-Omics biomarker identification pipeline for translational medicine

Challenges in the Integration of Omics and Non-Omics Data

(2019) Evangelina López de Maturana et al.   Genes

Multi‐Omics Factor Analysis—a framework for unsupervised integration of multi‐omics data sets

(2018) Ricard Argelaguet et al.   Molecular Systems Biology

Integration of multi-omics data and deep phenotyping enables prediction of cytokine responses

(2018) Olivier B. Bakker et al.   NATURE IMMUNOLOGY

Pan-cancer genome and transcriptome analyses of 1,699 paediatric leukaemias and solid tumours

(2018) Xiaotu Ma et al.   NATURE

A Deep Neural Network Model using Random Forest to Extract Feature Representation for Gene Expression Data Classification

(2018) Yunchuan Kong et al.   Scientific Reports

Single-cell sequencing in ovarian cancer

(2018) Boris Winterhoff et al.   CURRENT OPINION IN OBSTETRICS & GYNECOLOGY

Targeting the transcription factor Myb by small-molecule inhibitors

(2017) Sagar Uttarkar et al.   EXPERIMENTAL HEMATOLOGY

The translation of lipid profiles to nutritional biomarkers in the study of infant metabolism

(2017) Animesh Acharjee et al.   Metabolomics

Firmiana: towards a one-stop proteomic cloud platform for data processing and analysis

(2017) Jinwen Feng et al.   NATURE BIOTECHNOLOGY

Single-cell analyses to tailor treatments

(2017) Alex K. Shalek et al.   Science Translational Medicine

Single-Cell Multiomics: Multiple Measurements from Single Cells

(2017) Iain C. Macaulay et al.   TRENDS IN GENETICS

Integrating Clinical and Multiple Omics Data for Prognostic Assessment across Human Cancers

(2017) Bin Zhu et al.   Scientific Reports

A computational method for genotype calling in family-based sequencing data

(2016) Lun-Ching Chang et al.   BMC BIOINFORMATICS

AML suppresses hematopoiesis by releasing exosomes that contain microRNAs targeting c-MYB

(2016) Noah I. Hornick et al.   Science Signaling

Identification of key regulators of pancreatic cancer progression through multidimensional systems-level analysis

(2016) Deepa Rajamani et al.   Genome Medicine

AML suppresses hematopoiesis by releasing exosomes that contain microRNAs targeting c-MYB

(2016) Noah I. Hornick et al.   Science Signaling

Integration and Visualization of Translational Medicine Data for Better Understanding of Human Diseases

(2016) Venkata Satagopam et al.   Big Data

Diagnostic biases in translational bioinformatics

(2015) Henry Han   BMC Medical Genomics

Blockade of autophagy reduces pancreatic cancer stem cell activity and potentiates the tumoricidal effect of gemcitabine

(2015) Ming-Chen Yang et al.   Molecular Cancer

Transcriptional control of autophagy–lysosome function drives pancreatic cancer metabolism

(2015) Rushika M. Perera et al.   NATURE

Computational and analytical challenges in single-cell transcriptomics

(2015) Oliver Stegle et al.   NATURE REVIEWS GENETICS

Regularization Paths for Generalized Linear Models via Coordinate Descent

(2015) Jerome Friedman et al.   Journal of Statistical Software

A pathway-based data integration framework for prediction of disease progression

(2013) José A. Seoane et al.   BIOINFORMATICS

Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool

(2013) Edward Y Chen et al.   BMC BIOINFORMATICS

Confero: an integrated contrast data and gene set platform for computational analysis and biological interpretation of omics data

(2013) Leandro Hermida et al.   BMC GENOMICS

Single-cell sequencing-based technologies will revolutionize whole-organism science

(2013) Ehud Shapiro et al.   NATURE REVIEWS GENETICS

Bringing rigour to translational medicine

(2013) David W. Howells et al.   Nature Reviews Neurology

The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity

(2012) Jordi Barretina et al.   NATURE

Integrative Subtype Discovery in Glioblastoma Using iCluster

(2012) Ronglai Shen et al.   PLoS One

Recommendations for Biomarker Identification and Qualification in Clinical Proteomics

(2010) H. Mischak et al.   Science Translational Medicine

Microarray-based classifiers and prognosis models identify subgroups with distinct clinical outcomes and high risk of AML transformation of myelodysplastic syndrome

(2009) K. I. Mills et al.   BLOOD

Lost in Translation--Basic Science in the Era of Translational Research

(2009) F. C. Fang et al.   INFECTION AND IMMUNITY

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS