Overview & Help
Query by symbols/IDs
Batch Download
Sequence Downloader
ID Validator
Feature Mapper
Search/Browse Portals
QuickSearch
Vocabularies
QueryBuilder
CytoSearch
Interactions Browser
ImageBrowse
Genomics Tools
BLAST
JBrowse
CytoSearch
Feature Mapper
Chromosome Maps
Coordinates Converter
Sequence Downloader
modENCODE RNA-Seq
Overview
RNA-Seq Similarity
RNA-Seq Profile
RNA-Seq By Region
JBrowse
Submit Data
Fast-Track Your Paper
Submit Personal Communication
Feedback on Gene Snapshots
Downloads
Overview
Current Release
Archived Data
Map Conversion
FTP Site:
Releases (FTP)
Genomes (FTP)
Links
External Resources
Model Organisms (MODs)
Alliance of Genome Resources
BeeBase
DictyBase
EcoCyc
Gramene
MGI
PomBase
Pseudobase
RGD
SGD
TAIR
VectorBase
WormBase
Xenbase
ZFIN
Stock Collections
Bloomington Drosophila Stock Center (BDSC)
FlyORF
Korea Drosophila Resource Center (KDRC)
Kyoto Stock Center
NIG-FLY
Tsinghua Fly Center (THFC)
Vienna Drosophila Resource Center (VDRC)
BDGP
DGRC
DRSC/TRiP
DIS by issue
FlyBook
FlyExpress
Interactive Fly
Virtual Fly Brain
FlyCyc
Community
Fast-Track Your Paper
FlyBase Community
Advisory Group
Fly Lab List
Recent Papers With
Technical Advances
Gene Snapshots
FlyBase Forum
Newsletter
FlySlack Community
Mastodon
Bluesky
X (formerly Twitter)
Fly Board
NIH Funding
Species
Phylogeny
Sequenced Species
Synteny Table
Color Illustrations
About
Release Notes
New In This Release
Release Schedule
FlyBase Positions
Citing FlyBase
FlyBase Licensing
FlyBase Consortium
FlyBase Publications
FlyBase Presentations
Grants Supporting FlyBase
Help
Contact FlyBase
FlyBase Wiki:
Help Index
Tool help
Report help
FlyBase FAQ
Info for Authors
Author guidelines
Citing FlyBase
Fast-Track Your Paper Help
Gene Snapshots
Personal communications
Linking to/from FlyBase
Nomenclature
Curation documentation
Controlled Vocabularies in FlyBase
Gene Model Annotation
Gene Ontology (GO) Annotation
Nontraditional alleles
Vectors & Constructs
New to Flies?
Video Tutorials
Programmatic Access
to FlyBase: APIs, etc.
New Metabolic Pathway reports
Bulk data best practices
Previous
Next
FB2025_02
,
released April 17, 2025
Project: modENCODE_regulation_TFs
J2G
Search
Go
Open
Close
General Information
Name
modENCODE_regulation_TFs
Species
D. melanogaster
Project type
genome binding
FlyBase ID
FBlc0003373
Parent Project
modENCODE_regulation
Data Provider
Title
Genome-wide localization of transcription factors by ChIP-chip and ChIP-Seq.
Accessions
Overview
Description
Project attributes
Biosample type
whole organism
(
Negre et al., 2011
,
MacArthur et al., 2009
,
Li et al., 2008
,
Moses et al., 2006
)
Assay type
ChIP-chip
(
Negre et al., 2011
,
MacArthur et al., 2009
,
Li et al., 2008
,
Moses et al., 2006
)
ChIP-Seq
(
Negre et al., 2011
)
Reagent type
Result type
binding site identification
(
Nègre et al., 2011
,
modENCODE Consortium et al., 2010
)
Key genes
inv
sens
eve
cad
(transgene_used)
Export to HitList
inv
sens
eve
cad
hry
tll
ftz-f1
Trl
sna
twi
shn
da
dl
gt
hkb
kn
sbb
ttk
Med
bab1
hb
Kr
cnc
bcd
Stat92E
disco
ftz
run
zfh1
z
D
kni
jumu
GATAe
Mad
Ubx
en
Dll
prd
chinmo
slp1
(bait_protein)
Export to HitList
GO term(s)
regulation of DNA-templated transcription elongation
(
Nègre et al., 2011
)
SO term(s)
TF_binding_site
Details
Sample preparation
Protocol
Mode of Assay
Data analysis
Comments
Files
Additional Information
Related Datasets
Parent projects (1)
Export to HitList
Project
Type
Title
modENCODE_regulation
umbrella project
Umbrella project for modENCODE studies of transcriptional regulatory elements by the White group.
