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Series GSE129997 Query DataSets for GSE129997
Status Public on Nov 27, 2019
Title Re-configuration of Chromatin Structure During the Mitosis-G1 Phase Progression
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Other
Summary Chromatin architecture is temporarily disrupted during mitosis. Yet, how chromatin architecture is reconfigured during M-G1 phase transition is unknown. To examine this, we performed Hi-C experiments on cell populations at defined cell cycle stages between mitosis and G1 phase.
 
Overall design Uninduced G1E-ER4 (-GATA1) cells were synchronized to pro-metaphase with nocodazole treatment and was released from nocodazole for a variety of durations. Cells at different cell cycle stages were purified with FACS. Hi-C experiments were performed on purified populations to examine chromatin structure at designated cell cycle stage.
 
Contributor(s) Zhang H, Emerson DJ, Gilgenast TG, Titus KR, Lan Y, Blobel GA, Philips-Cremins JE
Citation(s) 31776509
Submission date Apr 17, 2019
Last update date Dec 09, 2019
Contact name Gerd A Blobel
E-mail(s) blobel@email.chop.edu
Organization name University of Pennsylvania Children's Hospital of Philadelphia
Department Pediatrics/Hematology
Street address 3615 Civic Center Blvd, ARC 315
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (75)
GSM3729077 Capture-C-prometa-rep1
GSM3729078 Capture-C-ana.telo-rep1
GSM3729079 Capture-C-early-G1-rep1
Relations
BioProject PRJNA533460
SRA SRP192917

