486 Works

Role of lncRNA LINC01194 in hepatocellular carcinoma via the miR-655-3p/SMAD family member 5 axis

Yang Liu, Jie Liu, Junkai Cui, Ruolei Zhong & Guoyang Sun
Long non-coding RNAs (lncRNAs) are involved in developing hepatocellular carcinoma (HCC). The present study explored the role of lncRNA LINC01194, which is upregulated in HCC tissues and might be a vital regulator in HCC progression. Levels of LINC01194, microRNA (miR)-655-3p, and SMAD family member 5 (SMAD5) were assessed using reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR). The bioactivity of Huh-7 cells was assessed using cell counting kit-8 and transwell assays and flow cytometry. Western...

N6-methyladenosine-induced SVIL antisense RNA 1 restrains lung adenocarcinoma cell proliferation by destabilizing E2F1

Zedong Hu, Liang Zhu, Yilin Zhang & Bing Chen
Accumulating evidence indicates that N6-methyladenosine (m6A) and long noncoding RNAs (lncRNAs) play crucial roles in cancer development. However, the biological roles of m6A and lncRNAs in lung cancer tumorigenesis are largely unknown. In this study, SVIL antisense RNA 1 (SVIL-AS1) was downregulated in lung adenocarcinoma (LUAD) tissues and was associated with a favorable prognosis in patients with LUAD. SVIL-AS1 overexpression suppressed LUAD cell proliferation and blocked cell cycle arrest. Mechanistically, METTL3 increased the m6A modification...

Ultrasound targeted microbubble destruction-mediated SOCS3 attenuates biological characteristics and epithelial-mesenchymal transition (EMT) of breast cancer stem cells

Xiaojiang Tang, Na Hao, Yuhui Zhou & Yang Liu
SOCS3 is low-expressed in breast cancer and may be a potential target. Ultrasound targeted microbubble destruction (UTMD) improved the efficiency of gene transfection. We explored the effects of UTMD-mediated transfection of SOCS3 on the biological characteristics and epithelial-mesenchymal transition (EMT) of breast cancer stem cells (BCSCs). The expression of SOCS3 in breast cancer (BC) and its association with prognosis were evaluated by GEPIA and The Cancer Genome Atlas (TCGA) websites. BCSCs were sorted by flow...

CBX3 regulated by miR-139 promotes the development of HCC by regulating cell cycle progression

Pan Zhang, Xiaoyan Yang, Zhongming Zha, Yumeng Zhu, Guoqiang Zhang & Guotao Li
Hepatocellular carcinoma (HCC), a major primary liver cancer, is one of the most lethal malignancies worldwide. Increasing evidence has demonstrated that chromobox protein homolog 3 (CBX3) functions as an oncogene in different cancers. However, its expression profiles and biological functions in HCC remain unknown. Data on CBX3 expression in HCC acquired from the GEO and TCGA databases were analyzed. The biological functions of CBX3 in HCC were examined by in vitro experiments. Bioinformatics analysis, qRT-PCR...

Additional file 11 of Circular RNA circPVT1 promotes nasopharyngeal carcinoma metastasis via the β-TrCP/c-Myc/SRSF1 positive feedback loop

Yongzhen Mo, Yumin Wang, Yian Wang, Xiangying Deng, Qijia Yan, Chunmei Fan, Shuai Zhang, Shanshan Zhang, Zhaojian Gong, Lei Shi, Qianjin Liao, Can Guo, Yong Li, Guiyuan Li, Zhaoyang Zeng, Weihong Jiang, Wei Xiong & Bo Xiang
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 of Circular RNA circPVT1 promotes nasopharyngeal carcinoma metastasis via the β-TrCP/c-Myc/SRSF1 positive feedback loop

Yongzhen Mo, Yumin Wang, Yian Wang, Xiangying Deng, Qijia Yan, Chunmei Fan, Shuai Zhang, Shanshan Zhang, Zhaojian Gong, Lei Shi, Qianjin Liao, Can Guo, Yong Li, Guiyuan Li, Zhaoyang Zeng, Weihong Jiang, Wei Xiong & Bo Xiang
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 of Circular RNA circPVT1 promotes nasopharyngeal carcinoma metastasis via the β-TrCP/c-Myc/SRSF1 positive feedback loop

Yongzhen Mo, Yumin Wang, Yian Wang, Xiangying Deng, Qijia Yan, Chunmei Fan, Shuai Zhang, Shanshan Zhang, Zhaojian Gong, Lei Shi, Qianjin Liao, Can Guo, Yong Li, Guiyuan Li, Zhaoyang Zeng, Weihong Jiang, Wei Xiong & Bo Xiang
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 of Circular RNA circPVT1 promotes nasopharyngeal carcinoma metastasis via the β-TrCP/c-Myc/SRSF1 positive feedback loop

Yongzhen Mo, Yumin Wang, Yian Wang, Xiangying Deng, Qijia Yan, Chunmei Fan, Shuai Zhang, Shanshan Zhang, Zhaojian Gong, Lei Shi, Qianjin Liao, Can Guo, Yong Li, Guiyuan Li, Zhaoyang Zeng, Weihong Jiang, Wei Xiong & Bo Xiang
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 of Circular RNA circPVT1 promotes nasopharyngeal carcinoma metastasis via the β-TrCP/c-Myc/SRSF1 positive feedback loop

Yongzhen Mo, Yumin Wang, Yian Wang, Xiangying Deng, Qijia Yan, Chunmei Fan, Shuai Zhang, Shanshan Zhang, Zhaojian Gong, Lei Shi, Qianjin Liao, Can Guo, Yong Li, Guiyuan Li, Zhaoyang Zeng, Weihong Jiang, Wei Xiong & Bo Xiang
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...

