Improved Prognostic Prediction of Glioblastoma using a PAS Detected from Single-cell RNA-seq.

Abstract:

:Glioblastoma (GBM) is a common malignant brain tumor of the central nervous system with a poor prognosis. In order to identify the prognostic signatures of GBM, we screened differentially expressed genes (DEGs) that were based on a single-cell RNA sequencing (scRNA-seq) dataset. These genes characteristically represent the intra-tumor heterogenicity of glioblastoma. Moreover, we performed univariate analysis, log-rank test and multivariate Cox regression analyses to confirm a gene set that could be related to the overall survival (OS) among DEGs. Prognostic associated signatures (PAS) were utilized to construct a model for predicting OS in GBM patients. When considering either the training or the validation sets, time-dependent receiver operating characteristic (ROC) curves all indicated that our model displayed an excellent predictive ability. Additionally, we analyzed PAS at the single-cell level and found that the PAS score was associated with somatic mutations and clinical factors. Three factors, which included the PAS score, radiotherapy status, and age, were all used to establish a nomogram to predict the 6-month and 1-year survival probabilities. In conclusion, we constructed an optimal model that was derived from scRNA-seq to better predict the survival probability of GBM patients. These genes might also act as potential prognostic biomarkers and enable surgeons to develop individually therapeutic schedules and improve the prognosis of GBM patients.

journal_name

J Cancer

journal_title

Journal of Cancer

authors

Liu H,Yang Q,Xiong Y,Xiong Z,Li X

doi

10.7150/jca.44034

subject

Has Abstract

pub_date

2020-04-06 00:00:00

pages

3751-3761

issue

13

issn

1837-9664

pii

jcav11p3751

journal_volume

11

pub_type

杂志文章
  • A Phase II Study of Concurrent Docetaxel, Epirubicin and Cyclophosphamide as a Neoadjuvant Chemotherapy Regimen in Patients with Locally Advanced Breast Cancer.

    abstract:BACKGROUND:Neoadjuvant chemotherapy with concurrent docetaxel, doxorubicin and cyclophosphamide is commonly used for patients with locally advanced breast cancer. Epirubicin is another anthracycline used in breast cancer but the concurrent use of epirubicin and taxane is not well-established. We conducted a single inst...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.3980

    authors: Yao X,Hosenpud J,Chitambar CR,Charlson J,Cheng YC

    更新日期:2012-01-01 00:00:00

  • Interaction between fasting blood glucose and tumor embolus in predicting the postoperative prognosis of 4330 Chinese patients with gastrointestinal tract cancer.

    abstract::Objectives: We aimed to investigate the interaction between fasting blood glucose and tumor embolus, and the potential mediation effect of fasting blood glucose on tumor embolus in predicting gastrointestinal tract cancer-specific mortality risk postoperatively. Methods and Results: 4330 patients were consecutively re...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.34843

    authors: Hu D,Zhang X,Lin X,Zhang H,Xia Y,Lin J,Zheng X,Peng F,Niu W

    更新日期:2020-01-01 00:00:00

  • Gustave Roussy Immune Score (GRIm-Score) is a prognostic marker in patients with resectable esophageal squamous cell carcinoma.

    abstract::Background: The Gustave Roussy Immune Score (GRIm-Score) was initially reported to select patients for immunotherapy. Therefore, the purpose of the current retrospective study was to determine whether GRIm-Score, a novel nutritional and inflammatory-based prognostic score, is a useful prognostic marker in patients wit...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.37898

    authors: Feng JF,Wang L,Yang X,Chen S

    更新日期:2020-01-01 00:00:00

  • The Identification of Potential Biomarkers and Biological Pathways in Prostate Cancer.

    abstract::Purpose: The present study aims to explore the potential mechanisms contributing to prostate cancer (PCa), screen the hub genes, and identify potential biomarkers and correlated pathways of PCa progression. Methods: The PCa gene expression profile GSE3325 was operated to analyze the differentially expressed genes (DEG...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.29571

    authors: Song Z,Huang Y,Zhao Y,Ruan H,Yang H,Cao Q,Liu D,Zhang X,Chen K

    更新日期:2019-02-23 00:00:00

  • Eribulin in Triple Negative Metastatic Breast Cancer: Critic Interpretation of Current Evidence and Projection for Future Scenarios.

