Enrique Hernandez Lemus

Homogeneous network inference for subtype-stratified master regulator analysis in cancer

The paper introduces a uniform method for inferring regulatory networks across cancer subtypes, showing it is adequate for multi-cohort analysis despite not being statistically superior.

Metabolic cost sets the shear stress profile of optimal vascular trees

This paper derives a metabolic cost-based model for optimal vascular tree shear stress profiles and shows how staged growth and fluctuating demand influence vascular topology.

The Crunchometer: A Low-Cost, Open-Source Acoustic Analysis of Feeding Microstructure

The paper introduces the Crunchometer, an open-source acoustic system for high-resolution feeding analysis, and shows it detects changes in feeding behavior and identifies meal-related neurons in mice.

A single-cell transposable element atlas of human cell identity

This study develops a tool to analyze transposable element expression in single-cell RNA sequencing data and builds an atlas showing TEs delineate cell types in human PBMCs.

The flow of reward information through neuronal ensembles in the accumbens

The paper investigates how reward information flows through neuronal ensembles in the nucleus accumbens shell during reinforcement learning in rats.

Patient-specific gene networks reveal novel subtypes and predictive biomarkers in lung cancer

The paper reconstructs patient-specific gene co-expression networks in lung adenocarcinoma to identify subtypes and survival predictive biomarkers.

Differential effects of follicle-stimulating hormone glycoforms on the transcriptome profile of cultured rat granulosa cells as disclosed by RNA-seq

This study uses RNA-seq to analyze how different FSH glycoforms affect gene expression, biological processes, and pathways in rat granulosa cells over time.

Highly-connected, non-redundant microRNAs functional control in breast cancer molecular subtypes

The paper identifies non-redundant microRNAs in breast cancer subtypes and links them to cancer-related biological functions through co-expression networks.

Gene co-expression is distance-dependent in breast cancer

The paper analyzes gene co-expression patterns in breast cancer, finding distance-dependent co-expression and loss of trans-co-expression across subtypes.

Identification of Casiopeina II-gly secondary targets through a systems pharmacology approach

The paper identifies three key effects of Casiopeina II-gly treatment using pathway analysis and network theory, showing perturbation of signaling and metabolic pathways and activation of immune responses.

Master regulators of signaling pathways coordinate key processes of embryonic development in breast cancer

The paper identifies master regulators of signaling pathways in breast cancer, finding that nine of the top ten are involved in embryonic development processes.