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clusterProfiler 4.0: A universal enrichment tool for interpreting omics data

Innovation (New York, NY), 2021-08, Vol.2 (3), p.100141-100141, Article 100141

2021

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DTI-HETA: prediction of drug–target interactions based on GCN and GAT on heterogeneous graph

Briefings in bioinformatics, 2022-05, Vol.23 (3)

2022

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NegStacking: Drug−Target Interaction Prediction Based on Ensemble Learning and Logistic Regression

IEEE/ACM transactions on computational biology and bioinformatics, 2021-11, Vol.18 (6), p.2624-2634

2021

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Deep Learning and Its Applications in Biomedicine

Genomics, proteomics & bioinformatics, 2018-02, Vol.16 (1), p.17-32

2018

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GOSemSim: an R package for measuring semantic similarity among GO terms and gene products

Bioinformatics, 2010-04, Vol.26 (7), p.976-978

2010

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Deep learning-based transcriptome data classification for drug-target interaction prediction

BMC genomics, 2018-09, Vol.19 (Suppl 7), p.667-667, Article 667

2018

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A survey and evaluation of Web-based tools/databases for variant analysis of TCGA data

Briefings in bioinformatics, 2019-07, Vol.20 (4), p.1524-1541

2019

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Machine learning methods, databases and tools for drug combination prediction

Briefings in bioinformatics, 2022-01, Vol.23 (1)

2022

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A benchmark study of deep learning-based multi-omics data fusion methods for cancer

Genome Biology, 2022-08, Vol.23 (1), p.171-32, Article 171

2022

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New insights on human essential genes based on integrated analysis and the construction of the HEGIAP web-based platform

Briefings in bioinformatics, 2020-07, Vol.21 (4), p.1397-1410

2020

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An enhanced cascade-based deep forest model for drug combination prediction

Briefings in bioinformatics, 2022-03, Vol.23 (2)

2022

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Comprehensive identification and annotation of cell type-specific and ubiquitous CTCF-binding sites in the human genome

PloS one, 2012-07, Vol.7 (7), p.e41374-e41374

2012

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Assessment of two‐pool multiplex long‐amplicon nanopore sequencing of SARS‐CoV‐2

Journal of medical virology, 2022-01, Vol.94 (1), p.327-334

2022

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GADRP: graph convolutional networks and autoencoders for cancer drug response prediction

Briefings in bioinformatics, 2023-01, Vol.24 (1)

2023

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ReadCurrent: a VDCNN-based tool for fast and accurate nanopore selective sequencing

Briefings in bioinformatics, 2024-07, Vol.25 (5)

2024

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EDST: a decision stump based ensemble algorithm for synergistic drug combination prediction

BMC bioinformatics, 2023-08, Vol.24 (1), p.1-325, Article 325

2023

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mmnet: An R Package for Metagenomics Systems Biology Analysis

BioMed research international, 2015-01, Vol.2015 (2015), p.1-5

2015

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Lnc2Catlas: an atlas of long noncoding RNAs associated with risk of cancers

Scientific reports, 2018-01, Vol.8 (1), p.1909-8, Article 1909

2018

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High-resolution annotation of the mouse preimplantation embryo transcriptome using long-read sequencing

Nature communications, 2020-05, Vol.11 (1), p.2653-2653, Article 2653

2020

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A comprehensive checklist of computational resources and methodologies for noncoding RNAs in systems medicine

Wiley interdisciplinary reviews. RNA, 2024-01, Vol.15 (1), p.e1830

2024

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Drug-Target Interaction Prediction Based on Adversarial Bayesian Personalized Ranking

BioMed research international, 2021-02, Vol.2021, p.6690154-16

2021

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NASTRA: accurate analysis of short tandem repeat markers by nanopore sequencing with repeat-structure-aware algorithm

Briefings in bioinformatics, 2024-09, Vol.25 (6)

2024

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NeRD: a multichannel neural network to predict cellular response of drugs by integrating multidimensional data

BMC medicine, 2022-10, Vol.20 (1), p.1-368, Article 368

2022

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RevEcoR: an R package for the reverse ecology analysis of microbiomes

BMC bioinformatics, 2016-07, Vol.17 (1), p.294-294, Article 294

2016

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Influence of the Biliary System on Biliary Bacteria Revealed by Bacterial Communities of the Human Biliary and Upper Digestive Tracts

PloS one, 2016-03, Vol.11 (3), p.e0150519

2016

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clusterProfiler 4.0: A universal enrichment tool for interpreting omics data

DTI-HETA: prediction of drug–target interactions based on GCN and GAT on heterogeneous graph

NegStacking: Drug−Target Interaction Prediction Based on Ensemble Learning and Logistic Regression

Deep Learning and Its Applications in Biomedicine

GOSemSim: an R package for measuring semantic similarity among GO terms and gene products

Deep learning-based transcriptome data classification for drug-target interaction prediction

A survey and evaluation of Web-based tools/databases for variant analysis of TCGA data

Machine learning methods, databases and tools for drug combination prediction

A benchmark study of deep learning-based multi-omics data fusion methods for cancer

New insights on human essential genes based on integrated analysis and the construction of the HEGIAP web-based platform

An enhanced cascade-based deep forest model for drug combination prediction

Comprehensive identification and annotation of cell type-specific and ubiquitous CTCF-binding sites in the human genome

Assessment of two‐pool multiplex long‐amplicon nanopore sequencing of SARS‐CoV‐2

GADRP: graph convolutional networks and autoencoders for cancer drug response prediction

ReadCurrent: a VDCNN-based tool for fast and accurate nanopore selective sequencing

EDST: a decision stump based ensemble algorithm for synergistic drug combination prediction

mmnet: An R Package for Metagenomics Systems Biology Analysis

Lnc2Catlas: an atlas of long noncoding RNAs associated with risk of cancers

High-resolution annotation of the mouse preimplantation embryo transcriptome using long-read sequencing

A comprehensive checklist of computational resources and methodologies for noncoding RNAs in systems medicine

Drug-Target Interaction Prediction Based on Adversarial Bayesian Personalized Ranking

NASTRA: accurate analysis of short tandem repeat markers by nanopore sequencing with repeat-structure-aware algorithm

NeRD: a multichannel neural network to predict cellular response of drugs by integrating multidimensional data

RevEcoR: an R package for the reverse ecology analysis of microbiomes

Influence of the Biliary System on Biliary Bacteria Revealed by Bacterial Communities of the Human Biliary and Upper Digestive Tracts

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