Data from: Natural epigenetic polymorphisms lead to intraspecific variation in Arabidopsis gene imprinting

Gehring M, Pignatta D, Erdmann RM, Bell GW, Scheer E

Date Published: July 9, 2014

DOI: http://dx.doi.org/10.5061/dryad.gv536.2

 

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Title Normalized small RNA read counts from whole seeds
Downloaded 51 times
Description Normalized reads per million (RPM) values in 300 bp windows across the entire A. thaliana genome for 21-24 nucleotide small RNAs from ColxCol, LerxLer, CvixCvi, ColxLer, LerxCol, CvixCol and ColxCvi whole seeds 6 days after pollination.
Download norm.s.txt.sRNAfiles.tar.gz (46.67 Mb)
Download README.txt (4.613 Kb)
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Title Allele-specific classification of small RNAs from whole seeds
Downloaded 29 times
Description Small RNAs overlapping Col-Cvi or Col-Ler SNPs were classified according to strain origin from ColxCol, LerxLer, CvixCvi, ColxLer, LerxCol, ColxCvi and CvixCol whole seeds 6 days after pollination.
Download SNP_counts.txt.sRNAfiles.tar.gz (4.346 Mb)
Download README.txt (4.613 Kb)
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Title Mean methylation in Arabidopsis embryo and endosperm
Downloaded 33 times
Description Mean methylation in overlapping 300 bp windows for embryo and endosperm from ColxCol, LerxLer, CvixCvi, CvixCol, ColxCvi, LerxCvi, and CvixLer seeds dissected 6 days after pollination. CG, CHG, and CHH methylation are quantified in separate files.
Download window.mean.tar.gz (112.8 Mb)
Download README.txt (1.326 Kb)
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Title Weighted methylation in Arabidopsis embryo and endosperm
Downloaded 28 times
Description Weighted methylation values in 300 nt windows for Arabidopsis embryo and endosperm from ColxCol, LerxLer, CvixCvi, ColxCvi, CvixCol, LerxCvi, and CvixLer seeds dissected 6 days after pollination.
Download weighted_summary.tar.gz (125.4 Mb)
Download README.txt (1.326 Kb)
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Title mRNA-seq read counts for Arabidopsis embryo and endosperm
Downloaded 37 times
Description Total and allele-specific mRNA-seq read counts, along with FPKM values, are quantified for genes and TEs from embryo and endosperm tissue from ColxCol, LerxLer, CvixCvi, ColxLer, LerxCol, ColxCvi, CvixCol, LerxCvi and CvixLer seeds dissected 6 days after pollination, along with whole seeds from ColxCvi and CvixCol.
Download README.txt (3.855 Kb)
Download stats_per_locus.tar.gz (11.59 Mb)
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Title Allele-specific mRNA SNP counts for Arabidopsis embryo and endosperm
Downloaded 23 times
Description The number of mRNA-seq reads matching each Col-Ler, Col-Cvi, or Ler-Cvi SNP is reported for data from ColxLer, LerxCol, ColxCvi, CvixCol, LerxCvi, and CvixLer embryo and endosperm dissected 6 days after pollination, along with ColxCvi and CvixCol whole seeds.
Download README.txt (3.855 Kb)
Download snp_counts.tar.gz (16.03 Mb)
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When using this data, please cite the original publication:

Pignatta D, Erdmann RM, Scheer E, Picard CL, Bell GW, Gehring M (2014) Natural epigenetic polymorphisms lead to intraspecific variation in Arabidopsis gene imprinting. eLife, online in advance of print. http://dx.doi.org/10.7554/eLife.03198

Additionally, please cite the Dryad data package:

Gehring M, Pignatta D, Erdmann RM, Bell GW, Scheer E (2014) Data from: Natural epigenetic polymorphisms lead to intraspecific variation in Arabidopsis gene imprinting. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.gv536.2
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