Guoqiang Yu

FOCUS-3D: Robust, generalizable volumetric cell segmentation for three-dimensional fluorescence microscopy

FOCUS-3D segments cells in 3D fluorescence microscopy data across species and tissues, revealing phases of notochord morphogenesis in zebrafish.

High-Fidelity Long-term Whole-embryo Lineage and Fate Reconstruction by Iterative Tracking with Error Correction

ITEC reconstructs high-fidelity cell lineages and fate maps of embryos with over 99.7% accuracy using iterative tracking and error correction.

Whole-embryo Spatial Transcriptomics at Subcellular Resolution from Gastrulation to Organogenesis

The paper introduces a whole-embryo spatial transcriptomics method and generates a comprehensive gene expression and chromatin accessibility atlas in zebrafish embryos.

Mitochondrial fission controls astrocyte morphogenesis and organization in the cortex

This study shows that mitochondrial fission is essential for astrocyte morphogenesis and organization in the cortex, with Drp1 loss causing morphological and functional deficits.

Genetically Labeled Premyelinating Oligodendrocytes: Bridging Oligodendrogenesis and Neuronal Activity

This study generates a genetically labeled premyelinating oligodendrocyte mouse line to study their morphology, transcriptomics, and role in axon ensheathment and neuronal activity.

Decoding the Epigenetic Landscape: Insights into 5mC and 5hmC Patterns in Mouse Cortical Cell Types

The paper maps 5mC and 5hmC modifications in mouse cortical cell types using Nanopore sequencing and RNA sequencing, revealing astrocytes as a major source of 5hmC and providing a resource for methylome analysis.

swCAM: estimation of subtype-specific expressions in individual samples with unsupervised sample-wise deconvolution

swCAM estimates subtype-specific expressions in individual samples using unsupervised deconvolution, revealing changes in cell proportions and gene expression in bipolar disorder.

Met is required for oligodendrocyte progenitor cell migration in Danio rerio

This study shows that Met signaling is required for oligodendrocyte progenitor cell migration in zebrafish.

Alignment of LC-MS Profiles by Neighbor-wise Compound-specific Graphical Time Warping with Misalignment Detection

This paper introduces ncGTW, a method to align LC-MS profiles by detecting and correcting misalignments using compound-specific warping functions and neighbor constraints.

SynQuant: An Automatic Tool to Quantify Synapses from Microscopy Images

SynQuant quantifies synapses from microscopy images by addressing antibody specificity, brightness heterogeneity, and noise, showing improved performance over existing tools in disease models.