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Distinct immune escape and microenvironment between RG-like and pri-OPC-like glioma revealed by single-cell

Frontiers of Medicine doi: 10.1007/s11684-023-1017-7

Abstract: By conducting single-cell RNA-seq analyses on 26 gliomas, we reported their classification into primitiveoligodendrocyte precursor cell (pri-OPC)-like and radial glia (RG)-like tumors and validated it in aFor example, glial/glioma stem cell markers OLIG1/PTPRZ1 and B cell-specific receptors

Keywords： single-cell RNA-seq     glioma     radial glia     primitive oligodendrocyte precursor cell     immune escape    

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PathogenTrack and Yeskit: tools for identifying intracellular pathogens from single-cell RNA-sequencing

Frontiers of Medicine 2022, Volume 16, Issue 2,   Pages 251-262 doi: 10.1007/s11684-021-0915-9

Abstract: Taking advantage of single-cell RNA-sequencing (scRNA-seq) analysis, we can assess the transcriptomicfeatures at the single-cell level.Still, the tools used to interpret pathogens (such as viruses, bacteria, and fungi) at the single-cellcomputational pipeline that uses unmapped scRNA-seq data to identify intracellular pathogens at the single-cellthe state-of-the-art tools such as Viral-Track, and the first tools for identifying bacteria at the single-cell

Keywords： scRNA-seq     intracellular pathogen     microbe     COVID-19     SARS-CoV-2    

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Effects of vitrification and cryostorage duration on single-cell RNA-Seq profiling of vitrified-thawed

Ying Huo, Peng Yuan, Qingyuan Qin, Zhiqiang Yan, Liying Yan, Ping Liu, Rong Li, Jie Yan, Jie Qiao

Frontiers of Medicine 2021, Volume 15, Issue 1,   Pages 144-154 doi: 10.1007/s11684-020-0792-7

Abstract: vitrified-thawed oocytes (3, 3, 4, and 3 oocytes were cryostored for 1, 2, 3, and 12 months) were analyzed at a single-cell

Keywords： human metaphase II oocyte     vitrification     cryostorage duration     single-cell RNA-Seq     lncRNA    

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A cytoprotective graphene oxide-polyelectrolytes nanoshell for single-cell encapsulation

Luanying He, Yulin Chang, Junhao Zhu, Ying Bi, Wenlin An, Yiyang Dong, Jia-Hui Liu, Shihui Wang

Frontiers of Chemical Science and Engineering 2021, Volume 15, Issue 2,   Pages 410-420 doi: 10.1007/s11705-020-1950-9

Abstract: Graphene oxide (GO) has been increasingly utilized in the fields of food, biomedicine, environment and other fields because of its benign biocompatible. We encapsulated two kinds of GO with different sizes on yeast cells with the assistance of polyelectrolytes poly (styrene sulfonic acid) sodium salt (PSS) and polyglutamic acid (PGA) (termed as Y@GO). The result does not show a significant difference between the properties of the two types of Y@GO (namely Y@GO1 and Y@GO2). The encapsulation layers are optimized as Yeast/PGA/PSS/PGA/GO/PGA/PSS based on the morphology, dispersity, colony-forming unit, and zeta potential. The encapsulation of GO increases the roughness of the yeast. It is proved that the Y@GO increases the survival time and enhance the activity of yeast cells. The GO shell improves the resistance of yeast cells against pH and salt stresses and extends the storage time of yeast cells.

Keywords： GO     yeast     polyelectrolyte     cytoprotection     nanomaterials    

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Information Science Should Take a Lead in Future Biomedical Research Perspective

Kenta Nakai

Engineering 2019, Volume 5, Issue 6,   Pages 1155-1158 doi: 10.1016/j.eng.2019.07.023

Abstract: used for "reading" DNA sequences, but also for obtaining various types of information at the single-cell

Keywords： Data science     Artificial intelligence     Next-generation sequencing     DNA     Cancer genome     Single-cell transcriptomics    

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Distinct mononuclear diploid cardiac subpopulation with minimal cell–cell communications persists in

