AIMC Topic: RNA, Long Noncoding

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Predicting lncRNA-disease associations using network topological similarity based on deep mining heterogeneous networks.

Mathematical biosciences Jul 16, 2019
A kind of noncoding RNA with length more than 200 nucleotides named long noncoding RNA (lncRNA) has gained considerable attention in recent decades. Many studies have confirmed that human genome contains many thousands of lncRNAs. LncRNAs play signif...
Humans Neoplasms MicroRNAs RNA, Long Noncoding Disease Susceptibility Beckwith-Wiedemann Syndrome Deep Learning Dementia Computational Biology
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Kinetics of -induced gene silencing can be predicted from combinations of epigenetic and genomic features.

Genome research Jun 7, 2019
To initiate X-Chromosome inactivation (XCI), the long noncoding RNA mediates chromosome-wide gene silencing of one X Chromosome in female mammals to equalize gene dosage between the sexes. The efficiency of gene silencing is highly variable across g...
X Chromosome Inactivation Kinetics Machine Learning Genome Embryonic Stem Cells Mice Cell Line Female Gene Silencing Epigenesis, Genetic RNA, Long Noncoding Animals Genes, X-Linked Models, Genetic
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Predicting miRNA-lncRNA interactions and recognizing their regulatory roles in stress response of plants.

Mathematical biosciences Apr 26, 2019
It has been found that each non-coding RNA (ncRNA) can act not only through its target gene, but also interact with each other to act on biological traits, and this interaction is more common. Many studies focus mainly on the analysis of microRNA(miR...
RNA, Long Noncoding Stress, Physiological Arabidopsis Models, Genetic Support Vector Machine MicroRNAs RNA, Plant Gene Regulatory Networks RNA, Messenger
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Prediction of Long Non-Coding RNAs Based on Deep Learning.

Genes Apr 3, 2019
With the rapid development of high-throughput sequencing technology, a large number of transcript sequences have been discovered, and how to identify long non-coding RNAs (lncRNAs) from transcripts is a challenging task. The identification and inclus...
Deep Learning Genetic Predisposition to Disease Computational Biology RNA, Messenger Humans Algorithms Models, Genetic RNA, Long Noncoding High-Throughput Nucleotide Sequencing
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TADKB: Family classification and a knowledge base of topologically associating domains.

BMC genomics Mar 14, 2019
BACKGROUND: Topologically associating domains (TADs) are considered the structural and functional units of the genome. However, there is a lack of an integrated resource for TADs in the literature where researchers can obtain family classifications a...
Chromatin Assembly and Disassembly Chromosomes, Mammalian Mice Genomics RNA, Long Noncoding Gene Expression Regulation Genome Knowledge Bases Multigene Family Humans Algorithms Animals
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RPITER: A Hierarchical Deep Learning Framework for ncRNA⁻Protein Interaction Prediction.

International journal of molecular sciences Mar 1, 2019
Non-coding RNAs (ncRNAs) play crucial roles in multiple fundamental biological processes, such as post-transcriptional gene regulation, and are implicated in many complex human diseases. Mostly ncRNAs function by interacting with corresponding RNA-bi...
Protein Binding Sequence Analysis, RNA RNA, Long Noncoding Sequence Analysis, Protein Machine Learning Software Animals Humans
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CRlncRC: a machine learning-based method for cancer-related long noncoding RNA identification using integrated features.

BMC medical genomics Dec 31, 2018
BACKGROUND: Long noncoding RNAs (lncRNAs) are widely involved in the initiation and development of cancer. Although some computational methods have been proposed to identify cancer-related lncRNAs, there is still a demanding to improve the prediction...
Epigenesis, Genetic RNA, Long Noncoding RNA, Neoplasm Machine Learning Humans Neoplasms Algorithms Computational Biology
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SFPEL-LPI: Sequence-based feature projection ensemble learning for predicting LncRNA-protein interactions.

PLoS computational biology Dec 11, 2018
LncRNA-protein interactions play important roles in post-transcriptional gene regulation, poly-adenylation, splicing and translation. Identification of lncRNA-protein interactions helps to understand lncRNA-related activities. Existing computational ...
Protein Binding Computational Biology RNA-Binding Proteins Humans RNA, Long Noncoding Base Sequence Machine Learning Databases, Protein Databases, Nucleic Acid Algorithms Amino Acid Sequence RNA Processing, Post-Transcriptional
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Deep learning identifies genome-wide DNA binding sites of long noncoding RNAs.

RNA biology Nov 28, 2018
Long noncoding RNAs (lncRNAs) can exert their function by interacting with the DNA via triplex structure formation. Even though this has been validated with a handful of experiments, a genome-wide analysis of lncRNA-DNA binding is needed. In this pap...
RNA, Long Noncoding DNA Gene Expression Regulation Deep Learning Humans Genome-Wide Association Study Binding Sites Reproducibility of Results Mice Animals
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Gene Ontology-based function prediction of long non-coding RNAs using bi-random walk.

BMC medical genomics Nov 20, 2018
BACKGROUND: With the development of sequencing technology, more and more long non-coding RNAs (lncRNAs) have been identified. Some lncRNAs have been confirmed that they play an important role in the process of development through the dosage compensat...
Computational Biology MicroRNAs RNA, Long Noncoding Stomach Neoplasms Humans Proteins Protein Interaction Maps Algorithms Gene Ontology Gene Regulatory Networks
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