AIMC Topic: RNA, Long Noncoding

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Screening key lncRNAs for human lung adenocarcinoma based on machine learning and weighted gene co-expression network analysis.

Cancer biomarkers : section A of Disease markers Jan 1, 2019
BACKGROUND: Lung adenocarcinoma (LUAD) accounts for a significant proportion of lung cancer and there have been few diagnostic and therapeutic targets for LUAD due to the lack of specific biomarker. The aim of this study was to identify key long non-...
Humans Machine Learning Female Gene Regulatory Networks RNA, Long Noncoding Adenocarcinoma of Lung Male Gene Expression Profiling
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LncADeep: an ab initio lncRNA identification and functional annotation tool based on deep learning.

Bioinformatics (Oxford, England) Nov 15, 2018
MOTIVATION: To characterize long non-coding RNAs (lncRNAs), both identifying and functionally annotating them are essential to be addressed. Moreover, a comprehensive construction for lncRNA annotation is desired to facilitate the research in the fie...
Molecular Sequence Annotation Deep Learning Neural Networks, Computer RNA, Long Noncoding
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LncRNAnet: long non-coding RNA identification using deep learning.

Bioinformatics (Oxford, England) Nov 15, 2018
MOTIVATION: Long non-coding RNAs (lncRNAs) are important regulatory elements in biological processes. LncRNAs share similar sequence characteristics with messenger RNAs, but they play completely different roles, thus providing novel insights for biol...
High-Throughput Nucleotide Sequencing Open Reading Frames Databases, Genetic RNA, Long Noncoding Humans Deep Learning
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A deep recurrent neural network discovers complex biological rules to decipher RNA protein-coding potential.

Nucleic acids research Sep 19, 2018
The current deluge of newly identified RNA transcripts presents a singular opportunity for improved assessment of coding potential, a cornerstone of genome annotation, and for machine-driven discovery of biological knowledge. While traditional, featu...
Machine Learning Reproducibility of Results Computational Biology Humans Neural Networks, Computer RNA, Long Noncoding Base Sequence Protein Biosynthesis RNA, Messenger Sequence Analysis, RNA Open Reading Frames
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miRandola 2017: a curated knowledge base of non-invasive biomarkers.

Nucleic acids research Jan 4, 2018
miRandola (http://mirandola.iit.cnr.it/) is a database of extracellular non-coding RNAs (ncRNAs) that was initially published in 2012, foreseeing the relevance of ncRNAs as non-invasive biomarkers. An increasing amount of experimental evidence shows ...
Knowledge Bases RNA RNA, Untranslated RNA, Circular Data Curation MicroRNAs RNA, Long Noncoding Biomarkers Databases, Genetic Cell-Free Nucleic Acids User-Computer Interface Humans
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FARNA: knowledgebase of inferred functions of non-coding RNA transcripts.

Nucleic acids research Mar 17, 2017
Non-coding RNA (ncRNA) genes play a major role in control of heterogeneous cellular behavior. Yet, their functions are largely uncharacterized. Current available databases lack in-depth information of ncRNA functions across spectrum of various cells/...
Knowledge Bases Databases, Nucleic Acid Transcription Factors Humans MicroRNAs RNA, Long Noncoding
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FMLNCSIM: fuzzy measure-based lncRNA functional similarity calculation model.

Oncotarget Jul 19, 2016
Accumulating experimental studies have indicated the influence of lncRNAs on various critical biological processes as well as disease development and progression. Calculating lncRNA functional similarity is of high value in inferring lncRNA functions...
Gene Expression Profiling Transcriptome Computational Biology Fuzzy Logic Gene Regulatory Networks Humans Computer Simulation RNA, Long Noncoding
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LncRNA ontology: inferring lncRNA functions based on chromatin states and expression patterns.

Oncotarget Nov 24, 2015
Accumulating evidences suggest that long non-coding RNAs (lncRNAs) perform important functions. Genome-wide chromatin-states area rich source of information about cellular state, yielding insights beyond what is typically obtained by transcriptome pr...
Chromatin Transcription Initiation Site RNA, Long Noncoding Gene Expression Profiling HeLa Cells Cell Line, Tumor Cells, Cultured Humans Methylation Neoplasms Algorithms RNA, Messenger Hep G2 Cells Models, Genetic Gene Regulatory Networks Cell Line Promoter Regions, Genetic Histones Lysine Gene Ontology K562 Cells
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