Biosamples generated (37)
Export to HitList
Biosample
Type
Title
BS_mE2569
whole organism
D. melanogaster, iso-1 strain, embryo (0-4 hr AEL), source for ChIP.
BS_mE2578
whole organism
D. melanogaster, cad-GFP, embryo (4-8 hr AEL), source for ChIP.
BS_mE605
whole organism
D. melanogaster, iso-1 strain, embryo (0-12 hr AEL), source for ChIP.
BS_mE606
whole organism
D. melanogaster, iso-1 strain, embryo (0-12 hr AEL), source for ChIP.
BS_mE609
whole organism
D. melanogaster, iso-1 strain, embryo (0-12 hr AEL), source for ChIP.
BS_mE624
whole organism
D. melanogaster, iso-1 strain, embryo (0-12 hr AEL), source for ChIP.
BS_mE625
whole organism
D. melanogaster, iso-1 strain, embryo (0-12 hr AEL), source for ChIP.
BS_mE626
whole organism
D. melanogaster, iso-1 strain, embryo (0-12 hr AEL), source for ChIP.
BS_mE627
whole organism
D. melanogaster, iso-1 strain, embryo (0-12 hr AEL), source for ChIP.
BS_mE628
whole organism
D. melanogaster, iso-1 strain, embryo (0-12 hr AEL), source for ChIP.
Showing 10 / 37 records. Use
Export to HitList
above to see all
Biosamples reanalyzed (16)
Export to HitList
Result
Type
Title
BS_BDTNP_E11_z_ChIP
whole organism
D. melanogaster, embryo (stage 11), source for chromatin (z ChIP).
BS_BDTNP_E4-5_bcd_ChIP
whole organism
D. melanogaster, embryo (stage 4-5), source for chromatin (bcd ChIP).
BS_BDTNP_E4-5_da_ChIP
whole organism
D. melanogaster, embryo (stage 4-5), source for chromatin (da ChIP).
BS_BDTNP_E4-5_dl_ChIP
whole organism
D. melanogaster, embryo (stage 4-5), source for chromatin (dl ChIP).
BS_BDTNP_E4-5_gt_ChIP
whole organism
D. melanogaster, embryo (stage 4-5), source for chromatin (gt ChIP).
BS_BDTNP_E4-5_hb_ChIP
whole organism
D. melanogaster, embryo (stage 4-5), source for chromatin (hb ChIP).
BS_BDTNP_E4-5_kni_ChIP
whole organism
D. melanogaster, embryo (stage 4-5), source for chromatin (kni ChIP).
BS_BDTNP_E5_ftz_ChIP
whole organism
D. melanogaster, embryo (stage 5), source for chromatin (ftz ChIP).
BS_BDTNP_E5_Mad_ChIP
whole organism
D. melanogaster, embryo (stage 5), source for chromatin (Mad ChIP).
BS_BDTNP_E5_Med_ChIP
whole organism
D. melanogaster, embryo (stage 5), source for chromatin (Med ChIP).
Showing 10 / 16 records. Use
Export to HitList
above to see all
Raw data generated (37)
Export to HitList
Assay
Type
Title
ChIP-chip_mE2570_cad_E1-9
ChIP-chip
ChIP-chip of cad in D. melanogaster, iso-1 strain, embryo (0-4 hr AEL).
ChIP-chip_mE2571_Dichaete_E1-12
ChIP-chip
ChIP-chip of Dichaete in D. melanogaster, iso-1 strain, embryo (0-8 hr AEL).
ChIP-chip_mE2572_disco_E1-12
ChIP-chip
ChIP-chip of disco in D. melanogaster, iso-1 strain, embryo (0-8 hr AEL).
ChIP-chip_mE2578_cad_E9-12
ChIP-chip
ChIP-chip of cad in D. melanogaster, cad-GFP, embryo (4-8 hr AEL).
ChIP-chip_mE606_Dll_E1-15
ChIP-chip
ChIP-chip of Dll in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL).
