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
    Pan Fang, Yanlong Ji, Ivan Silbern, Carmen Doebele, Momchil Ninov, Christof Lenz, Thomas Oellerich, Kuan-Ting Pan*, Henning Urlaub*, (*co-correspondence)
    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
    Pan Fang, Yanlong Ji, Ivan Silbern, Rosa Viner, Thomas Oellerich, Kuan-Ting Pan*, Henning Urlaub*, (*co-correspondence)
    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
    Roland Walter*, Kuan-Ting Pan*, Carmen Doebele*, Federico Comoglio, Katarzyna Tomska, Hanibal Bohnenberger, Ryan M Young, Laura Jacobs, Ulrich Keller, Halvard Bönig, Michael Engelke, Andreas Rosenwald, Henning Urlaub, Louis M Staudt, Hubert Serve, Thorsten Zenz, Thomas Oellerich, (*equal contribution)
    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
See more Publications

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.

For more information, please contact

Kuan-Ting.Pan@kgu.de

Publications

  • 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