Additional file 3: Figure S3. TPM1 knockdown reduces LPS-induced inflammation and function decline in C57BL/6J mice. A, B mRNA level of TPM1 (A) and IL-10 (B) in C57BL/6 J mouse retinas after treatments with LPS and siCTR or siTPM1-1. Data are presented as mean ± SEM and analyzed by one-way ANOVA with Tukey’s multiple comparison test (compared to LPS + siCTR or LPS + siTPM1-1, *p < 0.05, **p < 0.01). n = 4 or...

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.

Additional file 1: Supplementary Figure 1. Kaplan-Meiercurves of OS differences stratified by age, gender, tumor grade and stagebetween both groups in the entire TCGA set.

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...

As an indispensable part for cancer precision medicine, biomarkers and signatures for predicting cancer prognosis and therapeutic benefits were urgently required. The purpose of this study was to investigate the prognostic roles of NOP2 in renal clear cell carcinoma (ccRCC) for overall survival (OS) and its relationships with immunity. NOP2-related gene expression matrix associated with clinical information was obtained from the Cancer Genome Atlas (TCGA) ccRCC dataset and NOP2-related pathways were identified by gene set...

As an indispensable part for cancer precision medicine, biomarkers and signatures for predicting cancer prognosis and therapeutic benefits were urgently required. The purpose of this study was to investigate the prognostic roles of NOP2 in renal clear cell carcinoma (ccRCC) for overall survival (OS) and its relationships with immunity. NOP2-related gene expression matrix associated with clinical information was obtained from the Cancer Genome Atlas (TCGA) ccRCC dataset and NOP2-related pathways were identified by gene set...

Diabetic osteoporosis (DOP) is a chronic complication of diabetes in the skeletal system. High level of miR-340-5p may be harmful to the bone formation. In this study, the DOP model of rats was successfully established via streptozotocin (STZ) and ovariectomy (OVX) treatment. It was manifested by reduced body weight, insulin level, alkaline phosphatase (ALP) activity, and osteocalcin (OCN) and collagen-I expressions, as well as increased concentration of fasting blood glucose. Moreover, we found that miR-340-5p...

Myocardial injury resulting from sepsis is the leading cause of death worldwide. Micro RNA miR-122-5p is involved in various physiological and pathological processes and is highly expressed in the heart of septic rats. However, its function in sepsis-caused myocardial injury remains elusive. Herein, a rat model of septic myocardial injury was established by intraperitoneal injection of lipopolysaccharide (LPS), and cardiomyocyte H9c2 was exposed to LPS to induce sepsis-related inflammatory injury in vitro. Inhibition of miR-122-5p...

Supplmentary figure 1

Additional file 8: Fig S7. Elimination of LSSL from serum to detect the deposition of VLRB and C1q on the surface of HeLa cells. (A) Immuno-fluorescence detection of VLRB and C1q deposited on the surface of HeLa cells treated with lamprey serum and LSSL-depleted serum. Scale bars, 10 µm. (B) A histogram shows the statistics of the above-mentioned results. The data are presented as the means ± SDs. (C) Western blotting analysis with mouse anti-VLRB...

Additional file 6: Fig S5. Elimination of MASP-1 from serum to detect the deposition of LSSL and C3 on the surface of Hela cells. (A) Quantitative analysis of proteins on HeLa cell membranes analyzed by Alexa-488 staining followed by flow cytometry. (B, C) The histogram shows the fluorescence intensity and cell proportions of the above flow cytometry results, respectively. The data are presented as the means ± SDs. (D) Western blotting analysis of depleted and...

Additional file 4: Fig S3. Cryo-EM analysis. (A) A flow-chart of cryo-EM data processing. (B) Subunit structure in LSSL trimer. (C) Fold diagram for the structure of LSSL. (D) FSC curve (gold standard FSC) as a function of before and after mask application.

Additional file 2: Figures S1. Confirmation of exosomes by transmission electron microscopy (TEM).

Additional file 2: Figures S1. Confirmation of exosomes by transmission electron microscopy (TEM).

Additional file 3: Fig. S3. Show the correlation of L_cancer RiskScore and L_cancer hub genes expression with immune infiltration level in L_cancer patients.

Additional file 3. Tucidinostat plus checkpoint blockade induces improved therapeutic efficacy. a Schema of the experiment. For bioluminescence imaging (BLI) in vivo, mouse 4T1-luc (5 × 105 cells) were engrafted into the flank of BALB/c mice. When established tumors were palpable 7 days after tumor cells inoculation, mice were treated with vehicle (DMSO, n=7), tucidinostat (25 mg/kg, gavage, daily, n=7), aPD-L1 (200 μg, i.p. injection, once every 3 days, n=7), or combination (n=7). Tumors volume...

Additional file 4: Fig S3. Cryo-EM analysis. (A) A flow-chart of cryo-EM data processing. (B) Subunit structure in LSSL trimer. (C) Fold diagram for the structure of LSSL. (D) FSC curve (gold standard FSC) as a function of before and after mask application.

Supplementary Material 2

Additional file 2. Collection Proof of Strain CM100Z4.

Additional file 4. Collection Proof of Strain SBW10264.

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 1: Figure S1. Pie chart shows the number of differentially expressed lncRNAs in each category.