ChIP-chip_mE625_en_E1-15
ChIP-chip
ChIP-chip of en in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL).
ChIP-chip_mE626_Dichaete_E1-15
ChIP-chip
ChIP-chip of Dichaete in D. melanogaster, iso-1 strain, embryo (0-12 hr AEL).
ChIP-chip_mE902_cad_E1-9
ChIP-chip
ChIP-chip of cad in D. melanogaster, cad-GFP, embryo (0-4 hr AEL).
ChIP-Seq_mE2626_cad_E1-9
ChIP-Seq
ChIP-Seq of cad in D. melanogaster, cad-GFP, embryo (0-4 hr AEL).
ChIP-Seq_mE2637_cad_E9-12
ChIP-Seq
ChIP-Seq of cad in D. melanogaster, cad-GFP, embryo (4-8 hr AEL).
Showing 10 / 37 records. Use
Export to HitList
above to see all
Raw data reanalyzed (16)
Export to HitList
Assay
Type
Title
ChIP-chip_BDTNP_bcd_E4-5
ChIP-chip
ChIP-chip of bcd in D. melanogaster, embryo (stage 4-5).
ChIP-chip_BDTNP_da_E4-5
ChIP-chip
ChIP-chip of da in D. melanogaster, embryo (stage 4-5).
ChIP-chip_BDTNP_dl_E4-5
ChIP-chip
ChIP-chip of dorsal in D. melanogaster, embryo (stage 4-5).
ChIP-chip_BDTNP_ftz_E5
ChIP-chip
ChIP-chip of ftz in D. melanogaster, embryo (stage 5).
ChIP-chip_BDTNP_gt_E4-5
ChIP-chip
ChIP-chip of gt in D. melanogaster, embryo (stage 4-5).
ChIP-chip_BDTNP_hb_E4-5
ChIP-chip
ChIP-chip of hb in D. melanogaster, embryo (stage 4-5).
ChIP-chip_BDTNP_kni_E4-5
ChIP-chip
ChIP-chip of kni in D. melanogaster, embryo (stage 4-5).
ChIP-chip_BDTNP_Mad_E5
ChIP-chip
ChIP-chip of Mad in D. melanogaster, embryo (stage 5).
ChIP-chip_BDTNP_Med_E5
ChIP-chip
ChIP-chip of Med in D. melanogaster, embryo (stage 5).
ChIP-chip_BDTNP_z_E11
ChIP-chip
ChIP-chip of zeste in D. melanogaster, embryo (stage 11).
Showing 10 / 16 records. Use
Export to HitList
above to see all
Processed data (26)
Export to HitList
Result
Type
Title
mE1_TFBS_bab1
binding site identification
bab1 binding sites (peak calls) identified by ChIP-chip in embryos.
mE1_TFBS_cad
binding site identification
cad binding sites (peak calls) identified by ChIP-chip and ChIP-Seq in embryos.
mE1_TFBS_chinmo
binding site identification
chinmo binding sites (peak calls) identified by ChIP-chip in embryos.
mE1_TFBS_cnc
binding site identification
cnc binding sites (peak calls) identified by ChIP-chip in embryos.
mE1_TFBS_D
binding site identification
Dichaete binding sites (peak calls) identified by ChIP-chip in embryos.
mE1_TFBS_disco
binding site identification
disco binding sites (peak calls) identified by ChIP-chip in embryos.
mE1_TFBS_Dll
binding site identification
Dll binding sites (peak calls) identified by ChIP-chip in embryos.
mE1_TFBS_en
binding site identification
en binding sites (peak calls) identified by ChIP-chip in embryos.
mE1_TFBS_eve
binding site identification
eve binding sites (peak calls) identified by ChIP-chip in embryos.
mE1_TFBS_HSA
binding site identification
Transcription factor hot spots (high occupancy sites) identified by ChIP of 41 factors in embryos.
Showing 10 / 26 records. Use
Export to HitList
above to see all
Synonyms and Secondary IDs (2)
Reported As
Symbol Synonym
modENCODE_regulation_TFs
Name Synonyms
Genome-wide localization of transcription factors by ChIP-chip and ChIP-Seq.
(
Nègre et al., 2011
)
Secondary FlyBase IDs
References (4)
Report Sections
Open
Close
General Information
Overview
Details
Related Datasets
Synonyms and Secondary IDs
References