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[VIB Conference] Session 4: Evolution and cellular complexity of the brain
Published:
Talk from Stein Aerts (VIB Center for AI & Computational Biology) with previous SCENIC+ lab seminar.
[VIB Conference] Session 3: From Atlassing to therapy
Published:
Talk from Aparna Bhaduri (UCLA), Boaz Levi (Allen Institute), Xiaowei Zhuang (Harvard University), and Agnete Kirkeby (University of Copenhagen).
[VIB Conference] Session 2: Computational analysis
Published:
Talk from Casey Schneider-Mizell (Allen Institute), Zhisong He (ETH Zürich), Zizhen Yao (Allen Institute, and Sarah Marzi (King’s College London).
[VIB Conference] Session 1: Neurodevelopment & neurodegeneration
Published:
Talk from Mercedes Paredes (UCSF), Ed Lein (Allen Institute), Philip L. De Jager (Columbia University), and Naomi Habib (Hebrew University).
[VIB Conference] Keynote Lecture
Published:
Talk from Stein Linnarsson (Karolinska Institute): Exploring glioblastoma cell states, their parallels with wound healing and fetal brain development, and spatial profiling advancements using Enhanced Electric FISH.
Numpy & Pandas
Published:
Learn the basics of Python, including variables, lists, and functions. Explore NumPy for matrix operations and Pandas for structured data handling, covering key concepts like indexing, reshaping, and grouping.
VSCode Shortcut / Vim Usage
Published:
VSCode shortcuts for editing and navigation, plus basic Vim commands for file management.
Preparing Python/AI Development Environment
Published:
Learn the basics of computer usage and Python programming, including file systems, GUI vs. CLI, and setting up coding environments like Anaconda. Explore Python as a versatile, platform-independent, and easy-to-use language.
portfolio
[Poster] Exploring the cellular and temporal specificity of neurological disorder risk genes in human brain development
Present a human brain single-cell atlas spanning all developmental stages, highlighting temporal and cellular-specific expression of 3,380 neurological disorder risk genes.
[Poster] Dysregulation of the Wnt/β-Catenin signaling pathway via Rnf146 upregulation in a VPA-induced omuse model of autism spectrum disorder
Present findings on how prenatal valproic acid exposure disrupts neurodevelopment via RNF146-driven Wnt/β-catenin pathway dysregulation in an autism mouse model.
[Poster] Gene regulatory network reveals the landscape of myeloid dendritic cell differentiation
Presented the use of single-cell analysis workflows (public dataset integration, gene regulatory network construction, and DEG analysis) to investigate dendritic cell differentiation.
publications
Angiopoietin-2-Dependent Spatial Vascular Destabilization Promotes T-cell Exclusion and Limits Immunotherapy in Melanoma
Published in Cancer Research, 2023
This study identifies Angiopoietin-2 (ANGPT2) as a key driver of immune evasion in melanoma by destabilizing vasculature. High ANGPT2 levels were linked to T-cell exclusion, while targeting ANGPT2 improved vascular integrity, T-cell infiltration, and immunotherapy effectiveness, highlighting its potential as a therapeutic target.
Dysregulation of the Wnt-β-catenin signaling pathway via Rnf146 upregulation in a VPA-induced mouse model of autism spectrum disorder
Published in Experimental & Molecular Medicine, 2023
This study investigates autism spectrum disorder (ASD) using a VPA-induced mouse model, uncovering that Rnf146 upregulation disrupts the Wnt/β-catenin pathway in the prefrontal cortex. This dysregulation impairs social behaviors, increases excitatory synaptic transmission, and alters synaptic organization, identifying Rnf146 as a potential therapeutic target.
An integrative single-cell atlas to explore the cellular and temporal specificity of neurological disorder genes during human brain development
Published in Experimental & Molecular Medicine, 2024
This study introduces a single-cell atlas of the developing human brain, spanning 393,060 cells from fetal stages to adulthood. It reveals the temporal and spatial dynamics of disorder risk genes, providing insights into brain development and its connection to neurological disorders, and serves as a valuable resource for neurodevelopmental research.
Proteogenomic analysis reveals non-small cell lung cancer subtypes predicting chromosome instability, and tumor microenvironment
Published in Nature Communications, 2024
This study identifies five NSCLC subtypes through proteogenomic analysis, linking them to chromosome instability and tumor microenvironment variations for personalized treatment insights.
RNA N6-Methyladenosine-Binding Protein YTHDFs Redundantly Attenuate Cancer Immunity by Downregulating IFN-gamma Signaling in Gastric Cancer
Published in Advanced Science, 2024
This study reveals that YTHDF proteins suppress cancer immunity by downregulating IFN-γ signaling, highlighting them as potential targets for enhancing immunotherapy in gastric cancer.