    abstract::Triple negative breast cancer (TNBC) is characterized by distinctive biological features that confer an aggressive clinical behavior. In TNBC patients, the absence of well-defined driver pathways such as hormonal receptor expression or hyperactivation of the human epidermal growth factor receptor 2 (HER2) significantl...

    journal_title:Journal of Cancer

    pub_type: 杂志文章,评审

    doi:10.7150/jca.35109

    authors: Pizzuti L,Krasniqi E,Barchiesi G,Mazzotta M,Barba M,Amodio A,Massimiani G,Pelle F,Kayal R,Vizza E,Grassadonia A,Tomao S,Venuti A,Gamucci T,Marchetti P,Natoli C,Sanguineti G,Ciliberto G,Vici P

    更新日期:2019-10-12 00:00:00

  • A meta-analysis of the short- and long-term results of randomized controlled trials that compared laparoscopy-assisted and conventional open surgery for colorectal cancer.

    abstract:PURPOSE:We conducted a meta-analysis to evaluate and compare the short- and long-term results of laparoscopic colorectal surgery (LCRS) and conventional open surgery (OCRS) for colorectal cancer (CRC). METHODS:We searched relevant papers published between January 1990 and May 2011. We analyzed the outcomes of each typ...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.2.425

    authors: Ohtani H,Tamamori Y,Arimoto Y,Nishiguchi Y,Maeda K,Hirakawa K

    更新日期:2011-01-01 00:00:00

  • PD-1 and PD-L1 Expression Predicts Radiosensitivity and Clinical Outcomes in Head and Neck Cancer and is Associated with HPV Infection.

    abstract::Objectives: PD-1 and PD-L1 overexpression in malignant tumors in response to radiotherapy is correlated with a poor prognosis. Human papilloma virus (HPV) infection impacts intrinsic radiosensitivity of head and neck cancers (HNCs). Herein, this study aims to determine PD-1/PD-L1 expression differences in tumors with ...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.27199

    authors: Lyu X,Zhang M,Li G,Jiang Y,Qiao Q

    更新日期:2019-01-29 00:00:00

  • Prognostic Impact of TTF-1 Expression in Non-Squamous Non-Small-Cell Lung Cancer: A Meta-Analysis.

    abstract::Thyroid transcription factor-1 (TTF-1) is overexpressed in up to 95% of primary lung adenocarcinoma while negative for almost all squamous cell carcinomas. TTF-1 expression has been investigated as a prognostic factor in non-small-cell lung cancer (NSCLC) with conflicting results. We conducted this meta-analysis to ga...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.26830

    authors: Kim JH,Kim HS,Kim BJ,Han B,Choi DR,Kwon JH

    更新日期:2018-10-20 00:00:00

  • Identifying DCN and HSPD1 as Potential Biomarkers in Colon Cancer Using 2D-LC-MS/MS Combined with iTRAQ Technology.

    abstract::Colon cancer is one of the most common types of gastrointestinal cancers and the fourth cause of cancer death worldwide. To discover novel diagnostic biomarkers for colon cancer and investigate potential mechanisms of oncogenesis, quantitative proteomic approach using iTRAQ-tagging and 2D-LC-MS/MS was performed to cha...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.17192

    authors: Li G,Li M,Liang X,Xiao Z,Zhang P,Shao M,Peng F,Chen Y,Li Y,Chen Z

    更新日期:2017-02-11 00:00:00

  • Characterization of the Role of the Malate Dehydrogenases to Lung Tumor Cell Survival.

    abstract::Cellular compartmentalization of biochemical processes in eukaryotic cells is critical for many functions including shuttling of reducing equivalents across membranes. Although coordination of metabolic flux between different organelles is vital for cell physiology, its impact on tumor cell survival is not well unders...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.19373

    authors: Zhang B,Tornmalm J,Widengren J,Vakifahmetoglu-Norberg H,Norberg E

    更新日期:2017-07-05 00:00:00

  • Systematic Analysis of Gene Expression Alteration and Co-Expression Network of Eukaryotic Initiation Factor 4A-3 in Cancer.

