Background: Retinal neovascularization, which is characterized by the increased proliferation, migration, and tube formation of retinal microvascular endothelial cells (RMECs), contributes to the progression of diabetic retinopathy (DR). MiR-409-5p has been reported to be upregulated in peripheral blood of DR patients and in vascular endothelial growth factor (VEGF)-induced RMECs. However, the role of miR-409-5p in retinal neovascularization of DR remains unelucidated. Method: The expression of miR-409-5p was measured in retinal tissues of streptozocin-induced and db/db...

Additional file 11: Figure S2. circPVT1 promotes the migration and invasion of NPC in vitroand metastasis of NPCin vivo. A-B. The expression of circPVT1 were measured in CNE2 and 5-8F cells after transfection with the circPVT1 overexpression vector or circPVT1 siRNA. PVT1 expression was not affected in CNE2 and 5-8F cells after overexpresion or knockdown of circPVT. All experiments were repeated at least three times. Data were represented as mean ± SD. ***, p <...

Additional file 11: Figure S2. circPVT1 promotes the migration and invasion of NPC in vitroand metastasis of NPCin vivo. A-B. The expression of circPVT1 were measured in CNE2 and 5-8F cells after transfection with the circPVT1 overexpression vector or circPVT1 siRNA. PVT1 expression was not affected in CNE2 and 5-8F cells after overexpresion or knockdown of circPVT. All experiments were repeated at least three times. Data were represented as mean ± SD. ***, p <...

Additional file 12: Figure S3. circPVT1 promotes the migration and invasion of NPC cells through binding to β-TrCP. A. The secondary ion flow diagram of β-TrCP identified by mass spectrometry according to the peptide sequence (DFITALPAR) of β -TrCP.B. Schematic diagram of binding sites betweent circPVT1 and β-TrCP using the catRAPID website.The 230-280 nt of circPVT1 was predicted to bind to β-TrCP protein with high interaction score.C. The secondary structure of circPVT1 changed when 230-280...

Additional file 13: Figure S4. The WD40 repeat domain of β-TrCP interacts with circPVT1. A. The functional domain of the of β-TrCP proteins are illustrated (top), including the F-box domain and the WD40 domain. The expressing plasmids for full-length β-TrCP or truncated fragments (F-box and WD40) were constructed and confirmed using anti-Flag antibody. B. Wound healing assay showed that overexpression of β-TrCP inhibited NPC cells migration. Data were represented as mean ± SD. ***, p...

Additional file 14: Figure S5. c-Myc is ubiquitinated substrate of β-TrCP. A. The expression of β-TrCP was examined in CNE2 and 5-8F cells after overexpression or knockdown of circPVT1 using western blotting.B. The β-TrCP binding proteins were identified in CNE2 cells by immunoprecipitation followed by LC-MS/MS.C. The interaction of c-Myc and β-TrCP was predicted by Molecular Docking ( http://hdock.phys.hust.edu.cn/ ). The blue part is the WD40 repeat domain of β-TrCP.D. The expression of c-Myc was...

Additional file 2: Figure S2. CISD2 expression endows the cellular resistance to ferroptosis inducer. (A–D) Analysis of the CISD2 expression by western blot in HT-1080 (A, C) or HL60 (B, D) cells, GAPDH was used as loading control; (E, F) Cell survival analysis in CISD2-modified HT-1080 cells after the treatment of Erastin (0–10 µM); (G, H) Cell survival analysis in CISD2-modified HL60 cells after the treatment of Erastin (0–15 µM); Cell survival in control cells...

Additional file 2: Figure S2. CISD2 expression endows the cellular resistance to ferroptosis inducer. (A–D) Analysis of the CISD2 expression by western blot in HT-1080 (A, C) or HL60 (B, D) cells, GAPDH was used as loading control; (E, F) Cell survival analysis in CISD2-modified HT-1080 cells after the treatment of Erastin (0–10 µM); (G, H) Cell survival analysis in CISD2-modified HL60 cells after the treatment of Erastin (0–15 µM); Cell survival in control cells...

Additional file 3: Figure S3. The effect of Serpine1 overexpression in lung epithelial cells. A Serpine1 expression analysed using RT-qPCR in Serpine1-overexpressing MLE-12 cells. B–D Serpine1 expression analysed using RT-qPCR, western blot and Immunofluorescence in Serpine1-overexpressing A549 cells. E, F Apoptosis rate analysed using flow cytometry in Serpine1-overexpressing A549 cells. G p16 expressions analysed using western blot in Serpine1-overexpressing BEAS-2B cells. Data show mean ± SEM; Data was analysed using unpaired t-tests.

Additional file 4: Figure S4. Enrichment of differentially expressed genes in Serpine1-overexpressing MLE-12 cells. A, B GO and KEGG enrichment of the upregulated genes. C, D GO and KEGG enrichment of the downregulated genes. Q-value ≤ 0.05 and fold-change ≥ 2 were used as the thresholds for screening the differentially expressed genes.

