Grant Details
Grant Number: |
4UH3CA256960-03 Interpret this number |
Primary Investigator: |
Zhong, Sheng |
Organization: |
University Of California, San Diego |
Project Title: |
Spatial in Situ Mapping of Rna-Chromatin Interactions at Transcriptome-and-Genome Scale in Human Tissues |
Fiscal Year: |
2022 |
Abstract
Spatial in situ mapping of RNA-chromatin interactions in human vasculature
Abstract
A breakthrough of this project is to simultaneously improve the state-of-art spatial resolution, dynamic range of
RNA quantification, and applicable dimensions of human tissue by one to several orders of magnitude. This
breakthrough will deliver to users extremely high-resolution, high-density, high-fidelity and reproducible spatial
mapping slides (HiFi slides) for spatial transcriptome analysis or spatial mapping of modified- or interacting-
nucleic acids. We will leverage HiFi slides to provide spatial transcriptome and spatial RNA-chromatin
interactome mapping tools in unprecedented resolution. This project will generate HiFi spatial transcriptome,
HiFi spatial RNA-crhomatin interactome, and high-resolution protein spatial profiles of 96 proteins from
mesenteric arteries of veins, and the microvasculature from pancreas, liver and brain. These datasets will form
the initial human EC biomolecular map (HuEC-MAP). These data will offer unprecedented insights to the
molecular nature of the tissue-specific morphologies and functions of the blood vessel endothelium, which are
critical to the development and functions of the associated tissues.
Publications
Genome-Wide Mapping of RNA-Protein Associations via Sequencing.
Authors: Qi Z.
, Xue S.
, Chen J.
, Zhao W.
, Johnson K.
, Wen X.
, Richard J.L.C.
, Zhong S.
.
Source: Biorxiv : The Preprint Server For Biology, 2024-09-04 00:00:00.0; , .
EPub date: 2024-09-04 00:00:00.0.
PMID: 39282297
Related Citations
Modeling blood-brain barrier formation and cerebral cavernous malformations in human PSC-derived organoids.
Authors: Dao L.
, You Z.
, Lu L.
, Xu T.
, Sarkar A.K.
, Zhu H.
, Liu M.
, Calandrelli R.
, Yoshida G.
, Lin P.
, et al.
.
Source: Cell Stem Cell, 2024-06-06 00:00:00.0; 31(6), p. 818-833.e11.
EPub date: 2024-05-15 00:00:00.0.
PMID: 38754427
Related Citations
Single-cell multiplex chromatin and RNA interactions in ageing human brain.
Authors: Wen X.
, Luo Z.
, Zhao W.
, Calandrelli R.
, Nguyen T.C.
, Wan X.
, Charles Richard J.L.
, Zhong S.
.
Source: Nature, 2024 Apr; 628(8008), p. 648-656.
EPub date: 2024-03-27 00:00:00.0.
PMID: 38538789
Related Citations
Joint profiling of multiplex chromatin interactions, gene expression, and RNA-chromatin associations in single cells of the human brain.
Authors: Luo Z.
, Wen X.
, Zhao W.
, Nguyen T.C.
, Wan X.
, Richard J.L.C.
, Zhong S.
.
Source: Biorxiv : The Preprint Server For Biology, 2023-06-28 00:00:00.0; , .
EPub date: 2023-06-28 00:00:00.0.
PMID: 37425846
Related Citations
Long noncoding RNA LEENE promotes angiogenesis and ischemic recovery in diabetes models.
Authors: Tang X.
, Luo Y.
, Yuan D.
, Calandrelli R.
, Malhi N.K.
, Sriram K.
, Miao Y.
, Lou C.H.
, Tsark W.
, Tapia A.
, et al.
.
Source: The Journal Of Clinical Investigation, 2023-02-01 00:00:00.0; 133(3), .
EPub date: 2023-02-01 00:00:00.0.
PMID: 36512424
Related Citations
PHGDH expression increases with progression of Alzheimer's disease pathology and symptoms.
Authors: Chen X.
, Calandrelli R.
, Girardini J.
, Yan Z.
, Tan Z.
, Xu X.
, Hiniker A.
, Zhong S.
.
Source: Cell Metabolism, 2022-05-03 00:00:00.0; 34(5), p. 651-653.
PMID: 35508105
Related Citations
Anatomical structures, cell types and biomarkers of the Human Reference Atlas.
Authors: Börner K.
, Teichmann S.A.
, Quardokus E.M.
, Gee J.C.
, Browne K.
, Osumi-Sutherland D.
, Herr B.W.
, Bueckle A.
, Paul H.
, Haniffa M.
, et al.
.
Source: Nature Cell Biology, 2021 11; 23(11), p. 1117-1128.
EPub date: 2021-11-08 00:00:00.0.
PMID: 34750582
Related Citations