FILES FOR VIEWING COVERAGE OF PUBLISHED CHIP-SEQ AND ATAC-SEQ DATASETS

All data are mapped only to the canonical chromosome assemblies in genome version dm6. Chromosome names are UCSC compatible (with a 'chr' prefix). See below for links to display selected datasets directly on UCSC. 

Processed data from GEO accession GSE62925

The link above will take you to the lab's github repository for this project where .bigwig formatted files summarizing our published Pol2 ChIP seq data can be downloaded and used in a genome browser of your choice. Data include wild-type NC12-NC14 timepoints (NC12, NC13, NC14-early, -middle, -late), as well as Pol2 in zelda germline clones staged at NC13. 

Processed data from GEO accession GSE83851

The link above will take you to the lab's github repository for this project where .bigwig formatted files summarizing our published syncytial blastoderm ATAC timecourse data can be downloaded and used in a genome browser of your choice. Data represent 'open' ATAC (<100 bp) reads from single wild-type embryos collected at three minute intervals from NC11-13. 

Processed data from GEO accession GSE141538

The link above will take you to the lab's github repository for this project where .bigwig formatted files summarizing our published comparison between wild-type and patternless (bcd osk cic tsl Tl[RM9]) embryos during the period spanning ZGA and gastrulation can be downloaded and used in a genome browser of your choice. Data represent 'open' ATAC (<100 bp) reads from single embryos collected either at NC14 + 12 minutes (ZGA) or NC14 + 72 minutes (Gastrulation). 

Processed data from GEO accession GSE86966

The link above will take you to the lab's github repository for this project where .bigwig formatted files summarizing the published comparison between graded and uniform Bicoid can be downloaded and used in genome browser of your choice. These data have been re-mapped to the dm6 version of the genome. 

Processed data from GEO accession GSE86966

The link above will take you to the lab's github repository for this project where .bigwig formatted files summarizing the published comparison between wild-type, bicoid, and zelda mutant embryos can be downloaded and used in a genome browser of your choice. These data have been re-mapped to the dm6 version of the genome. Data represent "open" ATAC (<100 bp) reads from single embryos collected at NC14 + 12 minutes. 

 

LINKS TO DISPLAY ON UCSC

The links below should display the indicated datasets on the UCSC genome browser. If you click on one and subsequently click on another, it should show both. But please keep in mind that some of these display many tracks at once and may tax both local and remote resources.

Screenshot_ATAC_NC11-13_timecourse_summary.png

One selected timepoint per nuclear cycle excerpted from the full dataset (less bewildering than the full timecourse)

Screenshot_ATAC_wt_vs_patternless.png

Four tracks, two genotypes, two timepoints