Additional file 8: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

Figure S8 Heatmap of H3K4me3 levels for genes with tissue-enriched expression. Heatmap displaying the levels of H3K4me3 for genes with SOM-enriched expression or IGN-enriched expression, as assayed by IGN H3K4me3 ChIP-seq and SOM H3K4me3 ChIP-seq. (PDF 3310 kb

Additional file 9: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

Table S1 Quantification of fraction of germline nuclei (DOCX 14 kb

Additional file 6: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

Figure S6 Analysis of Intron reads for IGN RNA-seq and SOM RNA-seq. (A) The percentage of intron reads (reads that overlap with introns or fully located in introns) for indicated RNA-seq samples. (B) Smoothed scatter plot showing the TP10M value of intron reads for each gene in IGN and SOM samples. TP10M values were calculated by the sum of intronic reads for each gene, then normalized to 10 million mapped reads. (PDF 1629 kb

Additional file 2: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

Figure S2 A small fraction of sperm are present in total isolated germline nuclei. Isolated total nuclei from young adult pie-1p::GFP::H2B transgenic worms. Nuclei were immunostained with GFP (green) and stained with DAPI (Blue). Arrows indicate two non-GFP stained nuclei with characteristics of sperm. Scale bar, 5 μm. (PDF 4083 kb

Additional file 10: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

IGN and soma RNA-seq expression analysis (XLSX 4868 kb

Additional file 5: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

Figure S5 GO analysis of genes present exclusively in the dissected gonad dataset. Eighteen of the most significant Gene Ontology Biological Process terms for the 6606 transcripts present exclusively in the dissected gonad [23] when compared to the IGN dataset in Fig. 3e. (PDF 862 kb

Additional file 14: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

IGN_H3K4me3_q0.001_peaks_ce10 (XLSX 3928 kb

Additional file 13: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

SOM_H3K27ac_q0.001_peaks_ce10 (XLSX 5600 kb

Additional file 15: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

SOM_H3K4me3_q0.001_peaks_ce10 (XLSX 4603 kb

Additional file 7: of Isolated C. elegans germ nuclei exhibit distinct genomic profiles of histone modification and gene expression

Figure S7 Confirmation of germline-enriched H3K27ac modification in isolated germ nuclei by ChIP-qPCR. Two previously characterized germline-expressed (him-3 and oef-1) and soma-expressed genes (elt-2 and myo-3) were examined for abundance of H3K27ac in IGN by ChIP-qPCR. Three sets of primers were tested for each germline-specific gene. C37H5.15 served as positive control. Elt-2 served as negative control and was used to calculate fold enrichment. ChIP results are expressed as percent of input using Ct values (A) and fold enrichment of H3K27ac modification normalized to elt-2 (B). (PDF 1136 kb