Andrea Matlock
A5059912869- Amyotrophic Lateral Sclerosis Research
- Advanced Proteomics Techniques and Applications
- Neurogenetic and Muscular Disorders Research
- Epigenetics and DNA Methylation
- Bioinformatics and Genomic Networks
- Metabolomics and Mass Spectrometry Studies
- Mass Spectrometry Techniques and Applications
- Ubiquitin and proteasome pathways
- Parkinson's Disease Mechanisms and Treatments
- Prion Diseases and Protein Misfolding
- Genomics and Rare Diseases
- Biotin and Related Studies
- Biomedical Text Mining and Ontologies
- Machine Learning in Bioinformatics
- Cell Image Analysis Techniques
- Biomedical and Engineering Education
- Genetic Neurodegenerative Diseases
- Single-cell and spatial transcriptomics
- Mitochondrial Function and Pathology
- Muscle Physiology and Disorders
Cedars-Sinai Medical Center
2016-2025
Cedars-Sinai Smidt Heart Institute
2021-2024
Answer ALS is a biological and clinical resource of patient-derived, induced pluripotent stem (iPS) cell lines, multi-omic data derived from iPS neurons longitudinal smartphone over 1,000 patients with ALS. This provides population-level that may be employed to identify clinical-molecular-biochemical subtypes amyotrophic lateral sclerosis (ALS). A unique smartphone-based system was collect deep data, including fine motor activity, speech, breathing linguistics/cognition. The spinal were...
Abstract The clinical presentation of amyotrophic lateral sclerosis (ALS), a fatal neurodegenerative disease, varies widely across patients, making it challenging to determine if potential therapeutics slow progression. We sought whether there were common patterns disease progression that could aid in the design and analysis trials. developed an approach based on mixture Gaussian processes identify clusters patients sharing similar patterns, modeling their average trajectories variability...
Neurodegenerative diseases are challenging for systems biology because of the lack reliable animal models or patient samples at early disease stages. Induced pluripotent stem cells (iPSCs) could address these challenges. We investigated DNA, RNA, epigenetics, and proteins in iPSC-derived motor neurons from patients with ALS carrying hexanucleotide expansions
The Library of Integrated Network-based Cellular Signatures (LINCS), an NIH Common Fund program, has cataloged and analyzed cellular function molecular activity profiles in response to >80,000 perturbing agents that are potentially disruptive cells. Because the importance proteins their modifications specific perturbations, four six LINCS centers have included significant proteomics efforts characterization resulting phenotype. This manuscript aims describe this effort data harmonization...
Amyotrophic Lateral Sclerosis (ALS), like many other neurodegenerative diseases, is highly heritable, but with only a small fraction of cases explained by monogenic disease alleles. To better understand sporadic ALS, we report epigenomic profiles, as measured ATAC-seq, motor neuron cultures derived from diverse group 380 ALS patients and 80 healthy controls. We find that chromatin accessibility heavily influenced sex, the iPSC cell type origin, ancestry, inherent variance arising sequencing....
Abstract Rapid progress in proteomics and large-scale profiling of biological systems at the protein level necessitates continued development efficient computational tools for analysis interpretation data. Here, we present piNET server that facilitates integrated annotation, visualization quantitative data, with emphasis on PTM networks integration LINCS library chemical genetic perturbation signatures order to provide further mechanistic functional insights. The primary input consists a set...
The National Institute of Health (NIH) Library integrated network-based cellular signatures (LINCS) program is premised on the generation a publicly available data resource cell-based biochemical responses or "signatures" to genetic environmental perturbations. NeuroLINCS uses human inducible pluripotent stem cells (hiPSCs), derived from patients and healthy controls, differentiated into motor neuron cell cultures. This multi-laboratory effort strives establish i) robust multi-omic workflows...
Abstract Huntington’s disease (HD) is a neurodegenerative disorder caused by an expanded CAG repeat mutation in the Huntingtin (HTT) gene. The impacts neuronal protein homeostasis and cortical/striatal circuitry. SUMOylation post-translational modification with broad cellular effects including via of synaptic proteins. Here, we used optimised SUMO protein-enrichment mass spectrometry method to identify SUMOylation/SUMO interaction proteome context HD using R6/2 transgenic non-transgenic (NT)...
Abstract Answer ALS is a comprehensive multi-omics approach to ascertain, at population level, the various clinical-molecular- biochemical subtypes of sporadic ALS. This national program enrolled 1046 and ALS/FTD patients along with cohort 100 matched control followed longitudinally over least one year. A smartphone-based app was employed collect deep clinical data including fine motor activity, speech, breathing linguistics/cognition. Analytics speech patterns revealed strong correlation...
ABSTRACT Large proteomics data, including those generated by mass spectrometry, are being to characterize biological systems at the protein level. Computational methods and tools identify quantify peptides, proteins post-translational modifications (PTMs) that captured in modern spectrometers have matured over years. On other hand, for downstream analysis, interpretation visualization of data sets, particular involving PTMs, require further improvement integration accelerate scientific...
Summary Neurodegenerative diseases present a challenge for systems biology, due to the lack of reliable animal models and difficulties in obtaining samples from patients at early stages disease, when interventions might be most effective. Studying induced pluripotent stem cell (iPSC)-derived neurons could overcome these challenges dramatically accelerate broaden therapeutic strategies. Here we undertook network-based multi-omic characterization iPSC-derived motor ALS carrying genetically...