BMC Bioinformatics

DEEPPN: A DEEP PARALLEL NEURAL NETWORK BASED ON CONVOLUTIONAL NEURAL NETWORK AND GRAPH CONVOLUTIONAL NETWORK FOR PREDICTING RNA-PROTEIN BINDING SITES

Addressing the laborious nature of traditional biological experiments by using an efficient computational approach to analyze RNA-binding...

HYB4MC: A HYBRID DNA2VEC-BASED MODEL FOR DNA N4-METHYLCYTOSINE SITES PREDICTION

DNA N4-methylcytosine is part of the restrictive modification system, which works by regulating some biological processes, for example,...

MULTI-PROBE ATTENTION NEURAL NETWORK FOR COVID-19 SEMANTIC INDEXING

The COVID-19 pandemic has increasingly accelerated the publication pace of scientific literature. How to efficiently curate and index...

CORRECTION: FITTING GAUSSIAN MIXTURE MODELS ON INCOMPLETE DATA

A VIRUS-TARGET HOST PROTEINS RECOGNITION METHOD BASED ON INTEGRATED COMPLEXES DATA AND SEED EXTENSION

Target drugs play an important role in the clinical treatment of virus diseases. Virus-encoded proteins are widely used as targets...

SAPFIR: A WEBSERVER FOR THE IDENTIFICATION OF ALTERNATIVE PROTEIN FEATURES

Alternative splicing can increase the diversity of gene functions by generating multiple isoforms with different sequences and functions....

A STATE-OF-THE-ART TECHNIQUE TO PERFORM CLOUD-BASED SEMANTIC SEGMENTATION USING DEEP LEARNING 3D U-NET ARCHITECTURE

Glioma is the most aggressive and dangerous primary brain tumor with a survival time of less than 14 months. Segmentation of tumors...

RAE1 IS A PROGNOSTIC BIOMARKER AND IS CORRELATED WITH CLINICOPATHOLOGICAL CHARACTERISTICS OF PATIENTS WITH HEPATOCELLULAR CARCINOMA

Hepatocellular carcinoma is a primary malignant tumor that accounts for approximately 90% of all cases of primary liver cancer worldwide....

PREDICTING THE PATHOGENICITY OF BACTERIAL GENOMES USING WIDELY SPREAD PROTEIN FAMILIES

The human body is inhabited by a diverse community of commensal non-pathogenic bacteria, many of which are essential for our health....

MOMENT ESTIMATORS OF RELATEDNESS FROM LOW-DEPTH WHOLE-GENOME SEQUENCING DATA

Estimating relatedness is an important step for many genetic study designs. A variety of methods for estimating coefficients of pairwise...

MACHINE-LEARNING ALGORITHMS BASED ON PERSONALIZED PATHWAYS FOR A NOVEL PREDICTIVE MODEL FOR THE DIAGNOSIS OF HEPATOCELLULAR CARCINOMA

At present, the diagnostic ability of hepatocellular carcinoma based on serum alpha-fetoprotein level is limited. Finding markers that...

USING BERT TO IDENTIFY DRUG-TARGET INTERACTIONS FROM WHOLE PUBMED

Drug-target interactions are critical for drug repurposing and elucidation of drug mechanisms, and are manually curated by large databases,...

RRESOLVER: EFFICIENT SHORT-READ REPEAT RESOLUTION WITHIN ABYSS

De novo genome assembly is essential to modern genomics studies. As it is not biased by a reference, it is also a useful method for...

IDENTIFICATION OF PAN-KINASE-FAMILY INHIBITORS USING GRAPH CONVOLUTIONAL NETWORKS TO REVEAL FAMILY-SENSITIVE PRE-MOIETIES

Human protein kinases, the key players in phosphoryl signal transduction, have been actively investigated as drug targets for complex...

SUPER-TAXON IN HUMAN MICROBIOME ARE IDENTIFIED TO BE ASSOCIATED WITH COLORECTAL CANCER

Microbial communities in the human body, also known as human microbiota, impact human health, such as colorectal cancer. However, the...

PREDICTING MIRNA-DISEASE ASSOCIATIONS BASED ON GRAPH ATTENTION NETWORK WITH MULTI-SOURCE INFORMATION

There is a growing body of evidence from biological experiments suggesting that microRNAs play a significant regulatory role in both...

EXPLORING KINASE FAMILY INHIBITORS AND THEIR MOIETY PREFERENCES USING DEEP SHAPLEY ADDITIVE EXPLANATIONS

While it has been known that human protein kinases mediate most signal transductions in cells and their dysfunction can result in inflammatory...

NORMALIZATION OF GENE EXPRESSION DATA REVISITED: THE THREE VIEWPOINTS OF THE TRANSCRIPTOME IN HUMAN SKELETAL MUSCLE UNDERGOING LOAD-INDUCED HYPERTROPHY AND WHY THEY MATTER

The biological relevance and accuracy of gene expression data depend on the adequacy of data normalization. This is both due to its...

EXPLAINABLE DEEP DRUG-TARGET REPRESENTATIONS FOR BINDING AFFINITY PREDICTION

Several computational advances have been achieved in the drug discovery field, promoting the identification of novel drug-target interactions...

BENCHMARKING IMPUTATION METHODS FOR NETWORK INFERENCE USING A NOVEL METHOD OF SYNTHETIC SCRNA-SEQ DATA GENERATION

Single cell RNA-sequencing has very rapidly become the new workhorse of modern biology providing an unprecedented global view on cellular...