Additional file 2: Figure S2. Genes expression levels in lung tissues of neonatal mice (A) The mRNA expression of differentially expressed genes analysed using RT-qPCR in lung tissues of neonatal mice. B, C Nr4a1 expression analysed using western blot in lung tissues of neonatal mice. D Serpine1 expression in lung tissues of neonatal mice detected using RT-qPCR on P1, P7, and P21. E, F Serpine1 expression analysed using RT-qPCR and western blot in siRNA-treated neonatal...

Additional file 3: Figure S3. The effect of Serpine1 overexpression in lung epithelial cells. A Serpine1 expression analysed using RT-qPCR in Serpine1-overexpressing MLE-12 cells. B–D Serpine1 expression analysed using RT-qPCR, western blot and Immunofluorescence in Serpine1-overexpressing A549 cells. E, F Apoptosis rate analysed using flow cytometry in Serpine1-overexpressing A549 cells. G p16 expressions analysed using western blot in Serpine1-overexpressing BEAS-2B cells. Data show mean ± SEM; Data was analysed using unpaired t-tests.

Additional file 5: Figure S5. The expression of DNA methylation related enzymes in lung tissues and TNF-α-treated MLE-12 cells. A Dnmt1, Dnmt3a, Mbd1, and Tet1 expression analysed using RT-qPCR in lung tissues of neonatal mice. B TNF-α expression analysed using RT-qPCR in lung tissues of neonatal mice. C Dnmt1, Dnmt3a, Mbd1, and Tet1 expression analysed using RT-qPCR in TNF-α-treated MLE-12 cells. D Serpine1 expression analysed using RT-qPCR in TNF-α-treated MLE-12 cells. Data show mean ±...

Additional file 7: Figure S7. Schematic representation of the molecular mechanisms underlying IUI-induced lung injury in neonatal mice.

Additional file 1: Figure S1. The relative abundance of P-CA regulators in DLAT wild and DLAT mutation groups is presented

Additional file 4: Figure S4. Verification of gene expression levels. Three upregulated genes including LDHA (A), CS (B), IDH3G (C). Immunohistochemical staining of IDH3G (D)

Additional file 10. Detailed region where the representative images of Figure 5A selected from. LC, lesion cord.

Additional file 9. Detailed region where the representative images of Figure 2A selected from. LC, lesion cord.

Additional file 2: Figure S1. Depletion of LARRPM promoted proliferation, repressed apoptosis and promoted migration and invasion of LUAD cells. A LARRPM expression in HCC827 cells with LARRPM stable depletion or control was detected by qRT-PCR. B Cell proliferation of HCC827 cells with LARRPM stable depletion or control was detected using CCK-8 assays. C Cell proliferation of HCC827 cells with LARRPM stable overexpression or control was detected using EdU incorporation assays. Scale bar: 100 µm....

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 4: Figure S3. LINC00240 repressed proliferation, induced apoptosis and inhibited migration and invasion of LUAD cells. A LINC00240 expression in A549 cells with LINC00240 stable overexpression or control was detected by qRT-PCR. B Cell proliferation of A549 cells with LINC00240 stable overexpression or control was detected using CCK-8 assays. C Cell proliferation of A549 cells with LINC00240 stable overexpression or control was detected using EdU incorporation assays. Scale bar: 100 µm. Red color...

Additional file 6: Fig. S5. Anti-CSF1 antibody abolished the effects of LARRPM on M2 macrophage infiltration. A THP-1 cells were subjected to transwell migration assays towards A549 cells with LARRPM overexpression or A549 control cells treated with anti-CSF1. Scale bar: 100 µm. B THP-1 cells were subjected to transwell migration assays towards HCC827 cells with LARRPM depletion or HCC827 control treated with anti-CSF1. Scale bar: 100 µm. C M1 and M2 polarization markers expression in...

Additional file 10: Figure S10. A.443654 inhibits the cell proliferation of PAAD. (A) Cell viability of PANC-1 cell line treated with DMSO and 50 nM A.443654, respectively. *P < 0.05, **P < 0.01 by a two-tailed unpaired t-test. (B) Colony formation assay of PANC-1 cells treated with DMSO and 50 nM A.443654, respectively. **P < 0.01 by a two-tailed unpaired t-test. (C) Edu assay of PANC-1 cells treated with DMSO and 50 nM A.443654, respectively....

Additional file 1: Figure S1. Functional enrichment analyses of gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG). (A) Bubble graph for GO enrichment (the bigger bubble means the more genes enriched, and the increasing depth of red means the differences were more obvious; q-value: the adjusted p-value). (B) KEGG enrichment analysis of differentially expressed genes.

Additional file 3: Figure S3. Risk model independent prognostic analysis. (A) Univariate independent prognosis Cox regression analysis of risk score and indicated clinical characteristics. (B) Multivariate independent prognosis Cox regression analysis of risk score and indicated clinical characteristics.