Frontiers of Medicine   Pages 939-956 doi: 10.1007/s11684-023-0987-9

Abstract: end, 12 645 cardiac cells were generated from embryonic day 17.5 and postnatal days 2 and 8 mice by single-cellMNDCMs having interactions with macrophages and non-proliferative MNDCMs (non-pMNDCMs) with minimal cell–cell Single-nucleus RNA sequencing and immunohistochemical staining further proved that the Myl4single-cell transcriptomic data.In conclusion, a novel non-pMNDCM subpopulation with minimal cell–cell communications was unveiled, highlighting

Keywords： mononuclear diploid cardiomyocytes     cell–cell communication     cardiac fibroblast     single-cell RNA sequencing    

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Single-cell RNA-seq data analysis on the receptor ACE2 expression reveals the potential risk of different

Xin Zou, Ke Chen, Jiawei Zou, Peiyi Han, Jie Hao, Zeguang Han

Frontiers of Medicine   Pages 185-192 doi: 10.1007/s11684-020-0754-0

Abstract: To construct a risk map of different human organs, we analyzed the single-cell RNA sequencing (scRNA-seqthe organs at risk, such as lung, heart, esophagus, kidney, bladder, and ileum, and located specific cell

Keywords： 2019-nCoV     ACE2     single-cell RNA-seq    

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Emerging Trends for Microbiome Analysis: From Single-Cell Functional Imaging to Microbiome Big Data

Jian Xu, Bo Ma, Xiaoquan Su, Shi Huang, Xin Xu, Xuedong Zhou, Wei Huang, Rob Knight

Engineering 2017, Volume 3, Issue 1,   Pages 66-70 doi: 10.1016/J.ENG.2017.01.020

Abstract:

Method development has always been and will continue to be a core driving force of microbiome science. In this perspective, we argue that in the next decade, method development in microbiome analysis will be driven by three key changes in both ways of thinking and technological platforms: ① a shift from dissecting microbiota structureby sequencing to tracking microbiota state, function, and intercellular interaction via imaging; ② a shift from interrogating a consortium or population of cells to probing individual cells; and ③ a shift from microbiome data analysis to microbiome data science. Some of the recent method-development efforts by Chinese microbiome scientists and their international collaborators that underlie these technological trends are highlighted here. It is our belief that the China Microbiome Initiative has the opportunity to deliver outstanding “Made-in-China” tools to the international research community, by building an ambitious, competitive, and collaborative program at the forefront of method development for microbiome science.

Keywords： Microbiome     Methoddevelopment     Single-cell analysis     Big data     China Microbiome Initiative    

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Transcriptomics and proteomics in stem cell research

Hai Wang,Qian Zhang,Xiangdong Fang

Frontiers of Medicine 2014, Volume 8, Issue 4,   Pages 433-444 doi: 10.1007/s11684-014-0336-0

Abstract: Multi-omics integrative analysis, such as transcriptomics combined with proteomics, is one of the mostpromising approaches to the systemic investigation of stem cell biology.examining published results using transcriptomic and proteomic characterization of the different stem cellachieved using a systemic methodology, and employing such method will strengthen the study on stem cell

Keywords： embryonic stem cells     transcriptomics     proteomics    

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Oocyte-associated transcription factors in reprogramming after somatic cell nuclear transfer: a review

Fengxia YIN,Hui LIU,Shorgan BOU,Guangpeng LI

Frontiers of Agricultural Science and Engineering 2014, Volume 1, Issue 2,   Pages 104-113 doi: 10.15302/J-FASE-2014003

Abstract: from its original cellular state to a totipotent state is essential for term development after somatic cellnuclear-associated factors contained within oocytes are critical for normal fertilization by sperm or for somatic cellWith deep analysis of transcriptomics in oocytes and early developmental stage embryos more maternal

Keywords： nuclear reprogramming     somatic cell     transcription factors     transcriptomics    

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Clinical characteristics and prognostic factors of patients with mature T-cell lymphoid malignancies:a single-institution study of 225 cases

Wen Xue,Yan Sheng,Xiangqin Weng,Yongmei Zhu,Yan Zhao,Pengpeng Xu,Xiaochun Fei,Xiaoyan Chen,Li Wang,Weili Zhao

