La Charente

21 septembre 18861886/09/21 (A15,N5666)-1886/09/21.Appartient à l’ensemble documentaire : PoitouCh

Additional file 2: Figure S2. of Novel functions of LHX2 and PAX6 in the developing telencephalon revealed upon combined loss of both genes

Tamoxifen was administered at E8.5 to CreER;Lhx2 lox/lox ;Pax6 lox/lox animals and the embryos were harvested at E12.5. Near-complete recombination of Pax6 and Lhx2 is seen in a rostro-caudal series of sections adjacent to those examined for Wnt8b expression. (JPEG 807 kb

Additional file 3: Figure S3. of Novel functions of LHX2 and PAX6 in the developing telencephalon revealed upon combined loss of both genes

This figure shows Dbx1 expression in adjacent sections to the images shown in Fig. 3. These images were used for measurements of the hem and the dorsal telencephalic neuroepithelium, taken upto the ventral extent of Dbx1 in adjacent sections in CreERT2; Lhx2 lox/lox (dashed lines, B,D,F) and CreER;Lhx2 lox/lox ;Pax6 lox/lox (H,J,L) embryos. Dbx1 expression in the control brain is not shown. Scale bar is 200 Îźm. (JPEG 856 kb

S4 Fig -

(A-F) GO: BPs corresponding to both up-and down-regulated genes upon loss of Lhx2 in the Ncp (A-C) and Hcp (D-F). (A, D) show the GSEA analysis and (B, C, E, F) show the overrepresentation test analysis. (TIF)</p

S2 Fig -

(A, B) KEGG pathway analysis of Ncp and Hcp enriched genes related to Fig 1B. (C-D) Motif analysis shows known motifs from 70 DARs (Ncp) and 14804 DARs (Hcp) related to Fig 2B. (E) Expression of many of the transcription factors identified among the top 10 motifs is undetectable in the E11.5 Ncp or Hcp (as obtained from; Allen Mouse Brain Atlas, http://mouse.brain-map.org/). Links to images represented in E: Dlx1Dlx2Dlx5Lhx1Lhx3Isl1Nkx6.1En1Rfx2Rfx5Xbp1. (TIF)</p

Transcriptomic analysis of the wild type E12.5 Ncp and Hcp.

(A) Schematic representation of the E12.5 mouse brain. (B) A volcano plot comparing Ncp and Hcp mRNA expression identifies preferentially enriched genes in the Ncp (1248) and the Hcp (1364). (C) A heatmap of the top 100 enriched genes in each tissue type; color bar: blue (low expression), red (high expression), clustering method: K means. (D, E) A tree plot depicting the top GO Biological Processes (GO: BPs) from (B). (F) Bar plot of selected differentially expressed genes between Ncp and Hcp. (G, H). In situ hybridization for selected genes identified in (B).</p

S5 Fig -

(A, B) KEGG pathway analysis of direct targets of LHX2 from Fig 5 (F) reveal 4 dysregulated pathways common to the E12.5 Ncp and Hcp. (C-F) KEGG pathway analysis for these pathways includes both direct (*) and indirect targets of LHX2. (E, F). (TIF)</p

Worksheets containing differential peaks called and annotated by Homer in the wtNcp vs input for histone modifications H3k27Ac, H3k27Me3, H3k4Me3, and H3k4Me1.

Worksheets containing differential peaks called and annotated by Homer in the wtNcp vs input for histone modifications H3k27Ac, H3k27Me3, H3k4Me3, and H3k4Me1.</p

Characterization of Lhx2 occupancy across genomic regions.

(A, B) Lhx2 occupancy profiles in the Ncp and Hcp using Ncp peaks as a reference (A; 2222 peaks); using Hcp peaks as a reference (B, 5166 peaks). (C) Bedtools intersect analysis reveals 688 Lhx2 peaks overlap by at least 1bp in the Lhx2 Ncp (total 2222 peaks) and Hcp (total 5166 peaks) ChIP-seq data.(D) Bar plots of the average gene expression of the Lhx2 occupied genes in the Ncp and Hcp compared with the respective library averages.(E, F) bar plots of the distances of LHX2 peaks from the TSS in the Hcp and Ncp.(G) LHX2 occupancy profiles on 14874 DARs (70 Ncp + 14804 Hcp) from Fig 2B shows multiple DARs occupied by LHX2 in both tissues. (H) IGV tracks showing LHX2 peaks in the Hcp and Ncp together with their respective input control tracks. Black boxes mark regions equally enriched for LHX2 occupancy in Ncp and Hcp; green boxes indicate regions with greater LHX2 occupancy in Hcp; blue boxes indicate regions with greater LHX2 occupancy in Ncp. The numbers on the tracks indicate the maximum peak height. (I) Summary findings of the 360 DARs that mapped to LHX2 occupied regions. (TIF)</p

Worksheets containing LHX2 peaks from E12.5 Ncp, E12.5 Hcp and E10.5 dtel.

A list that identifies LHX2 peaks that overlap between E12.5 Ncp and E12.5 Hcp. A list identifies expression levels (in CPM) of all genes associated with one or more LHX2 peaks in the Hcp and Ncp. (XLSX)</p