A novel subtype to predict prognosis and treatment response with DNA driver methylation–transcription in ovarian cancer.

Yan Hou, Kang Li, Liuying Wang, Shuang Li, Min Zhang,, Yue Huang, Meng Wang, Liuchao Zhang & Zhenyi Xu
TableS1. Clinical data of ovarian cancer patients from TCGA and ICGC.
TableS2.Identified DNA driver methylation (DNAme) in TCGA, ICGC and GSE146556.
TableS3. The correlation between DNAme and corresponding mRNA expression in TCGA, ICGC and GSE146556. TableS4.Analysis of pathway enrichment (KEGG) and Gene Ontology (GO) of DNAme-associated mRNA in TCGA.
TableS5. Univariate Cox regression analysis of DNAme-associated mRNA. (P < 0.05)
TableS6. Analysis of pathway enrichment (KEGG) and Gene Ontology (GO) of...

Additional file 9 of Genomic Architecture of Yield Performance of an Elite Rice Hybrid Revealed by its Derived Recombinant Inbred Line and Their Backcross Hybrid Populations

Fan Zhang, Conghe Zhang, Xiuqin Zhao, Shuangbing Zhu, Kai Chen, Guixiang Zhou, Zhichao Wu, Min Li, Tianqing Zheng, Wensheng Wang, Zhi Yan, Qinyong Fei, Zhikang Li, Jinjie Chen & Jianlong Xu
Additional file 9: Fig. S4. Whole-genome variation of two parental lines of QYSM. a, Density and chromosome distribution of polymorphic SNPs between Q9311B and WSSM. b, The principal component analysis. c, Phylogenetic positions of two parental lines (Q9311B and WSSM) in the neighbor-joining tree of 1,946 rice accessions from 3 K-RG, in which the known information on the clades of 3 K-RG is indicated.

Additional file 2 of Inhibition of CISD2 promotes ferroptosis through ferritinophagy-mediated ferritin turnover and regulation of p62–Keap1–NRF2 pathway

Yanchun Li, Bing Xu, Xueying Ren, Luyang Wang, Yaqing Xu, Yefeng Zhao, Chen Yang, Chen Yuan, Huanjuan Li, Xiangmin Tong, Ying Wang & Jing Du
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 of Inhibition of CISD2 promotes ferroptosis through ferritinophagy-mediated ferritin turnover and regulation of p62–Keap1–NRF2 pathway

Yanchun Li, Bing Xu, Xueying Ren, Luyang Wang, Yaqing Xu, Yefeng Zhao, Chen Yang, Chen Yuan, Huanjuan Li, Xiangmin Tong, Ying Wang & Jing Du
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 6 of Oxidative stress genes in patients with esophageal squamous cell carcinoma: construction of a novel prognostic signature and characterization of tumor microenvironment infiltration

Wei Liu, Hao-Shuai Yang, Shao-Yi Zheng, Hong-He Luo, Yan-Fen Feng & Yi-Yan Lei
Additional file 6: Figure S2. (A, F, K) Comparison of the relationship between the clinical characteristics of patients between high- and low-risk groups in the training, testing, and entire sets, respectively. (B–E) The scatter diagram showed the relationship between gender (B), clinical stage (C), T stage (D), N stage (E) and the risk score in the training set. (G–J) The scatter diagram showed the relationship between gender (G), clinical stage (E), T stage (F), N...

Additional file 3 of Aberrant methylation of Serpine1 mediates lung injury in neonatal mice prenatally exposed to intrauterine inflammation

Dongting Yao, Jiuru Zhao, Qianqian Zhang, Tao Wang, Meng Ni, Sudong Qi, Qianwen Shen, Wei Li, Baihe Li, Xiya Ding & Zhiwei Liu
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 of Aberrant methylation of Serpine1 mediates lung injury in neonatal mice prenatally exposed to intrauterine inflammation

Dongting Yao, Jiuru Zhao, Qianqian Zhang, Tao Wang, Meng Ni, Sudong Qi, Qianwen Shen, Wei Li, Baihe Li, Xiya Ding & Zhiwei Liu
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 of Aberrant methylation of Serpine1 mediates lung injury in neonatal mice prenatally exposed to intrauterine inflammation

Dongting Yao, Jiuru Zhao, Qianqian Zhang, Tao Wang, Meng Ni, Sudong Qi, Qianwen Shen, Wei Li, Baihe Li, Xiya Ding & Zhiwei Liu
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 of Aberrant methylation of Serpine1 mediates lung injury in neonatal mice prenatally exposed to intrauterine inflammation

