Accumulating evidence demonstrates that long non-coding RNAs (lncRNAs) play important roles in the development of complex human diseases. Predicting novel lncRNA–disease associations is a challenging and essential task.

Background Increasing evidence has demonstrated the functional relevance of long non-coding RNAs (lncRNAs) to immunity regulation and tumor microenvironment in non-small cell lung cancer (NSCLC). However, immune infiltration-associated lncRNAs their value improving clinical outcomes immunotherapy remain largely unexplored. Methods We developed a computational approach identify an lncRNA signature (TILSig) as indicator infiltration patients with NSCLC through integrative analysis for lncRNA,...

Abstract Summary DincRNA aims to provide a comprehensive web-based bioinformatics toolkit elucidate the entangled relationships among diseases and non-coding RNAs (ncRNAs) from perspective of disease similarity. The quantitative way illustrate pair-wise always depends on their molecular mechanisms, structures directed acyclic graph Disease Ontology (DO). Corresponding methods for calculating similarity involve Resnik’s, Lin’s, Wang’s, PSB SemFunSim methods. Recently, was validated suitable...

// Meng Zhou 1,* , Xiaojun Wang Hongbo Shi 1 Liang Cheng Zhenzhen Hengqiang Zhao Lei Yang and Jie Sun College of Bioinformatics Science Technology, Harbin Medical University, Harbin, PR China * These authors have contributed equally to this work Correspondence to: Sun, email: Keywords : biomarker, competing endogenous RNA, long non-coding ovarian cancer Received October 12, 2015 Accepted January 24, 2016 Published February 03, Abstract Accumulating evidence has underscored the important...

Diffuse large B-cell lymphoma (DLBCL) is an aggressive and complex disease characterized by wide clinical, phenotypic molecular heterogeneities. The expression pattern clinical implication of long non-coding RNAs (lncRNAs) between germinal center B-cell-like (GCB) activated (ABC) subtypes in DLBCL remain unclear. This study aims to determine whether lncRNA can serve as predictive biomarkers for subtype classification prognosis DLBCL.Genome-wide comparative analysis profiles were performed a...

Abstract Long noncoding RNAs (lncRNAs) have been associated with cancer immunity regulation and the tumor microenvironment (TME). However, functions of lncRNAs tumor-infiltrating B lymphocytes (TIL-Bs) their clinical significance not yet fully elucidated. In present study, a machine learning-based computational framework is presented for identification lncRNA signature TIL-Bs (named ‘TILBlncSig’) through integrative analysis immune, profiles. The TILBlncSig comprising eight (TNRC6C-AS1,...

Accumulated evidence has shown that long non-coding RNAs (lncRNA) act as a widespread layer in gene regulatory networks and are involved wide range of biological processes.

Dysregulated long non-coding RNAs (lncRNAs) have been found to oncogenic and/or tumor suppressive roles in the development and progression of cancer, implying their potentials as novel independent biomarkers for cancer diagnosis prognosis. However, prognostic significance expression profile-based lncRNA signature outcome prediction patients with multiple myeloma (MM) has not yet investigated. LncRNA profiles a large cohort MM were obtained analyzed by repurposing publically available...

Accumulated evidence suggests that dysregulated expression of long non-coding RNAs (lncRNAs) may play a critical role in tumorigenesis and prognosis cancer, indicating the potential utility lncRNAs as cancer prognostic or diagnostic markers. However, power lncRNA signatures predicting survival patients with non-small cell lung (NSCLC) has not yet been investigated.We performed an array-based transcriptional analysis large patient cohorts NSCLC by repurposing microarray probes from gene...

// Meng Zhou 1, * , Zhiyong Diao 2, Xiaolong Yue 3, Yang Chen 1 Hengqiang Zhao Liang Cheng Jie Sun College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, 150081, PR China 2 Department Plastic Surgery, the First Affiliated Hospital 150001, 3 Oncology Department, Tumor Hospital, These authors contributed equally to this work Correspondence to: Sun, email: suncarajie@hotmail.com Cheng, liangcheng@hrbmu.edu.cn Keywords: competing endogenous RNAs, ceRNA network,...