    abstract::Purpose: Eukaryotic initiation factor 4A-3 (EIF4A3) is an RNA-binding protein (RBP) that is a core component of the exon junction complex (EJC). It has been identified as an important player in post-transcriptional regulation processes. Recently, investigations have focused on EIF4A3 dysfunction in carcinogenesis. The...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.27655

    authors: Lin Y,Zhang J,Cai J,Liang R,Chen G,Qin G,Han X,Yuan C,Liu Z,Li Y,Zou D,Mao Y

    更新日期:2018-11-11 00:00:00

  • Long noncoding RNA LINC01391 restrained gastric cancer aerobic glycolysis and tumorigenesis via targeting miR-12116/CMTM2 axis.

    abstract::Increasing studies indicate that long noncoding RNA (lncRNA) plays a critical role in aerobic glycolysis of various tumors. However, the contribution of lncRNA in gastric cancer (GC) cell glycolysis is still poorly understood. The objective of this research was to investigate the functional role and mechanism of lncRN...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.48365

    authors: Qian C,Xu Z,Chen L,Wang Y,Yao J

    更新日期:2020-08-27 00:00:00

  • Total PC Activity Is Increased in Uterine Lavage of Post-Menopausal Endometrial but Not Ovarian Cancer Patients.

    abstract::Endometrial and ovarian cancers are two most common cancers affecting women in their post-menopausal years. To date, there are no simple biochemical tests to detect these cancers at early stages. Our previous study has demonstrated that the activity of total proprotein convertases (PCs) is significantly increased in u...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.16331

    authors: Heng S,Stephens AN,Jobling TW,Nie G

    更新日期:2016-08-12 00:00:00

  • Statins Dose-Dependently Exert Significant Chemopreventive Effects Against Various Cancers in Chronic Obstructive Pulmonary Disease Patients: A Population-Based Cohort Study.

    abstract::PURPOSE: Chronic obstructive pulmonary disease (COPD) is associated with an increased cancer risk. We evaluated the chemopreventive effect of statins against all cancers in COPD patients and identified the statin with the strongest chemopreventive effect. PATIENTS AND METHODS: All patients diagnosed with COPD at healt...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.15779

    authors: Chen CC,Hsu YP,Liu JC,Kao PF,Sung LC,Lin CF,Hao WR,Liu SH,Wu SY

    更新日期:2016-09-13 00:00:00

  • Risk factors and prognostic predictors for Cervical Cancer patients with lung metastasis.

    abstract::Background: The most common metastatic site in cervical cancers is lung. The aim of this study is to identify cervical cancer patients with high risk for developing lung metastasis and further explore their prognosis. Materials and Methods: At first, patients diagnosed with cervical cancer from 2010 to 2015 were ident...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.46258

    authors: Chen X,Chen L,Zhu H,Tao J

    更新日期:2020-08-08 00:00:00

  • Secretory Clusterin Mediates Oxaliplatin Resistance via the Gadd45a/PI3K/Akt Signaling Pathway in Hepatocellular Carcinoma.

    abstract::Purpose: Systemic therapy has often been used for patients with advanced hepatocellular carcinoma (HCC). However, due to drug resistance, the use of cytotoxic chemotherapy in the treatment of patients with advanced HCC has typically demonstrated low response rates. Secretory clusterin (sCLU) is expressed in aggressive...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.23849

    authors: Wang X,Zou F,Zhong J,Yue L,Wang F,Wei H,Yang G,Jin T,Dong X,Li J,Xiu P

    更新日期:2018-04-06 00:00:00

  • Surgery plus chemotherapy improves survival of patients with extremity soft tissue leiomyosarcoma and metastasis at presentation.

    abstract::Purpose: Extremity soft tissue leiomyosarcoma (LMS) with metastasis is a rare disease with a poor prognosis. The purpose of our study was to define clinical features of extremity soft tissue LMS with metastasis as well as to identify multivariable predictors of survival. Methods: During 1973-2015, 239 patients with me...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.29874

    authors: Qian SJ,Wu JQ,Wang Z,Zhang B

    更新日期:2019-05-21 00:00:00

  • Risk Factors of Lymph Node Metastasis in Patients with Early Pure and Mixed Signet Ring Cell Gastric Carcinomas.

