[HTML][HTML] A comparative study of topology-based pathway enrichment analysis methods

J Ma, A Shojaie, G Michailidis - BMC bioinformatics, 2019 - Springer
Background Pathway enrichment extensively used in the analysis of Omics data for gaining
biological insights into the functional roles of pre-defined subsets of genes, proteins and …

Multi-omics analysis revealed the regulation mode of intratumor microorganisms and microbial signatures in gastrointestinal cancer

S Wang, P Liu, J Yu, T Liu - Carcinogenesis, 2024 - academic.oup.com
Objective Gastrointestinal cancer is one of the most common malignant tumors in the world,
and its incidence rate is always high. In recent years, research has shown that …

[PDF][PDF] Iterative integrated imputation for missing data and pathway models with applications to breast cancer subtypes

H Linder, Y Zhang - Communications for Statistical Applications …, 2019 - koreascience.kr
Tumor development is driven by complex combinations of biological elements. Recent
advances suggest that molecularly distinct subtypes of breast cancers may respond …

Integrative pathway analysis with gene expression, miRNA, methylation and copy number variation for breast cancer subtypes

H Linder, Y Zhang, Y Wang, Z Ouyang - Statistical Applications in …, 2024 - degruyter.com
Developments in biotechnologies enable multi-platform data collection for functional
genomic units apart from the gene. Profiling of non-coding microRNAs (miRNAs) is a …

Mirna–gene activity interaction networks (migain): integrated joint models of mirna–gene targeting and disturbance in signaling pathways

H Linder, Y Zhang - Advances and innovations in statistics and data …, 2022 - Springer
Omics data are now inexpensive to collect in vast quantities, across a wide variety of not
only multiple data platform, but also distinct functional units. These bioinformatic datasets …

A pan‐cancer integrative pathway analysis of multi‐omics data

H Linder, Y Zhang - Quantitative Biology, 2020 - Wiley Online Library
Background Multi‐view‐omics datasets offer rich opportunities for integrative analysis
across genomic, transcriptomic, and epigenetic data platforms. Statistical methods are …

Integrative Structural Learning of Mixed Graphical Models via Pseudo-likelihood

Q Liu, Y Zhang - Statistics in Biosciences, 2023 - Springer
Markov random field is a common tool to characterize interactions among a fixed collection
of variables. In recent biomedical research, there arise new concerns about the discovery of …

A Pan-Cancer Network Analysis with Integration of miRNA-Gene Targeting for Multiomics Datasets.

H Linder, Y Zhang - Journal of Data Science, 2021 - search.ebscohost.com
Large-scale genomics studies provide researchers with access to extensive datasets with
extensive detail and unprecedented scope that encompasses not only genes, but also more …

[PDF][PDF] RESEARCH ARTICLE A pan-cancer integrative pathway analysis of

H Linder, Y Zhang - journal.hep.com.cn
Background: Multi-view-omics datasets offer rich opportunities for integrative analysis across
genomic, transcriptomic, and epigenetic data platforms. Statistical methods are needed to …