There is growing evidence of dysregulated long non-coding RNAs (lncRNAs) serving as potential biomarkers for cancer prognosis. However, systematic efforts searching an expression-based lncRNA signature prognosis prediction in ovarian (OvCa) have not been made yet. Here, we performed comprehensive analysis expression profiles and clinical data 544 OvCa patients from The Cancer Genome Atlas (TCGA), identified eight-lncRNA with ability to classify the training cohort into high-risk group...

The application of circulating, cell-free, methylated Septin9 (mSEPT9) DNA in screening and recurrence monitoring is highly promising. CpG island methylator phenotype (CIMP) associated with microsatellite instability (MSI). present study was performed to determine the diagnostic accuracy mSEPT9 for colorectal cancer (CRC) evaluate its utility CRC monitoring.For diagnosis CRC, peripheral detection fecal occult blood test (FOBT) were 650 subjects, then level CEA, CA19-9 CA724 quantified 173...

The synergism between cardiomyogenesis and angiogenesis is essential for cardiac regeneration. Circular RNAs (circRNAs) play pivotal roles in cell growth angiogenesis, but their functions regeneration are not yet known. In this study, we investigated the role underlying mechanisms of circRNA Hipk3 (circHipk3) both during We found that circHipk3 was overexpressed fetal or neonatal heart mice. transcription factor Gata4 bound to promoter increased expression. Cardiomyocyte (CM) proliferation...

Complex diseases cannot be understood only on the basis of single gene, mRNA transcript or protein but effect their collaborations. The combination consequence in molecular level can captured by alterations metabolites. With rapidly developing biomedical instruments and analytical platforms, a large number metabolite signatures complex were identified documented literature. Biologists' hardship face this amount papers recorded metabolic experiments' results calls for an automated data...

Patients with colon cancer are often faced a high risk of disease recurrence within 5 years treatment that is the major cause mortality. Reliable molecular markers were required to improve most effective personalized therapy. Here, we identified recurrence-associated six-lncRNA (long non-coding RNA) signature (LINC0184, AC105243.1, LOC101928168, ILF3-AS1, MIR31HG, and AC006329.1) can effectively distinguish between low from 389 patients discovery dataset, validated its robust performance in...

Abstract Long non-coding RNAs (lncRNAs) have been implicated in a variety of biological processes and dysregulated lncRNAs demonstrated potential roles as biomarkers therapeutic targets for cancer prognosis treatment. In this study, by repurposing microarray probes, we analyzed lncRNA expression profiles 916 breast patients from the Gene Expression Omnibus (GEO). Nine were identified to be significantly associated with metastasis-free survival (MFS) training dataset 254 using Cox...

Abstract Deregulation of long non-coding RNAs (lncRNAs) expression has been proven to be involved in the development and progression cancer. However, pattern prognostic value lncRNAs breast cancer recurrence remain unclear. Here, we analyzed lncRNA profiles patients who did or not develop by repurposing existing microarray datasets from Gene Expression Omnibus database, identified 12 differentially expressed that were closely associated with tumor patients. We constructed a lncRNA-focus...

Since the establishment of first biomedical ontology Gene Ontology (GO), number has increased dramatically. Nowadays over 300 ontologies have been built including extensively used Disease (DO) and Human Phenotype (HPO). Because advantage identifying novel relationships between terms, calculating similarity terms is one major tasks in this research area. Though similarities within each studied with silico methods, term across different were not investigated as deeply. The latest method took...

An emerging body of evidence has recently recognized the coexistence epithelial-mesenchymal transition (EMT) and immune response. However, a systems-level view survey interplay between EMT escape program, their impact on tumor behavior clinical outcome across various types cancer is lacking. Here, we performed comprehensive multi-omics analyses to characterize landscape crosstalk evasion relevance 17 solid cancer. Our study showed presence complex dynamic immunomodulatory shared by...