    abstract::Background: Early gastric carcinoma (EGC) with pure signet ring cell carcinoma (pSRCC) has been reported to have favourable prognosis and low risk of lymph node metastasis (LNM). However, risk factors of LNM and clinicopathological features for early gastric mixed signet ring cell carcinoma (mSRCC) remain poorly inves...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.29245

    authors: Hu Q,Dekusaah R,Cao S,Pang T,Wang Y,Zhang B,Lv Y,Zhang X,Ling T,Zhuge Y,Wang L,Zou X,Zhang W,Huang Q,Xu G

    更新日期:2019-01-29 00:00:00

  • Increased Prevalence of Esophageal Cancer in Areas with High Levels of Nickel in Farm Soils.

    abstract::Background: Heavy metal pollution in farm soils is a grave concern in Taiwan. Previously, we found the incidence of oral cancer (OC) correlated positively with levels of nickel and arsenic in farm soils. Many OC patients have a second malignancy, among which esophageal cancer (EC) is the most common one in Taiwan. Obj...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.15441

    authors: Lee CP,Lee YH,Lian IB,Su CC

    更新日期:2016-08-06 00:00:00

  • Association of Body Mass Index Changes during Neoadjuvant Chemotherapy with Pathologic Complete Response and Clinical Outcomes in Patients with Locally Advanced Breast Cancer.

    abstract::The purpose of this study was to determine the association between body mass index (BMI) measurements (baseline BMI and changes in BMI during neoadjuvant systemic treatment [NST]) and clinical efficacy (pathologic complete response [pCR] rate and survival outcomes) in locally advanced breast cancer (LABC). We hypothes...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.10580

    authors: Kogawa T,Fouad TM,Wei C,Masuda H,Kai K,Fujii T,El-Zein R,Chavez-MacGregor M,Litton JK,Brewster A,Alvarez RH,Hortobagyi GN,Valero V,Theriault R,Ueno NT

    更新日期:2015-01-22 00:00:00

  • A quick, cost-free method of purification of DNA fragments from agarose gel.

    abstract::In this short communication we report a quick, cost-free method of purification of DNA fragments from agarose gel. Unlike those procedures that involve commercial kits, this method uses glass wool or absorbent cotton to filter agarose gel during a quick spinning-down of DNA, thus significantly simplifying the routine ...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.4163

    authors: Sun Y,Sriramajayam K,Luo D,Liao DJ

    更新日期:2012-01-01 00:00:00

  • The development of bronchoscopy in China: a national cross-sectional study.

    abstract::Objective: To investigate the development of bronchoscopy in China and compare it with its application in the early 21st century. Methods: The data collection was based on questionnaires. Three hundred and nineteen hospitals, which distributed across 30 provinces and 130 cities, were included in the study. Data about ...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.47183

    authors: Shi D,Li F,Wang K,Kong C,Huang H,Li Q,Jin F,Hu C,Wang C,Shi H,Hu Z,Dong Y,Ning Y,Tsakiridis K,Sapalidis K,Kosmidis C,Vagionas A,Hohenforst-Schmidt W,Freitag L,Turner JF,Drevelegas K,Perdikouri EI,Kovacevic T,

    更新日期:2020-07-20 00:00:00

  • Gene expression and single nucleotide polymorphism of ATP7B are associated with platinum-based chemotherapy response in non-small cell lung cancer patients.

    abstract::Objectives: Platinum-based chemotherapy is first-line treatment for non-small cell lung cancer (NSCLC) patients. The efficacy is limited by drug resistance. Recent studies suggest that ATP7B, a copper efflux transporter, may be involved in platinum resistance. However, the clinical significance of ATP7B expression in ...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.26286

    authors: Li YQ,Chen J,Yin JY,Liu ZQ,Li XP

    更新日期:2018-09-08 00:00:00

  • Integrative Oncology Physician Consultations at a Comprehensive Cancer Center: Analysis of Demographic, Clinical and Patient Reported Outcomes.

    abstract::Background: Integrative oncology (IO) is a relatively new field that seeks to bring evidence-based, non-conventional approaches into conventional oncology care in a coordinated and safe manner. Though complementary and alternative medicine (CAM) are highly utilized by cancer patients, little is known about the charact...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.17506

    authors: Lopez G,McQuade J,Cohen L,Williams JT,Spelman AR,Fellman B,Li Y,Bruera E,Lee RT

