Additional file 11.

Additional file 7.

Additional file 8.

Additional file 9.

Additional file 2: Fig. S1. The graphs showed the distributions of propensity score after performing PSM in bubble and bar forms. PSM = Propensity score matching.

Additional file 2: Figure S2. WT-HeLa cells were incubated with 20 μM of J3 with or without 2 mM of NAC, 1 μM of compound C, 10 μM of U0126, 10 μM of BAPTA for 6 h, respectively. The protein level of LC3-II was detected by western blot and quantified.

Additional file 3: Figure S3. (A) CFP-103Q-HeLa cells were treated with 20 μM of J3 for 12, 24, 48 h, respectively. The insoluble (I-mHTT), soluble mHTT (S-mHTT) and LC3 were detected for western blot. (B-C) The quantification of insoluble (B) and soluble mHTT (C) at different times was analyzed. (D) CFP-103Q-HeLa were treated with 5, 10, and 20 μM of J3 for 48 h, the protein level of mHTT and LC3 were measured by western...

Additional file 2.

Additional file 3.

Additional file 4: Fig. S4. The analyses performed on the RNA-seq data of AB2.2 mESCs on differentiation day 2 under normoxia and hypoxia. (A) The related levels of HIF-1 signaling-related genes in AB2.2 mESCs on differentiation day 2 under hypoxia versus normoxia. (B) GSEA showed that the HIF-1 signaling pathway activation was significantly enhanced by hypoxia. (C) The related levels of Wnt/β-Catenin pathway-related genes in AB2.2 mESCs on differentiation day 2 under hypoxia versus normoxia....

Additional file 5: Fig. S5. The Wnt/β-Catenin pathway was affected by hypoxia. (A) The expression of canonical Wnts (Wnt3 and Wnt8a) and (B) Wnt/β-Catenin pathway downstream targets (Sp5 and Cdx1) was downregulated by hypoxia in AB2.2 mESCs undergoing differentiation. (C) The expression of canonical Wnts (Wnt3 and Wnt8a) and (D) Wnt/β-Catenin pathway downstream targets (Sp5 and Cdx1) was downregulated by hypoxia in R1 mESCs undergoing differentiation. (E-G) Expression of nuclear β-Catenin was significantly repressed, while...

Additional file 6: Fig. S6. The Wnt/β-Catenin pathway and AB2.2 mESC differentiation were affected by IWP2. (A) Schematic diagram of mESC differentiation treated with or without IWP2 under normoxia. (B) The expression of Wnt/β-Catenin downstream targets (Sp5 and Cdx1) was severely inhibited by IWP2 in AB2.2 mESCs undergoing differentiation. (C) IWP2 repressed T protein expression (red) on differentiation day 4. Nuclei were stained with DPAI (blue). (D) The ratios of T+ and Sox1+ cells were...

Additional file 8: Fig. S8. The supplementary analyses performed on the RNA-seq data of normoxia, hypoxia, control, and Hif-1α overexpression groups. The volcano plot showed the differentially expressed genes (DEGs) in (A) Hif-1α-OE_vs_Con and (B) HvsN_shHif-1α. |Log2(Fold Change)|>1 and adjusted P-value<0.05 were used as the cutoff criteria. (C) The GO terms of the DEGs upregulated by Hif-1α overexpression. GSEA of (D) apoptosis and (E) cell of AB2.2 mESCs on differentiation day 4 under hypoxia versus...

Additional file 3: Fig. S1. Phenotypic distribution for 12 traits at the three environments. a, In recombined inbred lines (RILs). b, In backcross F1s hybrids (BCF1s). c, Mid-parental heterosis values. d, Over-standard heterosis values. Over-standard heterosis was calculated by [(BCF1 – QYSM)/QYSM] × 100. RILs derived from a cross between Q9311B and WSSM, BCF1s were hybrids between the RILs and Q9311A. HD, heading date; PH, plant height; PN, panicle number per plant; FLL, flag leaf...

