Integrative machine learning framework for the identification of cell-specific enhancers from the human genome
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Title
Integrative machine learning framework for the identification of cell-specific enhancers from the human genome
Authors
Keywords
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Journal
BRIEFINGS IN BIOINFORMATICS
Volume -, Issue -, Pages -
Publisher
Oxford University Press (OUP)
Online
2021-06-16
DOI
10.1093/bib/bbab252
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- (2021) Dae Yeong Lim et al. CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS
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- (2021) Qiang Tang et al. MOLECULAR THERAPY
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- (2021) Kun Niu et al. Frontiers in Genetics
- iMRM:a platform for simultaneously identifying multiple kinds of RNA modifications
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- (2020) Shaherin Basith et al. MEDICINAL RESEARCH REVIEWS
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- (2020) Jianke Wang et al. mBio
- Remodeling of active endothelial enhancers is associated with aberrant gene-regulatory networks in pulmonary arterial hypertension
- (2020) Armando Reyes-Palomares et al. Nature Communications
- Controlling gene activation by enhancers through a drug-inducible topological insulator
- (2020) Taro Tsujimura et al. eLife
- iRNA5hmC: The First Predictor to Identify RNA 5-Hydroxymethylcytosine Modifications Using Machine Learning
- (2020) Yuan Liu et al. Frontiers in Bioengineering and Biotechnology
- Targeted chromatin conformation analysis identifies novel distal neural enhancers of ZEB2 in pluripotent stem cell differentiation
- (2020) Judith C Birkhoff et al. HUMAN MOLECULAR GENETICS
- Mutational bias and the protein code shape the evolution of splicing enhancers
- (2020) Stephen Rong et al. Nature Communications
- Endogenous retroviruses are a source of enhancers with oncogenic potential in acute myeloid leukaemia
- (2020) Özgen Deniz et al. Nature Communications
- Enhancer dependence of cell-type–specific gene expression increases with developmental age
- (2020) Wenqing Cai et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Critical evaluation of web-based DNA N6-methyladenine site prediction tools
- (2020) Md Mehedi Hasan et al. Briefings in Functional Genomics
- Empirical Comparison and Analysis of Web-Based DNA N4-Methylcytosine Site Prediction Tools
- (2020) Balachandran Manavalan et al. Molecular Therapy-Nucleic Acids
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- (2019) Nguyen Quoc Khanh Le et al. ANALYTICAL BIOCHEMISTRY
- SeqTailor: a user-friendly webserver for the extraction of DNA or protein sequences from next-generation sequencing data
- (2019) Peng Zhang et al. NUCLEIC ACIDS RESEARCH
- Super-enhancers: critical roles and therapeutic targets in hematologic malignancies
- (2019) Yunlu Jia et al. Journal of Hematology & Oncology
- Meta-4mCpred: A Sequence-Based Meta-Predictor for Accurate DNA 4mC Site Prediction Using Effective Feature Representation
- (2019) Balachandran Manavalan et al. Molecular Therapy-Nucleic Acids
- XG-PseU: an eXtreme Gradient Boosting based method for identifying pseudouridine sites
- (2019) Kewei Liu et al. MOLECULAR GENETICS AND GENOMICS
- iATP: A sequence based method for identifying anti-tubercular peptides
- (2019) Wei Chen et al. Medicinal Chemistry
- iEnhancer-ECNN: identifying enhancers and their strength using ensembles of convolutional neural networks
- (2019) Quang H. Nguyen et al. BMC GENOMICS
- SDM6A: A Web-Based Integrative Machine-Learning Framework for Predicting 6mA Sites in the Rice Genome
- (2019) Shaherin Basith et al. Molecular Therapy-Nucleic Acids
- iEnhancer-EL: Identifying enhancers and their strength with ensemble learning approach
- (2018) Bin Liu et al. BIOINFORMATICS
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- (2018) Mette Boyd et al. Nature Communications
- Computational analysis and prediction of lysine malonylation sites by exploiting informative features in an integrative machine-learning framework
- (2018) Yanju Zhang et al. BRIEFINGS IN BIOINFORMATICS
- Repurposing of promoters and enhancers during mammalian evolution
- (2018) Francesco N. Carelli et al. Nature Communications
- Bastion3: a two-layer ensemble predictor of type III secreted effectors
- (2018) Jiawei Wang et al. BIOINFORMATICS
- Identify origin of replication in Saccharomyces cerevisiae using two-step feature selection technique
- (2018) Fu-Ying Dao et al. BIOINFORMATICS
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- (2017) Guanxiong Zhang et al. NUCLEIC ACIDS RESEARCH
- DHSpred: support-vector-machine-based human DNase I hypersensitive sites prediction using the optimal features selected by random forest
- (2017) Balachandran Manavalan et al. Oncotarget
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- (2016) Hans-Martin Herz BIOESSAYS
- gkmSVM: an R package for gapped-kmer SVM
- (2016) Mahmoud Ghandi et al. BIOINFORMATICS
- EnhancerPred: a predictor for discovering enhancers based on the combination and selection of multiple features
- (2016) Cangzhi Jia et al. Scientific Reports
- iEnhancer-2L: a two-layer predictor for identifying enhancers and their strength by pseudok-tuple nucleotide composition
- (2015) Bin Liu et al. BIOINFORMATICS
- The selection and function of cell type-specific enhancers
- (2015) Sven Heinz et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Integrating Diverse Datasets Improves Developmental Enhancer Prediction
- (2014) Genevieve D. Erwin et al. PLoS Computational Biology
- RFECS: A Random-Forest Based Algorithm for Enhancer Identification from Chromatin State
- (2013) Nisha Rajagopal et al. PLoS Computational Biology
- CD-HIT: accelerated for clustering the next-generation sequencing data
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- Discover regulatory DNA elements using chromatin signatures and artificial neural network
- (2010) Hiram A. Firpi et al. BIOINFORMATICS
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