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Whole brain alignment of spatial transcriptomics between humans and mice with BrainAlign

Nature communications, 2024-07, Vol.15 (1), p.6302-15, Article 6302

2024

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Discovery of two-level modular organization from matched genomic data via joint matrix tri-factorization

Nucleic acids research, 2018-07, Vol.46 (12), p.5967-5976

2018

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Model-based understanding of single-cell CRISPR screening

Nature communications, 2019-05, Vol.10 (1), p.2233-2233, Article 2233

2019

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A novel computational framework for simultaneous integration of multiple types of genomic data to identify microRNA-gene regulatory modules

Bioinformatics, 2011-07, Vol.27 (13), p.i401-i409

2011

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Efficient methods for identifying mutated driver pathways in cancer

Bioinformatics, 2012-11, Vol.28 (22), p.2940-2947

2012

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Discovery of multi-dimensional modules by integrative analysis of cancer genomic data

Nucleic acids research, 2012-10, Vol.40 (19), p.9379-9391

2012

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Discovery of co-occurring driver pathways in cancer

BMC bioinformatics, 2014-08, Vol.15 (1), p.271-271, Article 271

2014

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Prediction of enhancer-promoter interactions using the cross-cell type information and domain adversarial neural network

BMC bioinformatics, 2020-11, Vol.21 (1), p.507-16, Article 507

2020

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Identifying multi-layer gene regulatory modules from multi-dimensional genomic data

Bioinformatics (Oxford, England), 2012-10, Vol.28 (19), p.2458-2466

2012

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A systematic evaluation of deep learning methods for the prediction of drug synergy in cancer

PLoS computational biology, 2023-03, Vol.19 (3), p.e1010200-e1010200

2023

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Clustering and visualization of single-cell RNA-seq data using path metrics

PLoS computational biology, 2024-05, Vol.20 (5), p.e1012014

2024

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STAT3 promotes RNA polymerase III-directed transcription by controlling the miR-106a-5p/TP73 axis

eLife, 2023-01, Vol.12

2023

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Targeted treatment for osteoarthritis: drugs and delivery system

Drug delivery, 2021-01, Vol.28 (1), p.1861-1876

2021

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Micelle-like clusters in phase-separated Nanog condensates: A molecular simulation study

PLoS computational biology, 2023-07, Vol.19 (7), p.e1011321-e1011321

2023

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miR-186-5p Promotes Apoptosis by Targeting IGF-1 in SH-SY5Y OGD/R Model

International journal of biological sciences, 2018-01, Vol.14 (13), p.1791-1799

2018

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Cell-type annotation with accurate unseen cell-type identification using multiple references

PLoS computational biology, 2023-06, Vol.19 (6), p.e1011261-e1011261

2023

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OSCAR: Optimal subset cardinality regression using the L0-pseudonorm with applications to prognostic modelling of prostate cancer

PLoS computational biology, 2023-03, Vol.19 (3), p.e1010333

2023

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Disease-aging network reveals significant roles of aging genes in connecting genetic diseases

PLoS computational biology, 2009-09, Vol.5 (9), p.e1000521-e1000521

2009

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Discovery of cancer common and specific driver gene sets

Nucleic acids research, 2017-06, Vol.45 (10), p.e86-e86

2017

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Neutrophil extracellular traps induce a hypercoagulable state in glioma

Immunity, Inflammation and Disease, 2021-12, Vol.9 (4), p.1383-1393

2021

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Learning common and specific patterns from data of multiple interrelated biological scenarios with matrix factorization

Nucleic acids research, 2019-07, Vol.47 (13), p.6606-6617

2019

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Detecting disease associated modules and prioritizing active genes based on high throughput data

BMC bioinformatics, 2010-01, Vol.11 (1), p.26-26, Article 26

2010

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Integrative analysis for identifying joint modular patterns of gene-expression and drug-response data

Bioinformatics, 2016-06, Vol.32 (11), p.1724-1732

2016

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TBC2health: a database of experimentally validated health-beneficial effects of tea bioactive compounds

Briefings in bioinformatics, 2017-09, Vol.18 (5), p.830-836

2017

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High-dimensional genomic data bias correction and data integration using MANCIE

Nature communications, 2016-04, Vol.7 (1), p.11305-11305, Article 11305

2016

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Whole brain alignment of spatial transcriptomics between humans and mice with BrainAlign

Discovery of two-level modular organization from matched genomic data via joint matrix tri-factorization

Model-based understanding of single-cell CRISPR screening

A novel computational framework for simultaneous integration of multiple types of genomic data to identify microRNA-gene regulatory modules

Efficient methods for identifying mutated driver pathways in cancer

Discovery of multi-dimensional modules by integrative analysis of cancer genomic data

Discovery of co-occurring driver pathways in cancer

Prediction of enhancer-promoter interactions using the cross-cell type information and domain adversarial neural network

Identifying multi-layer gene regulatory modules from multi-dimensional genomic data

A systematic evaluation of deep learning methods for the prediction of drug synergy in cancer

Clustering and visualization of single-cell RNA-seq data using path metrics

STAT3 promotes RNA polymerase III-directed transcription by controlling the miR-106a-5p/TP73 axis

Targeted treatment for osteoarthritis: drugs and delivery system

Micelle-like clusters in phase-separated Nanog condensates: A molecular simulation study

miR-186-5p Promotes Apoptosis by Targeting IGF-1 in SH-SY5Y OGD/R Model

Cell-type annotation with accurate unseen cell-type identification using multiple references

OSCAR: Optimal subset cardinality regression using the L0-pseudonorm with applications to prognostic modelling of prostate cancer

Disease-aging network reveals significant roles of aging genes in connecting genetic diseases

Discovery of cancer common and specific driver gene sets

Neutrophil extracellular traps induce a hypercoagulable state in glioma

Learning common and specific patterns from data of multiple interrelated biological scenarios with matrix factorization

Detecting disease associated modules and prioritizing active genes based on high throughput data

Integrative analysis for identifying joint modular patterns of gene-expression and drug-response data

TBC2health: a database of experimentally validated health-beneficial effects of tea bioactive compounds

High-dimensional genomic data bias correction and data integration using MANCIE

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