Natalie M. Clark

ssGSEA3.0 improves statistical significance assessment in ssGSEA by using feature-level bootstrap resampling, enhancing detection power while maintaining calibration across weighting schemes.

In 174 sedentary adults, resistance exercise changed more muscle molecular features than endurance exercise across omes and time points; network analysis nominates MEF2A and NFIC as regulatory hubs.

The paper presents initial findings from the MoTrPAC consortium, showing that acute and chronic exercise induce distinct physiological and molecular responses, with chronic training improving key health metrics.

The paper analyzes multi-omic, multi-tissue molecular responses to acute exercise in sedentary adults, identifying key pathways and exerkines involved in exercise effects.

The paper demonstrates that background proteome correction improves the accuracy of identifying dynamic protein-protein interactions by reducing false positives and negatives in AP-MS experiments.

This study identifies GAA accumulation in gliomas as a driver of neuronal activity and tumor growth, linking cancer metabolism to neuroscience through GABAA receptor activation.

This paper identifies a PTP activity-independent mechanism by which SHP2 promotes RAS/ERK activation through direct binding to SOS1.

The paper profiles multi-omic changes in abdominal subcutaneous adipose tissue after acute exercise in sedentary adults, identifying distinct molecular programs and candidate exerkines.

The paper quantifies Dorsal/NF-κB mobility and DNA binding along the dorsal-ventral axis of Drosophila embryos, revealing a gradient in DNA binding that affects gradient formation and downstream gene expression.

This study identifies AKAP11's role in regulating lipid metabolism and neuronal support in astrocytes, linking its dysfunction to schizophrenia and bipolar disorder risk.

The paper integrates multi-omic data to identify regulatory networks underlying disease resistance in maize, revealing a key signaling module involved in resistance to northern leaf blight.

This study presents an automated single-cell proteomics workflow that identifies over 4,000 proteins per cell and detects key regulatory proteins in LPS-perturbed THP-1 cells.

The paper identifies ATB as a PP2A phosphatase involved in AtRGS1 trafficking and phosphorylation dynamics during flg22-induced signaling in Arabidopsis.

The paper develops a hybrid model integrating ODEs and agent-based modeling to study the coordination of stem cell divisions and regulatory interactions in plant root stem cell niches.

The paper identifies a stem-cell-ubiquitous gene, TCX2, that coordinates division across different stem cell types in Arabidopsis by regulating stem cell-specific networks.

This study combines spatial and temporal gene expression data with computational methods to predict gene regulatory networks in Arabidopsis stem cells, identifying PERIANTHIA as a key regulator of quiescent center function.