Frontiers of Medicine 2015, Volume 9, Issue 4,   Pages 468-477 doi: 10.1007/s11684-015-0419-6

Abstract:

Mature T-cell lymphoid malignancies comprise a group of heterogeneous diseases that vary in clinicopathologicalBone marrow (BM) infiltration is more commonly present in mature T-cell lymphoid malignancies comparedwith their B-cell counterparts and hence important for differential diagnosis.lymphoid malignancies treated in a single institution.These included 29 cases of T-cell lymphoproliferative disorders (T-LPD, all with BM infiltration) and

Keywords： mature T-cell lymphoid malignancies     clonal T-cell population     bone marrow infiltration     prognostic factors    

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Identification of Monocytes Associated with Severe COVID-19 in the PBMCs of Severely Infected Patients Through Single-Cell Article

Yan Zhang, Shuting Wang, He Xia, Jing Guo, Kangxin He, Chenjie Huang, Rui Luo, Yanfei Chen, Kaijin Xu, Hainv Gao, Jifang Sheng, Lanjuan Li

Engineering 2022, Volume 17, Issue 10,   Pages 161-169 doi: 10.1016/j.eng.2021.05.009

Abstract: In this study, we performed single-cell transcriptomic sequencing of peripheral blood samples collected

Keywords： COVID-19     Severe infection     Critically ill     Monocytes     Fibrosis    

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intravenous busulfan conditioning with post-transplantation cyclophosphamide for allogeneic peripheral stem celltransplantation for adult patients with lymphoid malignancies: a prospective single-arm phase II study

Ling Wang, Lining Wang, Xing Fan, Wei Tang, Jiong Hu

Frontiers of Medicine 2021, Volume 15, Issue 1,   Pages 108-115 doi: 10.1007/s11684-019-0730-8

Abstract: immunosuppressive drugs has emerged as a promising strategy in the setting of allogeneic hematopoietic stem cellcyclosporine as graft-versus-host disease (GVHD) prophylaxis after myeloablative conditioning and T cell-repleteperipheral stem cell transplantation in lymphoid malignancies.This single-arm phase II clinical trial (NCT01435447) involving 31 adult patients was conducted from

Keywords： post-transplantation cyclophosphamide     allogeneic hematopoietic stem cell transplantation     lymphoid malignancies    

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Comparative transcriptomics revealed enhanced light responses, energy transport and storage in domestication

Zhiqiang XIA,Xin CHEN,Cheng LU,Meiling ZOU,Shujuan WANG,Yang ZHANG,Kun PAN,Xincheng ZHOU,Haiyan WANG,Wenquan WANG

Frontiers of Agricultural Science and Engineering 2016, Volume 3, Issue 4,   Pages 295-307 doi: 10.15302/J-FASE-2016126

Abstract: Cassava is a staple food, feed and bioenergy crop important to the world especially in the tropics. Domesticated cassava is characterized by powerful carbohydrate accumulation but its wild progenitor is not. Here, we investigated the transcriptional differences of eight cDNA libraries derived from developing leaf, stem and storage root of cassava cv. Arg7 and an ancestor line, W14, using next generation sequencing system. A total of 41302 assembled transcripts were obtained and from these, 25961 transcripts with FPKM≥3 in at least one library were named the expressed genes. A total of 2117, 1963 and 3584 transcripts were found to be differentially expressed in leaf, stem and storage root (150 d after planting), respectively, between Arg7 and W14 and ascribed to 103, 93 and 119 important pathways in leaf, stem and storage root, respectively. The highlight of this work is that the genes involved in light response, such as those for photosystem I (PSA) and photosystem II (PSB), other genes involved in light harvesting, and some of the genes in the Calvin cycle of carbon fixation were specially upregulated in leaf. Genes for transport and also for key rate-limiting enzymes (PFK, PGK and PK, GAPDH) coupling ATP consumption in glycolysis pathway were predominantly expressed in stem, and genes for sucrose degradation (INVs), amylose synthesis (GBSS) and hydrolysis (RCP1, AMYs), the three key steps of starch metabolism, and transport associated with energy translocation (ABC, AVPs and ATPase) and their upstream transcription factors had enhanced expression in storage root in domesticated cassava. Co-expression networks among the pathways in each organs revealed the relationship of the genes involved, and uncovered some of the important hub genes and transcription factors targeting genes for photosynthesis, transportation and starch biosynthesis.

