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Differential Replication of Polytene Chromosomes

experiment: Differential Replication of Polytene Chromosomes project: Origins of Replication PI: David MacAlpine Labs: Terry Orr-Weaver
Most terminally differentiated Drosophila tissues are either polyploid or polytene. Unlike normal chromosomes, where the entire chromosome must be replicated exactly once, polytene chromosomes are often differentially replicated with many regions underreplicated and some overreplicated. We will characterize five different polytene tissues using comparative genomic hybridization (CGH) to identify differentially replicated regions of each chromosome. These studies will also identify tissue specific amplicons, where the replication mediated amplification of specific loci is essential for up-regulation of mRNA levels encoding proteins critical for development. The differential replication of polytene chromosomes in Drosophila will provide a unique opportunity to understand how developmental cues and chromosomal domains influence replication initiation.

All features generated by this experiment:
Feature Export
CopyNumberVariation ? 149 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 7 and tiling array:DNA submissions for this experiment:
DCC id Name developmental stage strain tissue Embargoed until Features, GBrowse and Data Files
modENCODE_5521

CGH-Adult malpigian tubules-Orr-Weaver Malpighian tubules [ALL]
embargo expired
GBrowse tracks: Adult_Malpigiantubules
GEO: GSM942055
GEO: GSM942056


4 files Download data files
modENCODE_2544

CGH Salivary Y cn bw sp Salivary gland [ALL]
embargo expired
? CopyNumberVariation: 73   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Follicle_OregonR-Orr-Weaver


8 files Download data files
modENCODE_5522

CGH-Adult fat body-Orr-Weaver Fat body [ALL]
embargo expired
GBrowse tracks: Adult_Fatbody
GEO: GSM942057
GEO: GSM942058


3 files Download data files
modENCODE_2545

CGH Salivary OregonR-Orr-Weaver Salivary gland [ALL]
embargo expired
? CopyNumberVariation: 65   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Salivary_OregonR-Orr-Weaver


12 files Download data files
modENCODE_2384

CGH Follicle OregonR-mod Adult female eclosion+1 day [ALL]
Oregon-R-modENCODE [ALL]
Whole organism [ALL]
16C follicle cells [ALL]
embargo expired
? CopyNumberVariation: 5   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Follicle_OregonR_mod


12 files Download data files
modENCODE_5520

CGH-Adult Midgut-Orr-Weaver Midgut-Female [ALL]
embargo expired
GBrowse tracks: Adult_Midgut
GEO: GSM942053
GEO: GSM942054


4 files Download data files
modENCODE_2385

CGH Follicle Cells Orr-Weaver Adult female eclosion+1 day [ALL]
Oregon-R Orr-Weaver [ALL]
Whole organism [ALL]
16C follicle cells [ALL]
embargo expired
? CopyNumberVariation: 6   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: Salivary_Y_cn_bw_sp


8 files Download data files