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Showing 1–18 of 18 results
Advanced filters: Author: Daniel Tward Clear advanced filters

  • Challenges in mapping modern molecular and anatomical datasets into a common atlas are not fully addressed. Here authors present approaches to aligning multimodal neuroimaging data and quantifying geometric variability. Authors also make sure open-source code, dataset standards, and a web interface are available, enabling large scale integration of datasets essential to modern neuroscience.

    • Daniel J. Tward
    • Bryson D. P. Gray
    • Partha P. Mitra
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-14

  • Kaitlin Stouffer and colleagues describe Projective Large Deformation Diffeomorphic Metric Mapping (Projective LDDMM), a computational technique to integrate dense 3D tissue level MRI data with sparse measurements from histological or other optical imaging modalities. The authors demonstrate application through projection of neuropathological markers from histological images onto MRI data of the hippocampus.

    • Kaitlin M. Stouffer
    • Menno P. Witter
    • Michael I. Miller
    ResearchOpen Access
    Communications Engineering
    Volume: 1, P: 1-11

  • Breast cancer cells interact with neighbouring adipocytes, but the mechanisms are not fully understood. Here, the authors show that triple-negative breast cancer (TNBC) cells transfer cAMP through gap junctions, activating lipolysis in tumour-associated adipocytes to promote TNBC growth.

    • Jeremy Williams
    • Roman Camarda
    • Andrei Goga
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-17

  • The authors mapped the dendritic morphology of thousands of striatal D1-type and D2-type medium spiny neurons in healthy and Huntington’s disease mouse brains, revealing dendritic modules with distinct neuronal shapes, spatial distributions and cortical inputs.

    • Chang Sin Park
    • Ming Yan
    • X. William Yang
    Research
    Nature Neuroscience
    Volume: 28, P: 2628-2643

  • Recent studies integrating multi-omics data with cell atlases across development for brains of humans and model organisms are revealing conserved and divergent patterns of brain development at the molecular and cellular levels, and linking these to complex behavioural and neuropsychiatric phenotypes.

    • Tomasz J. Nowakowski
    • Patricia R. Nano
    • Hongkui Zeng
    Reviews
    Nature
    Volume: 647, P: 51-59

  • Spatial transcriptomics (ST) enables gene expression characterisation within tissue sections, but comparing across sections and technologies remains challenging. Here, authors develop STalign to spatially align ST data and demonstrate applications including aligning to common coordinate frameworks.

    • Kalen Clifton
    • Manjari Anant
    • Jean Fan
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-14

  • Coordinated proliferation and differentiation of diverse cell populations drive pancreatic epithelial and mesenchymal development. Here, the authors profile cell type dynamics in the developing mouse pancreas using single-cell RNA sequencing, identifying mesenchymal subtypes and undescribed endocrine progenitors.

    • Lauren E. Byrnes
    • Daniel M. Wong
    • Julie B. Sneddon
    ResearchOpen Access
    Nature Communications
    Volume: 9, P: 1-17

  • The Cancer Genome Atlas presents an integrative genome-wide analysis of genetic alterations in 279 head and neck squamous cell carcinomas (HNSCCs), which are classified by human papillomavirus (HPV) status; alterations in EGFR, FGFR, PIK3CA and cyclin-dependent kinases are shown to represent candidate targets for therapeutic intervention in most HNSCCs.

    • Michael S. Lawrence
    • Carrie Sougnez
    • Wendell G. Yarbrough
    ResearchOpen Access
    Nature
    Volume: 517, P: 576-582

  • To construct a comprehensive atlas of cell types in each brain structure, we paired high-throughput single-nucleus RNA sequencing with Slide-seq, a recently developed spatial transcriptomics method with near-cellular resolution, across the entire mouse brain.

    • Jonah Langlieb
    • Nina S. Sachdev
    • Evan Z. Macosko
    ResearchOpen Access
    Nature
    Volume: 624, P: 333-342

  • Schwannomas are regularly treated with radiotherapy, but the molecular effects on these tumours and their microenvironment remain unclear. Here, the authors show that radiotherapy can induce epigenetic reprogramming and immune infiltration in schwannomas, and develop the snARC-seq approach to analyse the epigenomic evolution at the single-cell level.

    • S. John Liu
    • Tim Casey-Clyde
    • David R. Raleigh
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-19

  • Constructing a single-cell transcriptional map of primary human epidermal melanocytes, Belote et al. uncover distinct subpopulations of melanocytes, characterize dedifferentiation patterns associated with melanoma prognosis and uncover the unique cellular origins of acral melanoma.

    • Rachel L. Belote
    • Daniel Le
    • Robert L. Judson-Torres
    Research
    Nature Cell Biology
    Volume: 23, P: 1035-1047

  • ViterBrain is an automated probabilistic reconstruction method that can reconstruct neuronal geometry and processes from microscopy images with code available in the open-source Python package, brainlit.

    • Thomas L. Athey
    • Daniel J. Tward
    • Michael I. Miller
    ResearchOpen Access
    Communications Biology
    Volume: 5, P: 1-11