| 1 | Fundamental and practical approaches for single-cell ATAC-seq analysis显示文摘Assays for transposase-accessible chromatin through high-throughput sequencing(ATAC-seq)are effective tools in the study of genome-wide chromatin accessibility landscapes.With the rapid development of single-cell technology,open chromatin regions that play essential roles in epigenetic regulation have been measured at the single-cell level using single-cell ATAC-seq approaches.The application of scATAC-seq has become as popular as that of scRNA-seq.However,owing to the nature of scATAC-seq data,which are sparse and noisy,processing the data requires different methodologies and empirical experience.This review presents a practical guide for processing scATAC-seq data,from quality evaluation to downstream analysis,for various applications.In addition to the epigenomic profiling from scATAC-seq,we also discuss recent studies in which the function of non-coding variants has been investigated based on cell type-specific cis-regulatory elements and how to use the by-product genetic information obtained from scATAC-seq to infer single-cell copy number variants and trace cell lineage.We anticipate that this review will assist researchers in designing and implementing scATAC-seq assays to facilitate research in diverse fields. | Peiyu Shi Yage Nie Jiawen Yang Weixing Zhang Zhongjie Tang Jin Xu | 2022 | aBIOTECH2022，3，3： | 1 |
| 2 | 3D printedβ-sheet-reinforced natural polymer hydrogel bilayer tissue engineering scaffold显示文摘It remains a significant challenge to fabricate natural polymer(NP)hydrogels with anti-swelling ability and high strengths in the physiological environment.Herein,theβ-sheet-reinforced NP hydrogel is developed by copolymerizing methacrylated gelatin(GelMA)and methacrylated silk fibroin(SFMA)in aqueous solution,followed by ethanol treatment(named GelMA-SFMAAL).Theβ-sheets formed by SFMA can act as a stable physical crosslink to enhance the mechanical properties and prolong the degradation of the GelMA network.Importantly,the chemical crosslinking in the GelMA-SFMA hydrogel prevents excessive aggregation of hydrophobicβ-sheets,thereby avoiding the formation of brittle hydrogel.The obtained GelMA-SFMA-AL hydrogels exhibit considerably enhanced mechanical properties(Young's modulus:0.89–3.68 MPa;tensile strength:0.31–0.96 MPa;toughness:0.09–0.63 MJ/m^(3);compressive modulus:0.78–2.20 MPa;compressive strength:2.65–5.93 MPa)compared with GelMA-SFMA hydrogels(Young's modulus:0.04–0.13 MPa;tensile strength:0.04–0.07 MPa;toughness:0.01–0.02 MJ/m^(3);compressive modulus:0.03–0.09 MPa;compressive strength:0.30–0.64 MPa).A bilayer osteochondral scaffold is constructed via digital light processing(DLP)three-dimensiaonl(3D)printing technology,comprising GelMA-SFMA@diclofenac sodium(DS)-AL as the top layer and GelMA-SFMA@bioactive glass(BG)-AL as the bottom layer.The bilayer hydrogel scaffold is demonstrated to support cell attachment and spreading,and facilitate osteogenic differentiation of rat bone marrow stem cells in vitro.In vivo implantation experiment suggests this bilayer scaffold is promising to be used for osteochondral tissue regeneration. | ZHAO XinRui NIE XiongFeng ZHANG XiaoPing SUN YaGe YANG Rong BIAN XinYu ZHANG Qian WANG HongYing XU ZiYang LIU WenGuang | 2024 | Science China(Technological Sciences)2024，67，4： | 0 |
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