    更新日期:2017-02-10 00:00:00

  • Loss of LKB1 Expression Decreases the Survival and Promotes Laryngeal Cancer Metastasis.

    abstract::Background: Given recent results indicating that diminished LKB1 expression in laryngeal cancer correlates with shorter survival. We aim to perform an analysis estimate the role of decreased liver kinase B1(LKB1) and in the prognostication of human laryngeal squamous cell carcinoma (LSCC). Methods: We conducted a retr...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.20535

    authors: He SS,Chen Y,Wang HZ,Shen XM,Sun P,Dong J,Liao XB,Guo GF,Chen JG,Xia LP,Hu PL,Qiu HJ,Liu SS,Zhou YX,Wang W,Hu WH,Cai XY

    更新日期:2017-09-30 00:00:00

  • miR-365a-3p regulates ADAM10-JAK-STAT signaling to suppress the growth and metastasis of colorectal cancer cells.

    abstract::Purpose: MicroRNAs (miRNAs) are key regulators of the growth and development of a wide range of cancer types such as colorectal cancer (CRC). A number of previously studies have observed that the levels of miR-365a-3p expression are dysregulated in many cancers, but the specific role of this miRNA in CRC and its assoc...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.42731

    authors: Hong YG,Xin C,Zheng H,Huang ZP,Yang Y,Zhou JD,Gao XH,Hao L,Liu QZ,Zhang W,Hao LQ

    更新日期:2020-03-26 00:00:00

  • Clinical Significance of microRNA-196b-5p in Hepatocellular Carcinoma and its Potential Molecular Mechanism.

    abstract::Objective: To enquire into the clinical significance and potential molecular mechanism of microRNA (miRNA)-196b-5p in hepatocellular carcinoma (HCC). Methods: Quantitative reverse transcription and polymerase chain reaction (qRT-PCR) were utilized to examine miR-196b-5p expression level in 67 HCC paraffin embedded tis...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.29293

    authors: Zhang L,Luo B,Dang YW,He RQ,Peng ZG,Chen G,Feng ZB

    更新日期:2019-08-29 00:00:00

  • In vivo Antitumor Effect of an HPV-specific Promoter driving IL-12 Expression in an HPV 16-positive Murine Model of Cervical Cancer.

    abstract::Human papillomavirus (HPV) is a DNA virus that infects epithelial cells and has been implicated in the development of cervical cancer. Few therapeutic strategies have been designed for the treatment of cervical intraepithelial neoplasia, a precursor of cervical cancer. In these early stages, the HPV E2 protein is the ...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.15536

    authors: Bermúdez-Morales VH,Fierros-Zarate G,García-Meléndrez C,Alcocer-Gonzalez JM,Morales-Ortega A,Peralta-Zaragoza O,Torres-Poveda K,Burguete-García AI,Hernández-Márquez E,Madrid-Marina V

    更新日期:2016-09-27 00:00:00

  • A Clinical Study of a Cell-Based MAGE-A3 Active Immunotherapy in Advanced Melanoma Patients.

    abstract::In this bi-institutional study, twenty-three stage IIIC-IV MAGE-A3(+) melanoma patients were vaccinated with M3TK-GML biweekly at three dose levels, with a subsequent phase of vaccinations at the maximum dose level. Anti-MAGE-A3 and anti-TK T cells were assessed by in vitro assay and delayed-type hypersensitivity skin...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.2.329

    authors: Russo V,Lunghi F,Fontana R,Bregni M

    更新日期:2011-01-01 00:00:00

  • Treatment of Neuroblastoma with an Engineered "Obligate" Anaerobic Salmonella typhimurium Strain YB1.

    abstract::Purpose Neuroblastoma is an embryonic solid tumor derived from the progenitors of the sympathetic nervous system. More than half of the patients developed metastatic disease at the time of initial diagnosis and had poor outcome with current therapeutic approaches. In recent years, some obligate and facultative anaerob...

    journal_title:Journal of Cancer

    pub_type: 杂志文章

    doi:10.7150/jca.18776

    authors: Ning BT,Yu B,Chan S,Chan JL,Huang JD,Chan GC

    更新日期:2017-06-03 00:00:00