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Multi-Omics Profiling Reveals Distinct Microenvironment Characterization and Suggests Immune Escape Mechanisms of Triple-Negative Breast Cancer

Clinical cancer research, 2019-08, Vol.25 (16), p.5002-5014

2019

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Optimized CRISPR guide RNA design for two high-fidelity Cas9 variants by deep learning

Nature communications, 2019-09, Vol.10 (1), p.4284-14, Article 4284

2019

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Characterizing and annotating the genome using RNA-seq data

Science China. Life Sciences, 2017-02, Vol.60 (2), p.116-125

2017

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A Comprehensive Mouse Transcriptomic BodyMap across 17 Tissues by RNA-seq

Scientific reports, 2017-06, Vol.7 (1), p.4200-10, Article 4200

2017

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High quality 3C de novo assembly and annotation of a multidrug resistant ST-111 Pseudomonas aeruginosa genome: Benchmark of hybrid and non-hybrid assemblers

Scientific reports, 2020-01, Vol.10 (1), p.1392-1392, Article 1392

2020

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Genomic and immune profiling of pre-invasive lung adenocarcinoma

Nature communications, 2019-11, Vol.10 (1), p.5472-6, Article 5472

2019

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The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance

Nature biotechnology, 2014-09, Vol.32 (9), p.926-932

2014

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Exploring functions of long noncoding RNAs across multiple cancers through co-expression network

Scientific reports, 2017-04, Vol.7 (1), p.754-13, Article 754

2017

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A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages

Nature communications, 2014-02, Vol.5 (1), p.3230-3230, Article 3230

2014

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Detecting and correcting systematic variation in large-scale RNA sequencing data

Nature biotechnology, 2014-09, Vol.32 (9), p.888-895

2014

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Similarities and differences in the expression of drug-metabolizing enzymes between human hepatic cell lines and primary human hepatocytes

Drug metabolism and disposition, 2011-03, Vol.39 (3), p.528

2011

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Transcriptomic determinants of the response of ST-111 Pseudomonas aeruginosa AG1 to ciprofloxacin identified by a top-down systems biology approach

Scientific reports, 2020-08, Vol.10 (1), p.13717-23, Article 13717

2020

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Drug hypersensitivity caused by alteration of the MHC-presented self-peptide repertoire

Proceedings of the National Academy of Sciences - PNAS, 2012-06, Vol.109 (25), p.9959-9964

2012

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Endoplasmic reticulum stress and MAPK signaling pathway activation underlie leflunomide-induced toxicity in HepG2 Cells

Toxicology (Amsterdam), 2017-12, Vol.392 (C), p.11-21

2017

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Somatic mutations in ZFHX4 gene are associated with poor overall survival of Chinese esophageal squamous cell carcinoma patients

Scientific reports, 2017-07, Vol.7 (1), p.4951-9, Article 4951

2017

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High-throughput autoantibody profiling of different stages of Schistosomiasis japonica

Autoimmunity (Chur, Switzerland), 2023-12, Vol.56 (1), p.2250102-2250102

2023

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Similarities and differences between variants called with human reference genome HG19 or HG38

BMC bioinformatics, 2019-03, Vol.20 (Suppl 2), p.101-101, Article 101

2019

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Hidden biases in germline structural variant detection

Genome Biology, 2021-12, Vol.22 (1), p.347-347, Article 347

2021

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Dynamic transcriptomes identify biogenic amines and insect-like hormonal regulation for mediating reproduction in Schistosoma japonicum

Nature communications, 2017-03, Vol.8 (1), p.14693-14693, Article 14693

2017

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Prediction of base editor off-targets by deep learning

Nature communications, 2023-09, Vol.14 (1), p.5358-5358, Article 5358

2023

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A real-world multi-center RNA-seq benchmarking study using the Quartet and MAQC reference materials

Nature communications, 2024-07, Vol.15 (1), p.6167-21, Article 6167

2024

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Correcting batch effects in large-scale multiomics studies using a reference-material-based ratio method

Genome Biology, 2023-09, Vol.24 (1), p.1-201, Article 201

2023

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PreMedKB: an integrated precision medicine knowledgebase for interpreting relationships between diseases, genes, variants and drugs

Nucleic acids research, 2019-01, Vol.47 (D1), p.D1090

2019

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Multi-Omics Profiling Reveals Distinct Microenvironment Characterization and Suggests Immune Escape Mechanisms of Triple-Negative Breast Cancer

Optimized CRISPR guide RNA design for two high-fidelity Cas9 variants by deep learning

Characterizing and annotating the genome using RNA-seq data

Genomic and Transcriptomic Landscape of Triple-Negative Breast Cancers: Subtypes and Treatment Strategies

A Comprehensive Mouse Transcriptomic BodyMap across 17 Tissues by RNA-seq

High quality 3C de novo assembly and annotation of a multidrug resistant ST-111 Pseudomonas aeruginosa genome: Benchmark of hybrid and non-hybrid assemblers

The Risk-Associated Long Noncoding RNA NBAT-1 Controls Neuroblastoma Progression by Regulating Cell Proliferation and Neuronal Differentiation

Genomic and immune profiling of pre-invasive lung adenocarcinoma

The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance

Exploring functions of long noncoding RNAs across multiple cancers through co-expression network

A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages

Detecting and correcting systematic variation in large-scale RNA sequencing data

Similarities and differences in the expression of drug-metabolizing enzymes between human hepatic cell lines and primary human hepatocytes

Transcriptomic determinants of the response of ST-111 Pseudomonas aeruginosa AG1 to ciprofloxacin identified by a top-down systems biology approach

Drug hypersensitivity caused by alteration of the MHC-presented self-peptide repertoire

Endoplasmic reticulum stress and MAPK signaling pathway activation underlie leflunomide-induced toxicity in HepG2 Cells

Somatic mutations in ZFHX4 gene are associated with poor overall survival of Chinese esophageal squamous cell carcinoma patients

High-throughput autoantibody profiling of different stages of Schistosomiasis japonica

Similarities and differences between variants called with human reference genome HG19 or HG38

Hidden biases in germline structural variant detection

Dynamic transcriptomes identify biogenic amines and insect-like hormonal regulation for mediating reproduction in Schistosoma japonicum

Prediction of base editor off-targets by deep learning

A real-world multi-center RNA-seq benchmarking study using the Quartet and MAQC reference materials

Correcting batch effects in large-scale multiomics studies using a reference-material-based ratio method

PreMedKB: an integrated precision medicine knowledgebase for interpreting relationships between diseases, genes, variants and drugs

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