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Personalized analysis of human cancer multi-omics for precision oncology

Computational and structural biotechnology journal, 2024-12, Vol.23, p.2049-2056

2024

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CovidShiny: An Integrated Web Tool for SARS-CoV-2 Mutation Profiling and Molecular Diagnosis Assay Evaluation In Silico

Viruses, 2023-09, Vol.15 (10), p.2017

2023

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Phosphoproteomics Enables Molecular Subtyping and Nomination of Kinase Candidates for Individual Patients of Diffuse-Type Gastric Cancer

iScience, 2019-12, Vol.22, p.44-57

2019

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Complexity of enhancer networks predicts cell identity and disease genes revealed by single-cell multi-omics analysis

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

2023

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SIMarker: Cellular similarity detection and its application to diagnosis and prognosis of liver cancer

Computers in biology and medicine, 2024-03, Vol.171, p.108113-108113, Article 108113

2024

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WISP2 downregulation inhibits the osteogenic differentiation of BMSCs in congenital scoliosis by regulating Wnt/β-catenin pathway

Biochimica et biophysica acta. Molecular basis of disease, 2023-10, Vol.1869 (7), p.166783-166783, Article 166783

2023

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Single‐cell RNA‐seq reveals altered NK cell subsets and reduced levels of cytotoxic molecules in patients with ankylosing spondylitis

Journal of cellular and molecular medicine, 2022-02, Vol.26 (4), p.1071-1082

2022

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Application of individualized differential expression analysis in human cancer proteome

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

2022

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Prioritizing prognostic-associated subpopulations and individualized recurrence risk signatures from single-cell transcriptomes of colorectal cancer

Briefings in bioinformatics, 2023-05, Vol.24 (3)

2023

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Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunity

Cancer cell, 2024-08, Vol.42 (8), p.1415-1433.e12

2024

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Differential expression analysis for individual cancer samples based on robust within-sample relative gene expression orderings across multiple profiling platforms

Oncotarget, 2016-10, Vol.7 (42), p.68909-68920

2016

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Tracing unknown tumor origins with a biological-pathway-based transformer model

Cell reports methods, 2024-06, Vol.4 (6), p.100797, Article 100797

2024

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Identifying Reproducible Molecular Biomarkers for Gastric Cancer Metastasis with the Aid of Recurrence Information

Scientific reports, 2016-04, Vol.6 (1), p.24869-24869, Article 24869

2016

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PhosMap: An ensemble bioinformatic platform to empower interactive analysis of quantitative phosphoproteomics

Computers in biology and medicine, 2024-05, Vol.174, p.108391-108391, Article 108391

2024

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An individualized prognostic signature and multi‑omics distinction for early stage hepatocellular carcinoma patients with surgical resection

Oncotarget, 2016-04, Vol.7 (17), p.24097-24110

2016

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An individualized prognostic signature for gastric cancer patients treated with 5-Fluorouracil-based chemotherapy and distinct multi-omics characteristics of prognostic groups

Oncotarget, 2016-02, Vol.7 (8), p.8743-8755

2016

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Molecular subtyping of cancer and nomination of kinase candidates for inhibition with phosphoproteomics: Reanalysis of CPTAC ovarian cancer

EBioMedicine, 2019-02, Vol.40, p.305-317

2019

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Tamoxifen therapy benefit predictive signature coupled with prognostic signature of post-operative recurrent risk for early stage ER+ breast cancer

Oncotarget, 2015-12, Vol.6 (42), p.44593-44608

2015

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Identification of reproducible drug-resistance-related dysregulated genes in small-scale cancer cell line experiments

Scientific reports, 2015-07, Vol.5 (1), p.11895-11895, Article 11895

2015

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NQO1 is a determinant for cellular sensitivity to anti-tumor agent Napabucasin

American journal of cancer research, 2020-01, Vol.10 (5), p.1442-1454

2020

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Identifying clinically relevant drug resistance genes in drug-induced resistant cancer cell lines and post-chemotherapy tissues

Oncotarget, 2015-12, Vol.6 (38), p.41216-41227

2015

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Molecular subtyping of cancer and nomination of kinase candidates for inhibition with phosphoproteomics: Reanalysis of CPTAC ovarian cancerResearch in context

EBioMedicine, 2019-02, Vol.40, p.305-317

2019

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Epigenetic Changes Associated With Interleukin-10

Frontiers in immunology, 2020-06, Vol.11, p.1105-1105

2020

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Dysfunction of miR‐802 in tumors

Journal of clinical laboratory analysis, 2021-11, Vol.35 (11), p.e23989-n/a

2021

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Asperemestrins A–D, Emestrin Hybrid Polymers with Bridged Skeletons from the Endophytic Fungus Aspergillus nidulans

Organic letters, 2022-09, Vol.24 (37), p.6800-6804

2022

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Personalized analysis of human cancer multi-omics for precision oncology

CovidShiny: An Integrated Web Tool for SARS-CoV-2 Mutation Profiling and Molecular Diagnosis Assay Evaluation In Silico

Phosphoproteomics Enables Molecular Subtyping and Nomination of Kinase Candidates for Individual Patients of Diffuse-Type Gastric Cancer

Complexity of enhancer networks predicts cell identity and disease genes revealed by single-cell multi-omics analysis

SIMarker: Cellular similarity detection and its application to diagnosis and prognosis of liver cancer

WISP2 downregulation inhibits the osteogenic differentiation of BMSCs in congenital scoliosis by regulating Wnt/β-catenin pathway

Single‐cell RNA‐seq reveals altered NK cell subsets and reduced levels of cytotoxic molecules in patients with ankylosing spondylitis

Application of individualized differential expression analysis in human cancer proteome

Prioritizing prognostic-associated subpopulations and individualized recurrence risk signatures from single-cell transcriptomes of colorectal cancer

Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunity

Differential expression analysis for individual cancer samples based on robust within-sample relative gene expression orderings across multiple profiling platforms

Tracing unknown tumor origins with a biological-pathway-based transformer model

Identifying Reproducible Molecular Biomarkers for Gastric Cancer Metastasis with the Aid of Recurrence Information

PhosMap: An ensemble bioinformatic platform to empower interactive analysis of quantitative phosphoproteomics

An individualized prognostic signature and multi‑omics distinction for early stage hepatocellular carcinoma patients with surgical resection

An individualized prognostic signature for gastric cancer patients treated with 5-Fluorouracil-based chemotherapy and distinct multi-omics characteristics of prognostic groups

Molecular subtyping of cancer and nomination of kinase candidates for inhibition with phosphoproteomics: Reanalysis of CPTAC ovarian cancer

Tamoxifen therapy benefit predictive signature coupled with prognostic signature of post-operative recurrent risk for early stage ER+ breast cancer

Identification of reproducible drug-resistance-related dysregulated genes in small-scale cancer cell line experiments

NQO1 is a determinant for cellular sensitivity to anti-tumor agent Napabucasin

Identifying clinically relevant drug resistance genes in drug-induced resistant cancer cell lines and post-chemotherapy tissues

Molecular subtyping of cancer and nomination of kinase candidates for inhibition with phosphoproteomics: Reanalysis of CPTAC ovarian cancerResearch in context

Epigenetic Changes Associated With Interleukin-10

Dysfunction of miR‐802 in tumors

Asperemestrins A–D, Emestrin Hybrid Polymers with Bridged Skeletons from the Endophytic Fungus Aspergillus nidulans

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