A5100321614- Advanced Proteomics Techniques and Applications
- Bioinformatics and Genomic Networks
- Alzheimer's disease research and treatments
- Metabolomics and Mass Spectrometry Studies
- Cancer-related molecular mechanisms research
- Retinoids in leukemia and cellular processes
- RNA modifications and cancer
- Estrogen and related hormone effects
- Genomics and Phylogenetic Studies
- RNA Research and Splicing
- Cancer-related gene regulation
- Mass Spectrometry Techniques and Applications
- Insect and Pesticide Research
- Plant biochemistry and biosynthesis
- Plant Molecular Biology Research
- Cancer, Lipids, and Metabolism
- Epigenetics and DNA Methylation
- Plant Gene Expression Analysis
- MicroRNA in disease regulation
- Ubiquitin and proteasome pathways
- Circadian rhythm and melatonin
- Biotin and Related Studies
- Genetics, Aging, and Longevity in Model Organisms
- Microbial Community Ecology and Physiology
- T-cell and B-cell Immunology
St. Jude Children's Research Hospital
2014-2025
Binzhou University
2019-2025
Binzhou Medical University
2019-2025
Shandong Agricultural University
2025
First Affiliated Hospital of Anhui Medical University
2025
Anhui Medical University
2025
North Sichuan Medical University
2024-2025
Beijing University of Chinese Medicine
2021-2025
Hangzhou First People's Hospital
2025
Deyang Stomatological Hospital
2025
Identifying transcript location in cells where specific RNAs occur within a cell or tissue has been limited by technology and imaging capabilities. Expansion microscopy allowed for better visualization of small structures expanding the tissues with polymer- hydrogel-based system. Alon et al. combined expansion long-read situ RNA sequencing, resulting more precise transcripts. This method, termed “ExSeq” was used to detect RNAs, both new transcripts those previously demonstrated localize...
Deposition of insoluble protein aggregates is a hallmark neurodegenerative diseases. The universal presence β-amyloid and tau in Alzheimer’s disease (AD) has facilitated advancement the amyloid cascade hypotheses that have dominated AD pathogenesis research therapeutic development. However, underlying etiology remains to be fully elucidated. Here we report comprehensive study human brain-insoluble proteome by mass spectrometry. We identify 4,216 proteins, among which 36 proteins accumulate...
Tandem 3′ UTRs produced by alternative polyadenylation (APA) play an important role in gene expression impacting mRNA stability, translation, and translocation cells. Several studies have investigated APA site switching various physiological states; nevertheless, they only focused on either the genes with two known sites or several candidate genes. Here, we developed a strategy to study genome-wide fashion second-generation sequencing technology which could not identify new but also analyze...
Based on amyloid cascade and tau hypotheses, protein biomarkers of different Aβ species in cerebrospinal fluid (CSF) blood/plasma/serum have been examined to correlate with brain pathology. Recently, unbiased proteomic profiling these human samples has initiated identify a large number novel AD biomarker candidates, but it is challenging define reliable candidates for subsequent large-scale validation. We present comprehensive strategy high confidence by integrating multiple proteomes AD,...
Background The redundant extracellular matrix (ECM) within tumor microenvironment (TME) such as hyaluronic acid (HA) often impairs intratumoral dissemination of antitumor drugs. Oncolytic viruses (OVs) are being studied extensively for cancer therapy either alone or in conjunction with chemotherapy and immunotherapy. Here, we designed a novel recombinant vaccinia virus encoding soluble version hyaluronidase Hyal1 (OVV-Hyal1) to degrade the HA investigated its effects combination chemo drugs,...
Murine models of Alzheimer's disease (AD) are crucial for elucidating mechanisms but have limitations in fully representing AD molecular complexities. Here we present the comprehensive, age-dependent brain proteome and phosphoproteome across multiple mouse amyloidosis. We identified shared pathways by integrating with human metadata prioritized components multi-omics analysis. Collectively, two commonly used (5xFAD APP-KI) replicate 30% protein alterations; additional genetic incorporation...
BACKGROUND: The nuclear factor-kB (NF-kB) family of transcriptional regulators are central mediators the cellular inflammatory response. Although constitutive NF-kB signaling is present in most human tumours, mutations pathway members rare, complicating efforts to understand and block aberrant activity cancer. METHODS: To identify additional genetic alterations that drive ependymoma, we sequenced whole genomes (WGS) 41 tumours matched normal blood, transcriptomes (RNAseq) 77 tumours....
Database search programs are essential tools for identifying peptides via mass spectrometry (MS) in shotgun proteomics. Simultaneously achieving high sensitivity and specificity during a database is crucial improving proteome coverage. Here we present JUMP, new hybrid program that generates amino acid tags ranks peptide spectrum matches (PSMs) by an integrated score from the pattern matching. In typical run of liquid chromatography coupled with high-resolution tandem MS, more than 95% MS/MS...
Blood-based protein measurement is a routine practice for detecting biomarkers in human disease. Comprehensive profiling of blood/plasma/serum proteome challenge due to an extremely large dynamic range, as exemplified by small subset highly abundant proteins. Antibody-based depletion these proteins alleviates the problem but introduces experimental variations. We aimed establish method direct undepleted serum and apply toward biomarker discovery Alzheimer's disease (AD), AD most common form...
Isobaric labeling quantification by mass spectrometry (MS) has emerged as a powerful technology for multiplexed large-scale protein profiling, but measurement accuracy in complex mixtures is confounded the interference from coisolated ions, resulting ratio compression. Here we report that compression can be essentially resolved combination of pre-MS peptide fractionation, MS2-based detection, and post-MS computational correction. To recapitulate complexity biological samples, pooled tandem...