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Genome-wide localization of essential replication initiators

experiment: Genome-wide localization of essential replication initiators project: Origins of Replication PI: David MacAlpine Labs: David MacAlpine, Terry Orr-Weaver
We will precisely identify sequence elements that direct DNA replication by using chromatin immunoprecipitation of known replication initiation complexes. These experiments will be conducted in multiple cell types and developmental tissues.

All features generated by this experiment:
Feature Export
ProteinBindingSite ? 244702
This represents 210743 unique ProteinBindingSites
TAB CSV GFF3 (for UCSC) SEQ
All GBrowse tracks generated for this experiment:
GBrowse tracks: by chromosome
All entries in public repositories generated by this experiment
There are 14 ChIP-seq submissions for this experiment:
DCC id Name developmental stage antibody cell line read length strain tissue Embargoed until Features, GBrowse and Data Files
modENCODE_3628

0-2hr Embryo ORC Chip-Seq dORC2 [ALL]
target: Origin recognition complex subunit 2
36 base pairs [ALL]
embargo expired GEO: GSM938099
GEO: GSM938100
GEO: GSM938101


6 files Download data files
modENCODE_3625

0-2hr Embryo PolII Chip-Seq Ab:RNA_Poll_II_(Upstate_05-623):DM:1&oldid=34910 [ALL]
36 base pairs [ALL]
embargo expired
? ProteinBindingSite: 9586   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
0-2hr-PolII_56.bed.gff3: 3569   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
0-2hr-PolII_55.bed.gff3: 3805   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
0-2hr-PolII.bed.gff3: 2212   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GEO: GSM938097
GEO: GSM938098


8 files Download data files
modENCODE_2979

MCM S2 July 2010 Ab:MCM2-7:DM:1&oldid=33565 [ALL]
S2-DRSC [ALL]
36 base pairs [ALL]
embargo expired
? ProteinBindingSite: 23841   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
S2_MCM_22.bed.gff3: 9668   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
S2_MCM.bed.gff3: 5726   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
S2_MCM_44.bed.gff3: 8447   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: S2_DRSC_MCM_2_7
GEO: GSM694120
GEO: GSM694121
GEO: GSM694122


9 files Download data files
modENCODE_2783

MCM KC ChIP-Seq Pan MCM2-7 Antibody [ALL] /
target: MCM2-7 complex
embargo expired
? ProteinBindingSite: 26261   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
KC_MCM.bed.gff3: 7029   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
KC_MCM_26.bed.gff3: 10679   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
KC_MCM_27.bed.gff3: 8553   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Kc167_MCM_2_7


9 files Download data files
modENCODE_2755


Related to: modENCODE_3388

Orc2 KC ChIP-Seq dORC2 [ALL]
target: Origin recognition complex subunit 2
embargo expired
? ProteinBindingSite: 20722   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
KC_1.bed.gff3: 8970   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
KC_12.bed.gff3: 6593   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
KC.bed.gff3: 5159   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Kc167_dOrc2


9 files Download data files
modENCODE_2754


Related to: modENCODE_3388

Orc2 BG3 ChIP-Seq dORC2 [ALL]
target: Origin recognition complex subunit 2
embargo expired
? ProteinBindingSite: 18876   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
BG3_7.bed.gff3: 8494   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
BG3_13.bed.gff3: 5905   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
BG3.bed.gff3: 4477   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: BG3_dOrc2


9 files Download data files
modENCODE_4352

Cl8-PolII ChipSeq Ab:RNA_Poll_II_(Upstate_05-623):DM:1&oldid=34910 [ALL]
embargo expired
? ProteinBindingSite: 19401   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Cl8-PolII.bed.gff3: 5508   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Cl8-PolII_70.bed.gff3: 6981   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Cl8-PolII_61.bed.gff3: 6912   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: PolIICl8ChIP-Seq
GEO: GSM945561
GEO: GSM945562
GEO: GSM945563


9 files Download data files
modENCODE_4193

4-7hr PolII ChIPSeq Ab:RNA_Poll_II_(Upstate_05-623):DM:1&oldid=34910 [ALL]
36 base pairs [ALL]
embargo expired
? ProteinBindingSite: 18759   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
4-7hr-PolII-PS51.bed.gff: 7321   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
4-7hr-PolII-PS50.bed.gff: 3250   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
4-7hr-PolII.bed.gff: 4094   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
4-7hr-PolII-PS63.bed.gff: 4094   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


12 files Download data files
modENCODE_4351

Cl8-ORC ChIP-Seq dORC2 [ALL]
target: Origin recognition complex subunit 2
CME W1 Cl.8+ [ALL]
36 base pairs [ALL]
embargo expired
? ProteinBindingSite: 40821   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Cl8-ORC_67.bed.gff3: 9355   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Cl8-ORC_66.bed.gff3: 10839   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Cl8-ORC.bed.gff3: 5368   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Cl8-ORC_59.bed.gff3: 6786   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Cl8-ORC_68.bed.gff3: 8473   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: ORC2Cl8ChIP-Seq
GEO: GSM945556
GEO: GSM945557
GEO: GSM945558
GEO: GSM945559
GEO: GSM945560


15 files Download data files
modENCODE_3253

SG Orc ChIP-Seq L3 stage wandering larvae [ALL]
Ab:dORC2:DM:1&oldid=34913 [ALL]
36 base pairs [ALL]
Oregon-R-modENCODE [ALL]
SuUR [ALL]
salivary glands [ALL]
embargo expired
? ProteinBindingSite: 25455   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
SG_ORC.bed.gff3: 6587   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
SG_ORC_49.bed.gff3: 10621   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
SG_ORC_48.bed.gff3: 8247   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GEO: GSM694132
GEO: GSM694133
GEO: GSM694134
GEO: GSM694135


10 files Download data files
modENCODE_4192

4-7hr ORC ChIPSeq Embryo 4-7 h [ALL]
Ab:dORC2:DM:1&oldid=34913 [ALL]
36 base pairs [ALL]
Oregon-R-modENCODE [ALL]
embargo expired GEO: GSM881216
GEO: GSM881217
GEO: GSM881218
GEO: GSM881219


8 files Download data files
modENCODE_3251

0-24h Embryo PolII ChIP-Seq Ab:RNA_Poll_II_(Upstate_05-623):DM:1&oldid=34910 [ALL]
36 base pairs [ALL]
embargo expired
? ProteinBindingSite: 19001   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
ON_PolII_53.bed.gff3: 5763   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
ON_PolII_54.bed.gff3: 8872   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
ON_PolII.bed.gff3: 4366   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GEO: GSM694128
GEO: GSM694129
GEO: GSM694130
GEO: GSM694131


10 files Download data files
modENCODE_2753


Related to: modENCODE_3388

Orc2 S2 ChIP-Seq dORC2 [ALL]
target: Origin recognition complex subunit 2
embargo expired
? ProteinBindingSite: 18453   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
1_S2_6.bed.gff3: 4554   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
S2_2.bed.gff3: 6834   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
S2.bed.gff3: 4230   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
S2_6.bed.gff3: 2835   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: S2_dOrc2


10 files Download data files
modENCODE_3247

24h Embryo Orc ChIP-Seq Ab:dORC2:DM:1&oldid=34913 [ALL]
36 base pairs [ALL]
embargo expired
? ProteinBindingSite: 3526   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
ON_ORC_45.bed.gff3: 1386   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
ON_ORC_46.bed.gff3: 1600   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
ON_ORC.bed.gff3: 540   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GEO: GSM694124
GEO: GSM694125
GEO: GSM694126
GEO: GSM694127


10 files Download data files