A5028607087- Cancer Genomics and Diagnostics
- Ovarian cancer diagnosis and treatment
- Radiomics and Machine Learning in Medical Imaging
- Glycosylation and Glycoproteins Research
- Monoclonal and Polyclonal Antibodies Research
- Insect symbiosis and bacterial influences
- Ferroptosis and cancer prognosis
- Advanced Proteomics Techniques and Applications
- Peptidase Inhibition and Analysis
- Advancements in Photolithography Techniques
- Insect Resistance and Genetics
- Mosquito-borne diseases and control
- RNA modifications and cancer
- Electron and X-Ray Spectroscopy Techniques
- Advanced Biosensing Techniques and Applications
- Aluminum toxicity and tolerance in plants and animals
- Studies on Chitinases and Chitosanases
- Advanced Surface Polishing Techniques
- Integrated Circuits and Semiconductor Failure Analysis
- Fungal and yeast genetics research
- DNA Repair Mechanisms
- Covalent Organic Framework Applications
- Biochemical and Structural Characterization
- Advanced biosensing and bioanalysis techniques
- Transgenic Plants and Applications
University of Kansas
2022-2024
University of Notre Dame
2019-2023
Taiwan Semiconductor Manufacturing Company (Taiwan)
2014-2018
Feng Chia University
2018
National Taiwan University
2017
The biomarker CA125, a peptide epitope located in several tandem repeats of the mucin MUC16, is gold standard for monitoring regression and recurrence high-grade serous ovarian cancer response to therapy. However, CA125 along with structural features MUC16 molecule are ill defined. One central aspect still unresolved number how many these contain epitope. Studies from early 2000s assembled short DNA reads estimate that contained 63 repeats.Here, we conduct Nanopore long-read sequencing...
Abstract Upon environmental changes, proliferating cells delay cell cycle to prevent further damage accumulation. Yeast Cip1 is a Cdk1 and Cln2-associated protein. However, the function regulation of are still poorly understood. Here we report that expression co-regulated by cell-cycle-mediated factor Mcm1 stress-mediated factors Msn2/4. Overexpression arrests through inhibition Cdk1–G1 cyclin complexes at G1 stage stress-activated protein kinase-dependent T65, T69, T73 phosphorylation may...
Immobilization of proteins on magnetic nanoparticles (MNPs) is an effective approach to improve protein stability and facilitate separation immobilized for repeated use. Herein, we exploited the efficient SpyTag-SpyCatcher chemistry conjugation functional onto MNPs established a robust magnetic-responsive nanoparticle platform immobilization. To maximize loading capacity achieve outstanding water dispersity, SpyTag peptide was incorporated into surface-charged polymers MNPs, which provided...
Prevention of mosquito-borne infectious diseases will require new classes environmentally safe insecticides and novel mosquito control technologies. Saccharomyces cerevisiae was engineered to express short hairpin RNA (shRNA) corresponding Rbfox1 genes. The yeast induced target gene silencing, resulting in larval death that observed both laboratory outdoor semi-field trials conducted on Aedes aegypti. High levels mortality were also during simulated field which adult females consumed...
Surface plasmon resonance (SPR) is a popular real-time technique for the measurement of binding affinity and kinetics, bench-top instruments combine affordability ease use with other benefits technique. Biomolecular ligands labeled 6xHis tag can be immobilized onto sensing surfaces presenting Ni2+-nitrilotriacetic acid (NTA) functional group. While Ni-NTA immobilization offers many advantages, including ability to regenerate reuse sensors, its lead signal variability between experimental...
Concerns for widespread insecticide resistance and the unintended impacts of insecticides on nontarget organisms have generated a pressing need mosquito control innovations. A yeast RNAi-based that targets conserved site in Irx family genes, but which has not yet been identified genomes organisms, was developed characterized. Saccharomyces cerevisiae constructed to express short hairpin RNA (shRNA) matching target induced significant Aedes aegypti larval death both lab trials outdoor...
BACKGROUND: Despite its importance in the clinical management of ovarian cancer, CA125 biomarker – located on mucin protein MUC16 is still not completely understood. Questions remain about MUC16’s function and structure, specifically identity location epitopes. OBJECTIVE: The goal this study was to characterize interaction individual recombinant repeats from tandem repeat domain with antibodies used II test. METHODS: Using E. coli expression, we isolated nine putative antigenic CA125. Amino...