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE129997_CTCF_anatelo.bw 247.8 Mb (ftp)(http) BW
GSE129997_CTCF_anatelo.narrowPeak.gz 812.7 Kb (ftp)(http) NARROWPEAK
GSE129997_CTCF_asyn.bw 246.5 Mb (ftp)(http) BW
GSE129997_CTCF_asyn.narrowPeak.gz 865.5 Kb (ftp)(http) NARROWPEAK
GSE129997_CTCF_earlyG1.bw 249.3 Mb (ftp)(http) BW
GSE129997_CTCF_earlyG1.narrowPeak.gz 828.9 Kb (ftp)(http) NARROWPEAK
GSE129997_CTCF_lateG1.bw 251.2 Mb (ftp)(http) BW
GSE129997_CTCF_lateG1.narrowPeak.gz 816.6 Kb (ftp)(http) NARROWPEAK
GSE129997_CTCF_midG1.bw 246.8 Mb (ftp)(http) BW
GSE129997_CTCF_midG1.narrowPeak.gz 892.3 Kb (ftp)(http) NARROWPEAK
GSE129997_CTCF_prometa.bw 249.5 Mb (ftp)(http) BW
GSE129997_CTCF_prometa.narrowPeak.gz 264.0 Kb (ftp)(http) NARROWPEAK
GSE129997_Rad21_anatelo.bw 288.8 Mb (ftp)(http) BW
GSE129997_Rad21_anatelo.narrowPeak.gz 166.5 Kb (ftp)(http) NARROWPEAK
GSE129997_Rad21_asyn.bw 291.9 Mb (ftp)(http) BW
GSE129997_Rad21_asyn.narrowPeak.gz 321.4 Kb (ftp)(http) NARROWPEAK
GSE129997_Rad21_earlyG1.bw 292.3 Mb (ftp)(http) BW
GSE129997_Rad21_earlyG1.narrowPeak.gz 190.4 Kb (ftp)(http) NARROWPEAK
GSE129997_Rad21_lateG1.bw 292.6 Mb (ftp)(http) BW
GSE129997_Rad21_lateG1.narrowPeak.gz 457.0 Kb (ftp)(http) NARROWPEAK
GSE129997_Rad21_midG1.bw 289.9 Mb (ftp)(http) BW
GSE129997_Rad21_midG1.narrowPeak.gz 368.9 Kb (ftp)(http) NARROWPEAK
GSE129997_Rad21_prometa.bw 271.1 Mb (ftp)(http) BW
GSE129997_Rad21_prometa.narrowPeak.gz 11.1 Kb (ftp)(http) NARROWPEAK
GSE129997_WT_Pol2_Noc0h.bw 49.0 Mb (ftp)(http) BW
GSE129997_WT_Pol2_Noc1h.bw 417.5 Mb (ftp)(http) BW
GSE129997_WT_Pol2_Noc25min.bw 298.9 Mb (ftp)(http) BW
GSE129997_WT_Pol2_Noc2h.bw 373.6 Mb (ftp)(http) BW
GSE129997_WT_Pol2_Noc4h.bw 518.7 Mb (ftp)(http) BW
GSE129997_anatelo_domains.bed.gz 28.2 Kb (ftp)(http) BED
GSE129997_anatelo_horizontal_stripes.tsv.gz 7.8 Kb (ftp)(http) TSV
GSE129997_anatelo_kr_intrachromosomal_contact_matrices.tar.gz 1.4 Gb (ftp)(http) TAR
GSE129997_anatelo_loops.tsv.gz 57.6 Kb (ftp)(http) TSV
GSE129997_anatelo_qnorm_intrachromosomal_contact_matrices.tar.gz 522.3 Mb (ftp)(http) TAR
GSE129997_anatelo_raw_intrachromosomal_contact_matrices.tar.gz 539.5 Mb (ftp)(http) TAR
GSE129997_anatelo_vertical_stripes.tsv.gz 8.1 Kb (ftp)(http) TSV
GSE129997_capture_c_commd3_locus_commd3_mutant_anateo_merged.bedGraph.gz 168.4 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_commd3_locus_commd3_mutant_early_g1_merged.bedGraph.gz 129.6 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_commd3_locus_commd3_mutant_mid_g1_merged.bedGraph.gz 114.9 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_commd3_locus_commd3_mutant_prometa_merged.bedGraph.gz 172.5 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_commd3_locus_wt_ana.telo_merged.bedgraph.gz 375.2 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_commd3_locus_wt_early_G1_merged.bedgraph.gz 325.1 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_commd3_locus_wt_mid_G1_merged.bedgraph.gz 351.1 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_commd3_locus_wt_pro_meta_merged.bedgraph.gz 354.9 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_fast_structural_loop_wt_ana.telo_merged.bedgraph.gz 434.4 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_fast_structural_loop_wt_early_G1_merged.bedgraph.gz 299.0 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_fast_structural_loop_wt_mid_G1_merged.bedgraph.gz 294.7 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_fast_structural_loop_wt_pro_meta_merged.bedgraph.gz 407.0 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_morc3_locus_wt_ana.telo_merged.bedgraph.gz 201.6 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_morc3_locus_wt_early_G1_merged.bedgraph.gz 170.3 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_morc3_locus_wt_mid_G1_merged.bedgraph.gz 185.3 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_morc3_locus_wt_pro_meta_merged.bedgraph.gz 183.3 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_pde12_locus_wt_ana.telo_merged.bedgraph.gz 301.6 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_pde12_locus_wt_early_G1_merged.bedgraph.gz 273.6 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_pde12_locus_wt_mid_G1_merged.bedgraph.gz 270.5 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_pde12_locus_wt_pro_meta_merged.bedgraph.gz 284.5 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_slow_structural_loop_wt_ana.telo_merged.bedgraph.gz 257.7 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_slow_structural_loop_wt_early_G1_merged.bedgraph.gz 251.3 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_slow_structural_loop_wt_mid_G1_merged.bedgraph.gz 232.1 Kb (ftp)(http) BEDGRAPH
GSE129997_capture_c_slow_structural_loop_wt_pro_meta_merged.bedgraph.gz 250.7 Kb (ftp)(http) BEDGRAPH
GSE129997_earlyG1_domains.bed.gz 45.1 Kb (ftp)(http) BED
GSE129997_earlyG1_horizontal_stripes.tsv.gz 44.2 Kb (ftp)(http) TSV
GSE129997_earlyG1_kr_intrachromosomal_contact_matrices.tar.gz 1.3 Gb (ftp)(http) TAR
GSE129997_earlyG1_loops.tsv.gz 423.2 Kb (ftp)(http) TSV
GSE129997_earlyG1_qnorm_intrachromosomal_contact_matrices.tar.gz 494.2 Mb (ftp)(http) TAR
GSE129997_earlyG1_raw_intrachromosomal_contact_matrices.tar.gz 477.4 Mb (ftp)(http) TAR
GSE129997_earlyG1_vertical_stripes.tsv.gz 44.0 Kb (ftp)(http) TSV
GSE129997_lateG1_domains.bed.gz 52.9 Kb (ftp)(http) BED
GSE129997_lateG1_horizontal_stripes.tsv.gz 44.3 Kb (ftp)(http) TSV
GSE129997_lateG1_kr_intrachromosomal_contact_matrices.tar.gz 989.9 Mb (ftp)(http) TAR
GSE129997_lateG1_loops.tsv.gz 674.7 Kb (ftp)(http) TSV
GSE129997_lateG1_qnorm_intrachromosomal_contact_matrices.tar.gz 460.7 Mb (ftp)(http) TAR
GSE129997_lateG1_raw_intrachromosomal_contact_matrices.tar.gz 369.0 Mb (ftp)(http) TAR
GSE129997_lateG1_vertical_stripes.tsv.gz 44.2 Kb (ftp)(http) TSV
GSE129997_midG1_domains.bed.gz 50.0 Kb (ftp)(http) BED
GSE129997_midG1_horizontal_stripes.tsv.gz 44.4 Kb (ftp)(http) TSV
GSE129997_midG1_kr_intrachromosomal_contact_matrices.tar.gz 1.1 Gb (ftp)(http) TAR
GSE129997_midG1_loops.tsv.gz 580.2 Kb (ftp)(http) TSV
GSE129997_midG1_qnorm_intrachromosomal_contact_matrices.tar.gz 471.4 Mb (ftp)(http) TAR
GSE129997_midG1_raw_intrachromosomal_contact_matrices.tar.gz 415.2 Mb (ftp)(http) TAR
GSE129997_midG1_vertical_stripes.tsv.gz 44.3 Kb (ftp)(http) TSV
GSE129997_prometa_domains.bed.gz 13.9 Kb (ftp)(http) BED
GSE129997_prometa_horizontal_stripes.tsv.gz 1.1 Kb (ftp)(http) TSV
GSE129997_prometa_kr_intrachromosomal_contact_matrices.tar.gz 1.4 Gb (ftp)(http) TAR
GSE129997_prometa_loops.tsv.gz 5.8 Kb (ftp)(http) TSV
GSE129997_prometa_qnorm_intrachromosomal_contact_matrices.tar.gz 532.3 Mb (ftp)(http) TAR
GSE129997_prometa_raw_intrachromosomal_contact_matrices.tar.gz 514.1 Mb (ftp)(http) TAR
GSE129997_prometa_vertical_stripes.tsv.gz 1.3 Kb (ftp)(http) TSV
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