NEW_Suppl Figures and Tables_Developmental Paper

[Irinalazar]

1. Suppl Figure 1

• [x] A. FACS plots of PND8 and PND15 spermatogonia isolation (Irina)

• [x] B. Immunocytochemistry (ICC) of sorted vs unsorted spermatogonia population (Irina)

• [x] C. Heatmap of representative markers for spermatogonia - in PND8 and PND15 RNA-seq (see attached excel) Fig S1_C_Cell markers for heatmap.xlsx

2. Suppl Figure 2

• [x] A. Plot of the ATAC-seq peak distribution

• [x] B. Genomic distribution of all peaks identified (158,978 passing the filtering)

3. Suppl Figure 3

• [x] A. Genomic snapshots of Gata2 and Pdpka1 (Category 1 genes) (Irina)

• [x] B. Genomic snapshots of Hmx1 and Fgf8 (Category 2 genes) (Irina)

• [x] C. Genomic snapshot of Dap2ip (Category 3 genes) (Irina)

4. Suppl Figure 4

• [x] D. Enriched heatmap of DNAme at PND7, 14 and adult for Categories 1-6

5. Suppl Figure 5

• [x] A. Enriched heatmaps of distal regions withChIP and WGBS overlap_less access

• [x] B. Enriched heatmaps of distal regions with ChIP and WGBS overlap_more access

6. Suppl Figure 6

• [x] HOMER logos for less and more accessible TEs

• [x] Olfr gene cluster on Chr 2 genomic snapshot

Table S1

• [x] GREAT complete list of the sign GO terms for more accessible and less accessible regions, more accessible gene bodies, more accessible +/-1kbp from TSS + TSS overlap (should have 4 excel sheets in this table) (Irina)

Table S2

• [x] Excel sheet with the list of DEGs between PND8 and PND15 (Irina)

• [x] Excel sheet with the list of fGSEA terms from PND8 vs PND15 and PND14 vs adult, raw and then following REVIGO (Irina)

Table S3

• [x] Excel sheets (6) with the complete lists of Categories 1-6 (Peaks and genes) (Irina)

• [x] Excel sheets (12) with the ChIP-seq overlap for Categories 1-4 (Peaks, genes and Histone mark) (Irina)

• [x] Excel sheets (2) with Distal regions of increased/decreased accessibility (Irina)

• [x] Excel sheets (6) with Distal regions with ChIP-seq overlap (Irina)

Table S4

• [x] GO enrichment using gPRofiler for Categories 1-4 (Irina)

• [x] TF motif enrichment lists from HOMER for the DARs (Irina)

Table S5

• [x] Complete list of the TE subtypes (LINEs and LTRs) for which the TE loci are also significant and their gene overlap (Irina)

Table S6

• [x] Complete list of the TF motif enrichment for each TE subtype (LINEs and LTRs) (Irina)

[Irinalazar]

Table S1_Dev_Paper_GREAT of DARs.xlsx Table S2_Dev_Paper_DGE and fGSEA results_RNA-seq.xlsx Table S3_Dev_Paper_Data overlap_Cat 1-6.xlsx Table S4_Dev_Paper_Data overlap_GO enrichment and TF motifs for DARs.xlsx Table S5_Dev_Paper_Data overlap_Transposable elements_DAA.xlsx Table S6_Dev_Paper_Transposable elements_HOMER.xlsx

[dktanwar]

Updated README

Table.S2_Dev_Paper_DGE.and.fGSEA.results_RNA-seq.xlsx

[dktanwar]

Fixed misnaming of sheets

Table.S4_Dev_Paper_Data.overlap_GO.enrichment.and.TF.motifs.for.DARs.xlsx