The development of extreme ultraviolet (EUV) lithography towards the 22 nm node and beyond depends critically on availability resist materials that meet stringent control requirements in resolution, line edge roughness, sensitivity. However, molecular mechanisms govern structure-function relationships current EUV systems are not well understood. In particular, nanoscale structures polymer base distributions photoacid generators (PAGs) should play a critical roles performance system, yet...
N-linked glycosylation is an important post-translational modification that difficult to identify and quantify in traditional bottom-up proteomics experiments. Enzymatic deglycosylation of proteins by peptide:
<p>The amino acid consensus sequence derived from long-read cDNA sequencing of six sources MUC16 mRNA</p>
<p>Proteomic analysis of immunoprecipitated MUC16. Identified MUC16 peptides from (<b>A</b>) OVCAR3 cell lysate and (<b>B</b>) pooled ascites mapped onto the proposed repeat domains The are each represented by a horizontal line, amino acid position within is on <i>x</i>-axis. Repeats shown in green (8--12) five repeats not included NM_024690.2 sequence (MUC16 isoform 4). Rectangles represent peptides, where pink unique to 8–12 (map nowhere else...
<p>Proteomic analysis of immunoprecipitated and patient-derived samples. Identified MUC16 peptides from (<b>A</b>) OVCAR3 cell lysate (<b>B</b>) pooled ascites mapped onto the 63 tandem repeat model. (<b>C</b>) Patient 1, (<b>D</b>) 2, (<b>E</b>) 3 The domains are each represented by a horizontal line, amino acid position within is on <i>x</i>-axis. Repeats shown in green (6, 10, 12--53) 44 repeats model, but not...
<p>Nanopore sequencing dot plots. The plots show the read length and average quality. Each represents a single read. (A) Kuramochi, (B) OVCAR3, (C) OVCAR5, (D) OV1, (E) OV2, (F) OV3. Note that axes for each plot are optimized plot’s data.</p>
<p>Clustal Omega alignment of the 19 tandem repeats. The repeats were aligned using Clustal and visualized Jalview with standard color scheme. consensus sequence shows abundance each amino acid at position.</p>
<p>Proteomic analysis of immunoaffinity-free enriched MUC16. Identified MUC16 peptides from ascites-derived three patients (A) Patient 1, (B) 2, (C) 3. The repeat domains are each represented by a horizontal line, and the amino acid position within is on x-axis. Repeats shown in green (8-12) five repeats not included NM_024690.2 sequence (MUC16 isoform 4). Rectangles represent peptides, where pink unique to 8-12 (map nowhere else MUC16) blue 8-12. All proteome).</p>
<p>Gel image of cDNA products from RT-PCR. Lane 1: NEB 1 kb Extend DNA Ladder. Lanes 2–4: RT-PCR product Kuramochi, OVCAR3 and OVCAR5 cells, respectively. The asterisk indicates the location approximate 10 kbp product.</p>
<p>Comparison of the sequence reported in this study to by O’Brien and co-workers (AF414442.2). Tandem repeats were aligned using Clustal Omega visualized Jalview with standard color scheme. are shown pairs, AF414442.2 above our below. The consensus shows abundance each amino acid at position.</p>
<p>AlphaFold predicted MUC16 tandem repeat model. The 19 structures were individually and overlaid. All repeats contain a similar structure including two alpha helices, one beta sheet, proline/serine/threonine-rich disordered region (this is not with high confidence omitted for clarity).</p>
<p>Set of three primer sequences originally developed for RT-PCR. The sets were found to be redundant, which suggested that the tandem repeat region is shorter than reported in AF414442.2.</p>
<p>Gel image of cDNA products from RT-PCR patient tumors. (A) Lanes 1-3: NEB 1 kb Extend DNA Ladder, product OV2 and OV3. Asterisk indicates the location approximate 10 kbp product. (B) Lane 1: Ladder. 2: OV1. product.</p>
<p>Primer sequences used for RT-PCR</p>
<p>Protein alignment</p>
<p>Comparison of the sequence reported in this study to by O’Brien and co-workers (AF414442.2). Tandem repeats were aligned using Clustal Omega visualized Jalview with standard color scheme. are shown pairs, AF414442.2 above our below. The consensus shows abundance each amino acid at position.</p>
<p>Proteomic analysis of immunoprecipitated MUC16. Identified MUC16 peptides from (<b>A</b>) OVCAR3 cell lysate and (<b>B</b>) pooled ascites mapped onto the proposed repeat domains The are each represented by a horizontal line, amino acid position within is on <i>x</i>-axis. Repeats shown in green (8--12) five repeats not included NM_024690.2 sequence (MUC16 isoform 4). Rectangles represent peptides, where pink unique to 8–12 (map nowhere else...