时空组学数据库_时空组学资源_STOmics - 华大时空

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由深圳华大生命科学研究院联合深圳国家基因库共同研发的时空组学数据库V1.0版本 (STOmicsDB)在国家基因库生命大数据平台 (CNGBdb) 于2022年正式上线，致力于促进时空组学的数据探索和学术研究。

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SAW: An efficient and accurate data analysis workflow for Stereo-seq spatial transcriptomics

SAW: An efficient and accurate data analysis workflow for Stereo-seq spatial transcriptomics

The basic analysis steps of spatial transcriptomics involves obtaining gene expression information from both space and cells. This process requires a set of tools to be completed, and existing tools face performance issues when dealing with large data sets.

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A spatial transcriptome map of developing maize ear

A spatial transcriptome map of developing maize ear

In this study, we used spatial enhanced resolution omics-sequencing (Stereo-seq) to construct a precise spatial transcriptome map of developing maize ear primordia.

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Macaque Brain Atlas

Macaque Brain Atlas

Non-human primates provide a unique way to study the only model in which both developmental and pathological features of the brain in a species phylogenetically close to human.

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A cellular hierarchy in melanoma uncouples growth and metastasis

A cellular hierarchy in melanoma uncouples growth and metastasis

Although melanoma is notorious for its high degree of heterogeneity and plasticity, the origin and magnitude of cell state diversity remains poorly understood. Equally, it is not known whether melanoma growth and metastatic dissemination are supported by overlapping or distinct melanoma subpopulations.

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A cellular resolution spatial transcriptomic landscape of the postnatal mouse brain

A cellular resolution spatial transcriptomic landscape of the postnatal mouse brain

Here we apply Stereo-seq to generate a spatially-resolved transcriptomic description of the postnatal day 7 (P7) murine whole brain sagittal section near the middle line. Our study comprehensively dissected the anatomical regions, gene expression and gene regulatory network patterns and cell type localization at whole brain scale.

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Spatially resolved multi-omics analytics of pituitary plasticity in mammals

Spatially resolved multi-omics analytics of pituitary plasticity in mammals

Our results reveal the pituitary cell composition and spatial-temporal molecular features of mesenchymal, epithelial and stem cells, and hormonal cells. Analysis of pseudotime trajectory and transcription factor activity unveil the critical regulatory networks for cell fate determination and functions, including Axon guidance and Hippo pathways.

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The Single-cell Stereo-seq reveals region-specific cell subtypes and transcriptome profiling in Arabidopsis leaves

The Single-cell Stereo-seq reveals region-specific cell subtypes and transcriptome profiling in Arabidopsis leaves

We present the first in situ single-cell transcriptome profiling in plant, scStereo-seq (single-cell SpaTial Enhanced REsolution Omics-sequencing), which enabled the bona fide single-cell spatial transcriptome of Arabidopsis leaves.

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Spatial transcriptome uncovers the mouse lung architectures and functions

Spatial transcriptome uncovers the mouse lung architectures and functions

Revealing the relationships between the tissue structures and transcriptomic information is significant for understanding the mechanisms and principles underpinning the biological processes in lung development and diseases. The widely transcriptomic technics, including bulk and single-cell RNA sequencing, cannot accurately restore the tissue location of the gene expression.

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Spatial transcriptomic profile of cervical squamous cell carcinoma

To understand the etiological, structural, and immunological characteristics of cervical squamous cell carcinoma (CSCC), we conducted spatial transcriptomics (ST) experiments for cervical samples from 16 individuals.

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High-resolution spatiotemporal transcriptomic maps of developing Drosophila embryos and larvae

High-resolution spatiotemporal transcriptomic maps of developing Drosophila embryos and larvae

This database is intended to curate 3D spatial transcriptomes of all stages of Drosophila embryos and larvae generated by Stereo-seq. Drosophila melanogaster strain w1118 embryos were collected at two late stages (14-16 h and 16-18 h after egg laying, corresponding to stage 16~17 of embryogenesis) and all three stages were also collected.

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