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Abstract Age-related hearing loss (ARHL) is the most common cause of hearing loss and one of the most prevalent conditions affecting the elderly worldwide. Despite evidence from our lab and others about its polygenic nature,…

Abstract BACKGROUND: Although single-cell RNA-sequencing is commonly applied to dissect the heterogeneity in human tissues, it involves the preparation of single-cell suspensions via cell dissociation, causing loss of spatial information. In this study, we employed…

Introduction The neuronal system consists of various molecularly unique cell types arranged into different anatomical structures. Over the past decade, single-cell sequencing has made considerable strides in elucidating the cell heterogeneity of the nervous system….

Introduction Elucidating the underlying molecular alterations in Alzheimer’s Disease (AD) pathology is essential for understanding disease mechanisms and developing effective therapeutic interventions. In recent years, multiplexed imaging techniques have emerged as powerful tools for comprehensive…

Introduction In situ profiling of cancer tissue with spatial genomics technologies enables researchers to map and catalog various cancer cell subtypes, as well as their interactions with the immune system and the surrounding landscape of…

Introduction Spatial transcriptomic profiling of tumors reveals the spatial context of tumor cells and their interactions with surrounding components like immune cells, stroma, and vasculature. Single-cell resolution is crucial for studying these dynamics. The Vizgen…

Abstract: Immune exclusion and evasion are central barriers to the success of immunotherapies and cell therapies in solid tumors. Here we applied single cell spatial and perturbational transcriptomics alongside clinical, histological, and genomic profiling to…

Abstract: The thalamus plays a central coordinating role in the brain. Thalamic neurons are organized into spatially distinct nuclei, but the molecular architecture of thalamic development is poorly understood, especially in humans. To begin to…

Abstract: The cognitive abilities of humans are distinctive among primates, but their molecular and cellular substrates are poorly understood. We used comparative single-nucleus transcriptomics to analyze samples of the middle temporal gyrus (MTG) from adult…

Abstract: Variation in cytoarchitecture is the basis for the histological definition of cortical areas. We used single cell transcriptomics and performed cellular characterization of the human cortex to better understand cortical areal specialization. Single-nucleus RNA-sequencing…

Abstract: We analyzed >700,000 single-nucleus RNA sequencing profiles from 106 donors during prenatal and postnatal developmental stages and identified lineage-specific programs that underlie the development of specific subtypes of excitatory cortical neurons, interneurons, glial cell…

Introduction In situ profiling of cancer tissue facilitates the preservation of spatial context among the various substates of tumor cells, as well as their interactions with the immune system and the surrounding landscape of stroma,…

Single cell spatial-omics data visualization plays a pivotal role in unraveling the intricate spatial organization and heterogeneity of cellular systems. Various software tools and packages have been developed to effectively visualize and interpret single-cell spatial-omics…

Abstract Single-cell spatial transcriptomics such as in-situ hybridization or sequencing technologies can provide subcellular resolution that enables the identification of individual cell identities, locations, and a deep understanding of subcellular mechanisms. However, accurate segmentation and…

Abstract Duplication 15q (dup15q) syndrome is the most common genetic cause of autism spectrum disorder (ASD). Due to a higher genetic and phenotypic homogeneity compared to idiopathic autism, dup15q syndrome provides a well-defined setting to…

Abstract We analyze more than 700,000 single-nucleus RNA-seq profiles from 106 donors during prenatal and postnatal developmental stages and identify lineage-specific programs that underlie the development of specific subtypes of excitatory cortical neurons, interneurons, glial…

Abstract Spatial transcriptomics technologies enable the spatially resolved measurement of gene expression within a tissue specimen. With these technologies, researchers can investigate how cells organize into cellular niches which are defined as distinct regions in…

Abstract Proper brain function requires the assembly and function of diverse populations of neurons and glia. Single cell gene expression studies have mostly focused on characterization of neuronal cell diversity; however, recent studies have revealed…

ABSTRACT An accurate characterization of cell-cell communication (CCC) in the local tissue microenvironment is critical for elucidating the diverse biological processes that coordinate normal physiological development and disease progression. Emerging spatially resolved transcriptomics (SRT) techniques…