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BMC Bioinformatics

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  • By BMC Bioinformatics   -   Apr 13, 2021

    DECIPHERING HIERARCHICAL ORGANIZATION OF TOPOLOGICALLY ASSOCIATED DOMAINS THROUGH CHANGE-POINT TESTING

    The nucleus of eukaryotic cells spatially packages chromosomes into a hierarchical and distinct segregation that plays critical roles...

    Chromosomes, Methodology article
  • By BMC Bioinformatics   -   Apr 13, 2021

    EZMAP: EASY MICROBIOME ANALYSIS PLATFORM

    The rapid advances in next-generation sequencing technologies have revolutionized the microbiome research by greatly increasing our...

    Research, Microbes, Software
  • By BMC Bioinformatics   -   Apr 13, 2021

    OPTIMIZED PERMUTATION TESTING FOR INFORMATION THEORETIC MEASURES OF MULTI-GENE INTERACTIONS

    Permutation testing is often considered the “gold standard” for multi-test significance analysis, as it is an exact test requiring...

    Computers, Gene, Genes, Methodology article
  • By BMC Bioinformatics   -   Apr 13, 2021

    LOW-LEVEL VARIANT CALLING FOR NON-MATCHED SAMPLES USING A POSITION-BASED AND NUCLEOTIDE-SPECIFIC APPROACH

    The widespread use of next-generation sequencing has identified an important role for somatic mosaicism in many diseases. However,...

    Nucleotide, Nucleotides, Methodology article
  • By BMC Bioinformatics   -   Apr 13, 2021

    COMMON LOW COMPLEXITY REGIONS FOR SARS-COV-2 AND HUMAN PROTEOMES AS POTENTIAL MULTIDIRECTIONAL RISK FACTOR IN VACCINE DEVELOPMENT

    The rapid spread of the COVID-19 demands immediate response from the scientific communities. Appropriate countermeasures mean thoughtful...

    Vaccine, Vaccines, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    ESTABLISHING A CONSENSUS FOR THE HALLMARKS OF CANCER BASED ON GENE ONTOLOGY AND PATHWAY ANNOTATIONS

    The hallmarks of cancer provide a highly cited and well-used conceptual framework for describing the processes involved in cancer cell...

    Genes, Gene, Cancer, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    TO DENOISE OR TO CLUSTER, THAT IS NOT THE QUESTION: OPTIMIZING PIPELINES FOR COI METABARCODING AND METAPHYLOGEOGRAPHY

    The recent blooming of metabarcoding applications to biodiversity studies comes with some relevant methodological debates. One such...

    Biodiversity, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    MULTIBLOCK VARIABLE INFLUENCE ON ORTHOGONAL PROJECTIONS FOR ENHANCED INTERPRETATION OF TOTAL, GLOBAL, LOCAL AND UNIQUE VARIATIONS IN ONPLS MODELS

    For multivariate data analysis involving only two input matrices , the previously published methods for variable influence on projection...

    Methodology article
  • By BMC Bioinformatics   -   Apr 13, 2021

    IPCARF: IMPROVING LNCRNA-DISEASE ASSOCIATION PREDICTION USING INCREMENTAL PRINCIPAL COMPONENT ANALYSIS FEATURE SELECTION AND A RANDOM FOREST CLASSIFIER

    Identifying lncRNA-disease associations not only helps to better comprehend the underlying mechanisms of various human diseases at...

    Methodology article
  • By BMC Bioinformatics   -   Apr 13, 2021

    HARVESTMAN: A FRAMEWORK FOR HIERARCHICAL FEATURE LEARNING AND SELECTION FROM WHOLE GENOME SEQUENCING DATA

    Supervised learning from high-throughput sequencing data presents many challenges. For one, the curse of dimensionality often leads...

    Genome, Genomics, Methodology article
  • By BMC Bioinformatics   -   Apr 13, 2021

    SIX GENES INVOLVED IN PROGNOSIS OF HEPATOCELLULAR CARCINOMA IDENTIFIED BY COX HAZARD REGRESSION

    Hepatocellular carcinoma , derived from hepatocytes, is the main histological subtype of primary liver cancer and poses a serious threat...

    Human health, Health, Cancer, Gene, Genes, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    A NOVEL END-TO-END METHOD TO PREDICT RNA SECONDARY STRUCTURE PROFILE BASED ON BIDIRECTIONAL LSTM AND RESIDUAL NEURAL NETWORK

    Studies have shown that RNA secondary structure, a planar structure formed by paired bases, plays diverse vital roles in fundamental...

    RNA, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    AN INTRODUCTION TO NEW ROBUST LINEAR AND MONOTONIC CORRELATION COEFFICIENTS

    The most common measure of association between two continuous variables is the Pearson correlation (Maronna et al. in Safari an OMC....

    Methodology article
  • By BMC Bioinformatics   -   Apr 13, 2021

    PREDICTION AND ANALYSIS OF MULTIPLE PROTEIN LYSINE MODIFIED SITES BASED ON CONDITIONAL WASSERSTEIN GENERATIVE ADVERSARIAL NETWORKS

    Protein post-translational modification is a key issue to investigate the mechanism of protein's function. With the rapid development...

    Protein, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    RELIABLE GENOMIC STRATEGIES FOR SPECIES CLASSIFICATION OF PLANT GENETIC RESOURCES

    To address the need for easy and reliable species classification in plant genetic resources collections, we assessed the potential...

    Plants, Genetics, Genomics, Genome, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    FACTOR GRAPH-AGGREGATED HETEROGENEOUS NETWORK EMBEDDING FOR DISEASE-GENE ASSOCIATION PREDICTION

    Exploring the relationship between disease and gene is of great significance for understanding the pathogenesis of disease and developing...

    Genes, Therapeutics, Gene, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    BOOSTING HERITABILITY: ESTIMATING THE GENETIC COMPONENT OF PHENOTYPIC VARIATION WITH MULTIPLE SAMPLE SPLITTING

    Heritability is a central measure in genetics quantifying how much of the variability observed in a trait is attributable to genetic...

    Genetics, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    A NEW ALGORITHM TO TRAIN HIDDEN MARKOV MODELS FOR BIOLOGICAL SEQUENCES WITH PARTIAL LABELS

    Hidden Markov models are a powerful tool for analyzing biological sequences in a wide variety of applications, from profiling functional...

    Protein, Biological, Biology, Biologic, Methodology article
  • By BMC Bioinformatics   -   Apr 13, 2021

    IN SILICO COMPARATIVE STUDY OF SARS-COV-2 PROTEINS AND ANTIGENIC PROTEINS IN BCG, OPV, MMR AND OTHER VACCINES: EVIDENCE OF A POSSIBLE PUTATIVE PROTECTIVE EFFECT

    Coronavirus Disease 2019 is a viral pandemic disease that may induce severe pneumonia in humans. In this paper, we investigated the...

    Vaccines, Protein, Paper, Vaccine, Research article
  • By BMC Bioinformatics   -   Apr 13, 2021

    STRAIN-SPECIFIC BEHAVIOR OF MYCOBACTERIUM TUBERCULOSIS IN A549 LUNG CANCER CELL LINE

    A growing body of evidence has shown the association between tuberculosis infection and lung cancer. However, the possible effect of...

    Cancer, Research article