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| Status |
Public on Jul 23, 2018 |
| Title |
Distribution of histone modifications across the genome in C. elegans sperm vs. oocytes vs. early embryos |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Third-party reanalysis
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| Summary |
Here we report that the Caenorhabditis elegans sperm genome is packaged in nucleosomes and carries a histone-based epigenetic memory of genes with spermatogenesis-restricted expression and surprisingly genes with oogenesis-enriched expression as well. In sperm, spermatogenesis genes are uniquely marked with both active and repressive marks, which may reflect a sperm-specific chromatin signature.
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| Overall design |
Examination of three histone modifications in 2 replicate samples of C. elegans sperm, oocytes, and early embryos
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| Contributor(s) |
Tabuchi TM, Rechtsteiner A, Strome S, Jeffers TE, Murphy CT |
| Citation(s) |
30333496 |
| Submission date |
Jun 12, 2018 |
| Last update date |
Oct 22, 2018 |
| Contact name |
Susan Strome |
| E-mail(s) |
sstrome@ucsc.edu
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| Organization name |
UC Santa Cruz
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| Department |
MCD Biology
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| Street address |
1156 High St
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| City |
Santa Cruz |
| State/province |
CA |
| ZIP/Postal code |
95064 |
| Country |
USA |
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| Platforms (2) |
| GPL9309 |
Illumina Genome Analyzer (Caenorhabditis elegans) |
| GPL13657 |
Illumina HiSeq 2000 (Caenorhabditis elegans) |
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| Samples (19)
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| GSM3187953 |
H3K27me3 sperm ChIP, rep2 |
| GSM3187954 |
H3K36me3 oocyte ChIP, rep1 |
| GSM3187955 |
H3K36me3 oocyte ChIP, rep2 |
| GSM3187956 |
H3K36me3 sperm ChIP, rep1 |
| GSM3187957 |
H3K36me3 sperm ChIP, rep2 |
| GSM3187958 |
H3K4me3 early embryo ChIP, rep2 |
| GSM3187959 |
H3K4me3 oocyte ChIP, rep1 |
| GSM3187960 |
H3K4me3 oocyte ChIP, rep2 |
| GSM3187961 |
H3K4me3 sperm ChIP, rep1 |
| GSM3187962 |
H3K4me3 sperm ChIP, rep2 |
| GSM3187963 |
Early embryo input, rep1 |
| GSM3187964 |
Early embryo input, rep2 |
| GSM3187965 |
Oocyte input, rep1 |
| GSM3187966 |
Oocyte input, rep2 |
| GSM3187967 |
Sperm input, rep1 |
| GSM3187968 |
Sperm input, rep2 |
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| This SubSeries is part of SuperSeries: |
| GSE115709 |
Epigenome of C. elegans sperm, oocytes, and early embryos (MNase-seq, ChIP-seq, RNA-seq) |
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| Relations |
| Reanalysis of |
GSM1206367 |
| Reanalysis of |
GSM1206366 |
| Reanalysis of |
GSM1217269 |
| Reanalysis of |
GSM1217270 |
| Reanalysis of |
GSM1206370 |
| BioProject |
PRJNA475794 |
| SRA |
SRP150368 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE115704_GSM1206366_H3K27me3.Eembryo14A.rep2.BC117_scaled.10Mil.Autos.bw |
66.5 Mb |
(ftp)(http) |
BW |
| GSE115704_GSM1206367_H3K27me3.Eembryo13.2A.rep1.BC123_scaled.10Mil.Autos.bw |
63.2 Mb |
(ftp)(http) |
BW |
| GSE115704_GSM1206370_H3K4me3.Eembryo13.1A.rep1.BC127_scaled.10Mil.Autos.bw |
17.7 Mb |
(ftp)(http) |
BW |
| GSE115704_GSM1217269_H3K36me3.Eembryo13.2A.rep1.BC126_scaled.10Mil.Autos.bw |
73.2 Mb |
(ftp)(http) |
BW |
| GSE115704_GSM1217270_H3K36me3.Eembryo14A.rep2_s_6_sequence_scaled.10Mil.Autos.bw |
45.5 Mb |
(ftp)(http) |
BW |
| GSE115704_RAW.tar |
2.0 Gb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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