Kuan-Ting Pan
Junior Group Leader
Clinical Proteomics
Research Focus:
- Cancer proteome and post-translational modifications profiling
- Functional glycoproteomics
- Single-cell proteomics
Expertise and Technologies for FCI:
- Integrated proteomics analysis
- Multi-layered glycoproteomic profiling
- Automated, multiplexed sample preparation
Core Publications
- A streamlined pipeline for multiplexed quantitative site-specific N-glycoproteomics
We introduce SugarQuant, an integrated mass spectrometry-based pipeline comprising protein aggregation capture (PAC)-based sample preparation, multi-notch MS3 acquisition (Glyco-SPS-MS3) and a data-processing tool (GlycoBinder) that enables confident identification and quantification of intact glycopeptides in complex biological samples. PubMed - Evaluation and Optimization of High-Field Asymmetric Waveform Ion-Mobility Spectrometry for Multiplexed Quantitative Site-Specific N-Glycoproteomics
We show the advantages of high-field asymmetric-waveform ion-mobility spectrometry (FAIMS) for improved mass spectrometry-based qualitative and quantitative N-glycoproteomics. PubMed - HSP90 Promotes Burkitt Lymphoma Cell Survival by Maintaining Tonic B-cell Receptor Signaling
Our results demonstrate that HSP90 inhibition impairs BL cell survival by interfering with tonic BCR signaling, thus providing a molecular rationale for the use of HSP90 inhibitors in the treatment of BL. PubMed
Research Summary
Our group focuses on developing cutting-edge mass spectrometry-based technologies for high-throughput yet comprehensive proteomics and protein post-translational modifications profiling of tumors to unveil oncogenic signal transduction and proteomic regulations. Particularly, we take on the analytical challenges arising from the complexity and heterogeneity of glycosylation and develop methodologies for improved glycoproteomic analysis and proteome-wide functional examination of protein glycosylation. Our established workflow allows us to profile proteome, phosphoproteome, and glycoproteome of tumor materials simultaneously. Furthermore, we integrate such multi-layered proteomics with genomics, transcriptomics, and other system-wide functional screens to identify potential therapeutic targets and to support a better prospect of cancer diagnosis and prognosis. In addition, to fully characterize cancer heterogeneity, we are interested in developing single-cell proteomics methodologies and their integration with various single-cell omics technologies. Taken together, we aim to establish versatile proteomic technologies to enable a multi-dimensional molecular characterization of cancers.
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Publications
- Functional genomics identifies N-acetyllactosamine extension of complex N-glycans as a mechanism to evade lysis by natural killer cells
PubMed - Targeting N-linked Glycosylation for the Therapy of Aggressive Lymphomas
PubMed - 19F Electron-Nuclear Double Resonance Reveals Interaction between Redox-Active Tyrosines across the α/β Interface of E. coli Ribonucleotide Reductase
PubMed - Mucus sialylation determines intestinal host-commensal homeostasis
PubMed - Activation of autophagy reverses progressive and deleterious protein aggregation in PRPF31 patient-induced pluripotent stem cell-derived retinal pigment epithelium cells
PubMed - Functional characterization of the human Cdk10/Cyclin Q complex
PubMed - Strategies for Proteome-Wide Quantification of Glycosylation Macro- and Micro-Heterogeneity
PubMed - Quantitative Analysis of the Cardiac Phosphoproteome in Response to Acute β-Adrenergic Receptor Stimulation In Vivo
PubMed - The RNA helicase Dbp7 promotes domain V/VI compaction and stabilization of inter-domain interactions during early 60S assembly
PubMed - Evaluation and Optimization of High-Field Asymmetric Waveform Ion-Mobility Spectrometry for Multiplexed Quantitative Site-Specific N-Glycoproteomics
PubMed - A lysine-cysteine redox switch with an NOS bridge regulates enzyme function
PubMed - Relative Quantification of Phosphorylated and Glycosylated Peptides from the Same Sample Using Isobaric Chemical Labelling with a Two-Step Enrichment Strategy
PubMed - Protein Phosphorylation in Depolarized Synaptosomes: Dissecting Primary Effects of Calcium from Synaptic Vesicle Cycling
PubMed - A streamlined pipeline for multiplexed quantitative site-specific N-glycoproteomics
PubMed - Rewiring of B cell receptor signaling by Epstein-Barr virus LMP2A
PubMed - The vascular bone marrow niche influences outcome in chronic myeloid leukemia via the E-selectin - SCL/TAL1 - CD44 axis
PubMed - Integrated analysis of relapsed B-cell precursor Acute Lymphoblastic Leukemia identifies subtype-specific cytokine and metabolic signatures
PubMed - Disrupted alternative splicing for genes implicated in splicing and ciliogenesis causes PRPF31 retinitis pigmentosa
PubMed - Comparative proteomics reveals a diagnostic signature for pulmonary head-and-neck cancer metastasis
PubMed - Endogenous Stochastic Decoding of the CUG Codon by Competing Ser- and Leu-tRNAs in Ascoidea asiatica
PubMed - Adapting Data-Independent Acquisition for Mass Spectrometry-Based Protein Site-Specific N-Glycosylation Analysis
PubMed - HSP90 promotes Burkitt lymphoma cell survival by maintaining tonic B-cell receptor signaling
PubMed - Loss of the histone methyltransferase EZH2 induces resistance to multiple drugs in acute myeloid leukemia
PubMed - Hair cell synaptic dysfunction, auditory fatigue and thermal sensitivity in otoferlin Ile515Thr mutants
PubMed - S-nitrosylation of endogenous protein tyrosine phosphatases in endothelial insulin signaling
PubMed - Elucidation of tonic and activated B-cell receptor signaling in Burkitt's lymphoma provides insights into regulation of cell survival
PubMed - A deep proteomics perspective on CRM1-mediated nuclear export and nucleocytoplasmic partitioning
PubMed - Characteristic tandem mass spectral features under various collision chemistries for site-specific identification of protein S-glutathionylation
PubMed - Mass spectrometry-based quantitative proteomics for dissecting multiplexed redox cysteine modifications in nitric oxide-protected cardiomyocyte under hypoxia
PubMed - Nitrite-mediated S-nitrosylation of caspase-3 prevents hypoxia-induced endothelial barrier dysfunction
PubMed - Cysteine S-nitrosylation protects protein-tyrosine phosphatase 1B against oxidation-induced permanent inactivation
PubMed - DEN1 deneddylates non-cullin proteins in vivo
PubMed - Immobilized metal affinity chromatography revisited: pH/acid control toward high selectivity in phosphoproteomics
PubMed - Tyrosine phosphoproteomics and identification of substrates of protein tyrosine phosphatase dPTP61F in Drosophila S2 cells by mass spectrometry-based substrate trapping strategy
PubMed - PGTdb: a database providing growth temperatures of prokaryotes
PubMed