Additional file 4: Fig. S2. High-density linkage map consisting of 855 bins was constructed for the RIL population from a cross between Q9311B and WSSM based on the genotypes at 13,847 segregating genes. a, The recombination bin map of the RIL population (n = 1061), in which the horizontal axis indicates the RILs and the vertical axis indicates genomic regions. Q9311B/Q9311B homozygous type is shown in red, WSSM/WSSM homozygous type is shown in blue, and...

Additional file 5: Fig. S3. Genomic distribution of main-effect QTLs affecting 12 rice yield related traits identified in the RIL and BCF1 populations separately.

Additional file 3: Figure S3. Domain-based classification of T. aestivum RING-zf proteins. a Additional TM domain contained in the RING-zf protein. b Additional IBR domain contained in the RING-zf protein. c Additional coiled coil domain contained in the RING-zf protein. d Additional RPT1 domain contained in the RING-zf protein. e Additional RING-ZnF-CHY, RING-Zinc_ribbon_6 and pfam Lon-substr-bdg domains contained in the RING-zf protein. f Additional DEXDc, HIRAN and HELICc domains contained in the RING-zf protein. g...

Additional file 3: Figure S3. Domain-based classification of T. aestivum RING-zf proteins. a Additional TM domain contained in the RING-zf protein. b Additional IBR domain contained in the RING-zf protein. c Additional coiled coil domain contained in the RING-zf protein. d Additional RPT1 domain contained in the RING-zf protein. e Additional RING-ZnF-CHY, RING-Zinc_ribbon_6 and pfam Lon-substr-bdg domains contained in the RING-zf protein. f Additional DEXDc, HIRAN and HELICc domains contained in the RING-zf protein. g...

Supplementary Material 18

Additional file 4: Figure sup 4. Transcriptional changes of selected astrocyte-enrichedgenes in apoE-TR mice upon cuprizone-induced demyelination. The CC region of apoE-TR mice treated with normal or CPZ diet was subjected to transcriptomic profiling. Heat map showing transcriptional changes (CPZ vs CTL groups) of selected astrocyte-enriched genes identified from RNA-Seq. The scaled expression value (row Z score) is shown with a blue-red color scheme, denoting red as higher expression, and blue as lower expression.

Additional file 2: Fig. S2 The progression-free survival (PFS) of patients receiving immune checkpoint inhibitor (ICI) treatment based on cancer types. The survival analysis was performed for individual cancer types that contained at least 10 cases in the SWI/SNF-mutant or SWI/SNF-non-mutant groups. The PFS of the SWI/SNF-mutant group was significantly superior to that of the SWI/SNF-non-mutant group in colorectal cancer (a) and gastric cancer (b), the same tendency was significant numerically by not statistically in...

Additional file 3: Fig. S3 The signaling pathway enrichment of the variated genes in the SWI/SNF-mutant tumors by GO analysis. The GO analysis was performed on all the mutated genes in 1001 SWI/SNF-mutant samples.

Additional file 3: Figure sup 3. Similar levels of astrogliosis were observed in apoE-TR mice upon cuprizone-induced demyelination. The astrogliosis in the CC area of CTL (n=5/genotype) and CPZ-treated (n=5-6/genotype) apoE-TR mice was examined by immunostaining for GFAP. (A) Representative images of GFAP+astrocytes in the CC area of apoE-TR mice are shown. Scale bar, 100 µm. (B) The morphology of GFAP+astrocytes in apoE-TR mice are shown. Scale bar, 25 µm. (C) The fold change of...

Additional file 2: Figure sup 2. Lack of effects of cuprizone-induceddemyelination on the blood-brainbarrier integrity among apoE-TR mice. (A) Brain samples ofapoE-TR mice from CPZ-treated group (n=16/genotype) were subjected toimmunofluorescence staining for CLDN5(a tight junction-associated protein) and Glut1 (vascular marker). Representative images of CLDN5 (Green) staining and Glut1 (Red)staining in the CC region of apoE-TR mice are shown. Scale bar, 50 µm. Values are mean ± SEM. One-way ANOVA.N.S. not significant.

Additional file 1: Supplementary Figure 1.