Keywords： cassava     comparative transcriptomics     energy transport     photosynthesis     starch synthesis    

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Zinc Air Fuel Cell Power Station

Zhu Mei,Xu Xianzhi,Su Run

Strategic Study of CAE 2004, Volume 6, Issue 12,   Pages 62-64

Abstract: The zinc-air fuel cell power station technology is introduced in this paper.The detachable electrode technology is employed for manufacturing the largest single cell in the world

Keywords： fuel cell     zinc-air fuel cell     detachable electrode     single cell     separation circulation technology    

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Title Author Date Type Operation

Distinct immune escape and microenvironment between RG-like and pri-OPC-like glioma revealed by single-cell

Journal Article

PathogenTrack and Yeskit: tools for identifying intracellular pathogens from single-cell RNA-sequencing

Journal Article

Effects of vitrification and cryostorage duration on single-cell RNA-Seq profiling of vitrified-thawed

Ying Huo, Peng Yuan, Qingyuan Qin, Zhiqiang Yan, Liying Yan, Ping Liu, Rong Li, Jie Yan, Jie Qiao

Journal Article

A cytoprotective graphene oxide-polyelectrolytes nanoshell for single-cell encapsulation

Luanying He, Yulin Chang, Junhao Zhu, Ying Bi, Wenlin An, Yiyang Dong, Jia-Hui Liu, Shihui Wang

Journal Article

Information Science Should Take a Lead in Future Biomedical Research

Kenta Nakai

Journal Article

Distinct mononuclear diploid cardiac subpopulation with minimal cell–cell communications persists in

Journal Article

Single-cell RNA-seq data analysis on the receptor ACE2 expression reveals the potential risk of different

Xin Zou, Ke Chen, Jiawei Zou, Peiyi Han, Jie Hao, Zeguang Han

Journal Article

Emerging Trends for Microbiome Analysis: From Single-Cell Functional Imaging to Microbiome Big Data

Jian Xu, Bo Ma, Xiaoquan Su, Shi Huang, Xin Xu, Xuedong Zhou, Wei Huang, Rob Knight

Journal Article

Transcriptomics and proteomics in stem cell research

Hai Wang,Qian Zhang,Xiangdong Fang

Journal Article

Oocyte-associated transcription factors in reprogramming after somatic cell nuclear transfer: a review

Fengxia YIN,Hui LIU,Shorgan BOU,Guangpeng LI

Journal Article

Clinical characteristics and prognostic factors of patients with mature T-cell lymphoid malignancies:a single-institution study of 225 cases

Wen Xue,Yan Sheng,Xiangqin Weng,Yongmei Zhu,Yan Zhao,Pengpeng Xu,Xiaochun Fei,Xiaoyan Chen,Li Wang,Weili Zhao

Journal Article

Identification of Monocytes Associated with Severe COVID-19 in the PBMCs of Severely Infected Patients Through Single-Cell

Yan Zhang, Shuting Wang, He Xia, Jing Guo, Kangxin He, Chenjie Huang, Rui Luo, Yanfei Chen, Kaijin Xu, Hainv Gao, Jifang Sheng, Lanjuan Li

Journal Article

intravenous busulfan conditioning with post-transplantation cyclophosphamide for allogeneic peripheral stem celltransplantation for adult patients with lymphoid malignancies: a prospective single-arm phase II study

Ling Wang, Lining Wang, Xing Fan, Wei Tang, Jiong Hu

Journal Article

Comparative transcriptomics revealed enhanced light responses, energy transport and storage in domestication

Zhiqiang XIA,Xin CHEN,Cheng LU,Meiling ZOU,Shujuan WANG,Yang ZHANG,Kun PAN,Xincheng ZHOU,Haiyan WANG,Wenquan WANG

Journal Article

Zinc Air Fuel Cell Power Station

Zhu Mei,Xu Xianzhi,Su Run

Journal Article