Additional file 2: Supplementary figure 2. The relationship between immune-related function and prognosis of CLL patients.

Additional file 5: Figure S5. TPM1 knockdown changes transcriptome associated with glial cells in WT mouse retina. A A heatmap showing DEGs associated with microglia and astrocytes in WT mice following treatments with PBS, or with LPS and siTPM1-1 or siCTR. B–G The expression levels of DEGs associated with M1 (B) or M2 microglia (C, D) and with A1 (E) or A2 astrocytes (F, G) in WT mice after treatment with PBS, or with LPS...

Additional file 9: Figure S9. DNA sequencing for detecting Rd8-associated single nucleotide deletion. F: Forward; R: Reverse.

Supplementary Material 1

Supplementary Material 2

Additional file 1: Data Quality Control (QC).

Additional file 3: Correlation between mRNA expression and methylation level of other genes.

Supplementary Material 7

Additional file 4: Fig. S4. Effects of cilostazol treatment on complete blood counts after CLP. a, b The level of platelets (a), WBC (b), NEUT (c), MONO (d) and LYMPH (e) (n = 5). WBC, white blood cells; NEUT, neutrophil; MONO, monocyte; LYMPH, lymphocyte. The data are presented as the mean ± SEM, *P < 0.05, ***P < 0.001, and ns indicates no significant difference.

Additional file 3: Fig. S3. Effects of cilostazol treatment on serum inflammatory factors. The level of serum TNF-α (a) and IL-1β (b) in each group (n = 6). The data are presented as the mean ± SEM, ***P < 0.001, ****P < 0.0001, and ns indicates no significant difference.

Additional file 3: Fig. S3. Effects of cilostazol treatment on serum inflammatory factors. The level of serum TNF-α (a) and IL-1β (b) in each group (n = 6). The data are presented as the mean ± SEM, ***P < 0.001, ****P < 0.0001, and ns indicates no significant difference.

Supplementary Material 3

Supplementary Material 2

Supplementary Material 3

Additional file 1: Fig. S1. DNA methylation level trends. (A) Bean plots showing the methylation level distribution of methylation sites in the context of CpG, CHG and CHH at genome wide scale. (B) The methylation level trends around gene features per sample. a = promoter (2 kb upstream of transcription start site); b = first exon; c = first intron; d = inner exons; e = inner introns; f = last exon; g = downstream...

Additional file 3: Fig. S3. Annotation of DMCs. (A-C) The annotation of DMCs in the context of CpG (A), CHG (B) and CHH (C). (D) The distribution of DMC CpG islands (CGIs) and related regions. (E-F) The number of DMCs grouped by the differences in methylation levels in gene features (E) and regions in CGI context (F).

Additional file 3. Original gel of PCR products in the validation experiments of clinical samples with positive chip results for G. vaginalis.

Additional file 3. Original gel of PCR products in the validation experiments of clinical samples with positive chip results for G. vaginalis.

Additional file 5: Fig. S5. Effect of cilostazol treatment on cardiac function after CLP. a Representative M-mode images of the four different groups. b-e Quantitative analysis of LVEF (b), LVFS (c), LVEDD (d), and LVESD (e) in each group (n = 6). These data indicate no significant difference.

Additional file 6: Figure S2. Distribution and abundance of AI-2 synthases and receptors based on QS in the rumen bacterial genomes. Numbers indicate the number of bacterial genomes in which the corresponding proteins were found at the genus level. The LuxS synthases, LsrB receptors, and CahR-type receptors were discovered within 88, 27, and 42 genera, respectively.

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 1: Figure S1. Enrichment analysis of CISD2 related genes. (A) Protein-protein interaction network of CISD2 from STRING website ( https://www.string-db.org/ ) and Cytoscape 3.7.2 software; (B) The enrichment analysis of CISD2 related genes in GO terms, including BP (biological process), CC (cell component) and MF (molecular function), and KEGG pathway.

Additional file 4: Figure S4. (A) Analysis of NQO1 expression by RT-PCR in CISD2 silenced HT-1080 cells with or without the treatment of erastin; (B) Quantitative analysis of NQO1 expression in Fig. 4A;★P < 0.05 and ★★P < 0.01 between the indicated groups.

Additional file 3: Figure S2. The correlation between LARRPM expression, 5hmC level at LINC00240 promoter, CpG43 methylation level and LINC00240 expression in LUAD tissues. A Correlation between LINC00240 and LARRPM expression analysed using the TCGA LUAD data. r = 0.6164, P < 0.0001 by Spearman correlation analysis. B Correlation between LINC00240 and LARRPM expression analyzed in our LUAD cohort. r = 0.5521, P < 0.0001 by Spearman correlation analysis. C 5hmC levels of CpG43 from...

Additional file 5: Figure S4. The correlation between LARRPM expression, 5hmC level at CSF1 promoter, CpG82 methylation level and CSF1 expression in LUAD tissues. A Correlation between CSF1 and LARRPM expression analysed using the TCGA LUAD data. r = − 0.3069, P < 0.0001 by Spearman correlation analysis. B Correlation between CSF1 and LARRPM expression analysed in our LUAD cohort. r = − 0.5774, P < 0.0001 by Spearman correlation analysis. C 5hmC levels of...