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Weiruo Zhang, PhD, Stanford University-“Integrative spatial-omics analysis of cellular architecture mediating lymph node metastasis in head and neck cancer”

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Spatial biology is a new frontier that has become accessible through advances in spatial profiling technologies, such as multiplexed in situ imaging spatial proteomics, which can provide single-cell resolution up to 60 markers. In this talk, I will introduce a computational analysis pipeline that performs integrative analysis of spatial proteomics and single-cell RNA sequencing to […]

Gennady Gorin, PhD – California Institute of Technology – “Stochastic foundations for single-cell RNA sequencing”

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  Single-cell RNA sequencing, which quantifies cell transcriptomes, has seen widespread adoption, accompanied by a proliferation of analytic methods. However, there has been relatively little systematic investigation of its best practices and their underlying assumptions, leading to challenges and discrepancies in analysis. I motivate a set of generic, principled strategies for modeling the biological and […]

Vitalii Kleshchevnikov, PhD – Wellcome Sanger Institute – “Probabilistic models to resolve cell identity and tissue architecture”

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Speaker:  Vitalii Kleshchevnikov, PhD Affiliation:  Wellcome Sanger Institute Position:  Bioinformatician @ Bayraktar, Stegle, Teichmann group Host: Daniel MacDonald, Gibson Lab Abstract:  Cell identity drives cell-cell communication and tissue architecture and is in return regulated by cell-extrinsic cues. Cell identity is determined by the combination of intrinsic developmentally established transcription factor use (TF) and constitutive as […]

ABC Hybrid Seminar: Bokai Zhu, PhD – Ragon Institute – “Integration of spatial-omics and single-cell data across modalities with weakly linked features”

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Speaker:  Bokai Zhu, PhD Affiliation: Ragon Institute of MGH, Harvard and MIT, Broad Institute, MIT Position:  Postdoctoral Research Fellow Host: Muhammad Shaban, PhD - Mahmood Lab Date: Monday September 23, 2024 Time: 1:00-2:00PM ET In person: Duncan Reid Conference Room (directions below) Zoom: https://partners.zoom.us/j/82163676866 Meeting ID: 821 6367 6866 Abstract: Advancements in single-cell and spatial-omics […]

ABC Seminar: Brian Hie, PhD – Stanford University – “Sequence modeling from molecular to genome scale with Evo”

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Title: Sequence modeling from molecular to genome scale with Evo Speaker:  Brian Hie, PhD Affiliation: Stanford University, Chemical Engineering and Data Science Position:  Assistant Professor Host: Jiening Zhu, PhD – Gerber Lab Date: Monday November 18, 2024 Time: 4:00-5:00PM ET Zoom: https://partners.zoom.us/j/82163676866 Meeting ID: 821 6367 6866 Abstract: The genome is a sequence that encodes […]