Dongting Yao, Jiuru Zhao, Qianqian Zhang, Tao Wang, Meng Ni, Sudong Qi, Qianwen Shen, Wei Li, Baihe Li, Xiya Ding & Zhiwei Liu
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 of Aberrant methylation of Serpine1 mediates lung injury in neonatal mice prenatally exposed to intrauterine inflammation

Dongting Yao, Jiuru Zhao, Qianqian Zhang, Tao Wang, Meng Ni, Sudong Qi, Qianwen Shen, Wei Li, Baihe Li, Xiya Ding & Zhiwei Liu
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 of Aberrant methylation of Serpine1 mediates lung injury in neonatal mice prenatally exposed to intrauterine inflammation

Dongting Yao, Jiuru Zhao, Qianqian Zhang, Tao Wang, Meng Ni, Sudong Qi, Qianwen Shen, Wei Li, Baihe Li, Xiya Ding & Zhiwei Liu
Additional file 7: Figure S7. Schematic representation of the molecular mechanisms underlying IUI-induced lung injury in neonatal mice.

Additional file 8 of TPM1 mediates inflammation downstream of TREM2 via the PKA/CREB signaling pathway

Rong Li, Jing Zhang, Qiong Wang, Meng Cheng & Bin Lin
Additional file 8: Figure S8. Validation of TPM1 and TREM2 in BV2 cells after transfection with control plasmid, TPM1 plasmid, or TPM1 and Trem2 plasmids. A mRNA level of TPM1 in BV2 cells after transfection with control plasmid, TPM1 plasmid, or TPM1 and Trem2 plasmids. Data are presented as mean ± SEM and analyzed by one-way ANOVA with Tukey’s multiple comparison test (compared to TPM1 plasmid, **p < 0.01). Five independent experiments were performed. B–D...

Additional file 11 of STING pathway contributes to the prognosis of hepatocellular carcinoma and identification of prognostic gene signatures correlated to tumor microenvironment

Zhangya Pu, Jinghua Liu, Zelong Liu, Fang Peng, Yuanyuan Zhu, Xiaofang Wang, Jiayan He, Panpan Yi, Xingwang Hu, Xuegong Fan & Jiang Chen
Additional file 11: Figure S7. Integrative analysis of the prognostic value of IRCGS in HCC patients and validation of its co-expressed correlation with five survival-related members of the STING pathway. K-M curve was performed to screen out three key IRCGS significantly associated with OS and DSS in the HCC cohort from TCGA database (A-D). The HCC dataset from ICGC database was used to validate the reliability of the co-expressed correlation of key IRCGS, namely VAV1...

Additional file 11 of STING pathway contributes to the prognosis of hepatocellular carcinoma and identification of prognostic gene signatures correlated to tumor microenvironment

Zhangya Pu, Jinghua Liu, Zelong Liu, Fang Peng, Yuanyuan Zhu, Xiaofang Wang, Jiayan He, Panpan Yi, Xingwang Hu, Xuegong Fan & Jiang Chen
Additional file 11: Figure S7. Integrative analysis of the prognostic value of IRCGS in HCC patients and validation of its co-expressed correlation with five survival-related members of the STING pathway. K-M curve was performed to screen out three key IRCGS significantly associated with OS and DSS in the HCC cohort from TCGA database (A-D). The HCC dataset from ICGC database was used to validate the reliability of the co-expressed correlation of key IRCGS, namely VAV1...

Additional file 15 of STING pathway contributes to the prognosis of hepatocellular carcinoma and identification of prognostic gene signatures correlated to tumor microenvironment

Zhangya Pu, Jinghua Liu, Zelong Liu, Fang Peng, Yuanyuan Zhu, Xiaofang Wang, Jiayan He, Panpan Yi, Xingwang Hu, Xuegong Fan & Jiang Chen
Additional file 15: Figure S11. The raw results of western blotting for the indicated gene.

Additional file 4 of STING pathway contributes to the prognosis of hepatocellular carcinoma and identification of prognostic gene signatures correlated to tumor microenvironment

Zhangya Pu, Jinghua Liu, Zelong Liu, Fang Peng, Yuanyuan Zhu, Xiaofang Wang, Jiayan He, Panpan Yi, Xingwang Hu, Xuegong Fan & Jiang Chen
Additional file 4: Figure S1. The calibration curves at 1-year, 3-year, and 5-year time points were drawn in TCGA-all (A-C) and ICGC (D, E) HCC datasets. The 5-year follow-up data for the ICGC dataset currently is deficient.

Registration Year

  • 2022
    486

Resource Types

  • Image
    486

Affiliations

  • Central South University
    486
  • Chinese Academy of Medical Sciences & Peking Union Medical College
    359
  • Shanghai Jiao Tong University
    345
  • Sichuan University
    304
  • Zhejiang University
    288
  • Huazhong University of Science and Technology
    281
  • Sun Yat-sen University
    279
  • Fudan University
    279
  • Shandong University
    255
  • Capital Medical University
    247