suPAR在原发性局灶节段性肾小球硬化足细胞损伤的作用 by 胡浩强, 李梦圆, 杨念生, 郭朝欢

“…方法①收集原发性FSGS患者（17 例）血清，以健康志愿者（10 例）及其他类型原发性肾病综合征患者（10 例）作为正常及疾病对照，采用ELISA检测suPAR水平；②采用suPAR体外刺激足细胞，收集细胞行流式细胞术分析细胞凋亡情况；收集细胞，提取RNA，行RNAseq；③足细胞RNAseq数据差异基因筛选，上下调基因行KEGG及GO通路富集分析，热图展示足细胞局部黏附、滤过膜、细胞骨架及内吞相关基因变化情况，并行qPCR验证。…”
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Unraveling the Heterogeneity of Tumor Immune Microenvironment in Hepatocellular Carcinoma by SingleCell RNA Sequencing and its Implications for Prognosis and Therapeutic Response by Ying Han, Lele Song, Lingna Lv, Chunlei Fan, Huiguo Ding

“…The recently emerged single-cell RNA sequencing (scRNAseq) technique provides a new tool for TIME study, and current studies have made great advances in defining the roles of TIME in HCC pathogenesis and therapy. …”
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Graph Based Feature Selection for Reduction of Dimensionality in Next-Generation RNA Sequencing Datasets by Consolata Gakii, Paul O. Mireji, Richard Rimiru

“…Therefore, the graph-based feature-selection approach combined with rule mining is a suitable way of selecting and finding associations between features in high-dimensional RNAseq data.…”
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Determinants of genetic diversity in Neotropical salamanders (Plethodontidae: Bolitoglossini) by María Guadalupe Segovia‐Ramírez, Obed Ramírez‐Sánchez, Louis Paul Decena Segarra, Hairo Rios‐Carlos, Sean M. Rovito

“…We estimated genetic diversity of noncoding loci using ddRADseq and coding loci using RNAseq for an assemblage of Neotropical salamanders distributed from northern Mexico to Costa Rica. …”
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A Linkage-Based Genome Assembly for the Mosquito <i>Aedes albopictus</i> and Identification of Chromosomal Regions Affecting Diapause by John H. Boyle, Pasi M. A. Rastas, Xin Huang, Austin G. Garner, Indra Vythilingam, Peter A. Armbruster

“…We constructed a high-density linkage map for <i>Ae. albopictus</i> based on 111,328 informative SNPs obtained by RNAseq. We then performed a linkage-map anchored reassembly of AalbF2, the genome assembly produced by Palatini et al. (2020). …”
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Genome-wide characterization and expression analysis of the CINNAMYL ALCOHOL DEHYDROGENASE gene family in Triticum aestivum by Luigi M. Peracchi, Rhoda A.T. Brew-Appiah, Kimberly Garland-Campbell, Eric H. Roalson, Karen A. Sanguinet

“…Class I CADs were expressed throughout development both in RNAseq data sets as well as via qRT-PCR analysis. …”
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Identification of integrated proteomics and transcriptomics signature of alcohol-associated liver disease using machine learning. by Stanislav Listopad, Christophe Magnan, Le Z Day, Aliya Asghar, Andrew Stolz, John A Tayek, Zhang-Xu Liu, Jon M Jacobs, Timothy R Morgan, Trina M Norden-Krichmar

“…We processed 98 PBMC RNAseq samples, 55 PBMC proteomic samples, 48 liver RNAseq samples, and 53 liver proteomic samples. …”
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Transcription factor KLF2 is associated with the dysfunctional status of NK cells and the prognosis of pediatric B-ALL patients by Fang Wu, Huimin Xu, Benshan Zhang

“…We also analyzed published single-cell RNA sequencing (scRNAseq) data from B-ALL and normal bone marrow samples using unsupervised clustering. …”
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Identification of hub genes in placental dysfunction and recurrent pregnancy loss through transcriptome data mining: A meta-analysis by Chitra Bhardwaj, Priyanka Srivastava

“…This transcriptome data mining study was done to explore the differentially expressed genes (DEGs) and related pathways responsible for pathogenesis of RPL using an Insilco approach. RNAseq datasets from the Gene Expression Omnibus (GEO) database was used to extract RNAseq datasets of RPL. …”
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Nasal mucosal fibroblasts produce IL-4 to induce Th2 response by Xianhai Zeng, Juanjuan Li, Jiangqi Liu, Lihua Mo, Yu Liu, Aizhi Zhang, Pingchang Yang, Hui Kong

“…Fibroblasts were isolated from the tissues by flow cytometry cell sorting, and analyzed by RNA sequencing (RNAseq). The data from RNAseq showed that nasal fibroblasts expressed genes of GATA3, CD80, CD83, CD86, STAT6, IL2, IL4, IL5, IL6, IL13 and costimulatory factor. …”
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Association of pyroptosis and severeness of COVID-19 as revealed by integrated single-cell transcriptome data analysis by Qian Xu, Yongjian Yang, Xiuren Zhang, James J. Cai

“…Here, we integratively analyzed scRNAseq data of 37,607 immune cells of eight different cell types from four studies involving COVID-19 patients in either moderate or severe conditions. …”
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Influence of African Swine Fever Virus on Host Gene Transcription within Peripheral Blood Mononuclear Cells from Infected Pigs by Ann Sofie Olesen, Miyako Kodama, Kerstin Skovgaard, Ask Møbjerg, Louise Lohse, Morten T. Limborg, Anette Bøtner, Graham J. Belsham

“…The patterns of changes in gene expression within the PBMCs detected by RNAseq were similar in each of the four infected pigs. …”
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mRNA markers for survival prediction in glioblastoma multiforme patients: a systematic review with bioinformatic analyses by Parisa Azimi, Taravat Yazdanian, Abolhassan Ahmadiani

“…For final validation, GEPIA and CGGA (mRNAseq_325 and mRNAseq_693) databases were used to conduct OS analyses. …”
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Partial label learning for automated classification of single-cell transcriptomic profiles. by Malek Senoussi, Thierry Artieres, Paul Villoutreix

“…Single-cell RNA sequencing (scRNASeq) data plays a major role in advancing our understanding of developmental biology. …”
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Single nuclear RNA sequencing of terminal ileum in patients with cirrhosis demonstrates multi-faceted alterations in the intestinal barrier by Xixian Jiang, Ying Xu, Andrew Fagan, Bhaumik Patel, Huiping Zhou, Jasmohan S. Bajaj

“…We performed single-nuclear RNA sequencing (snRNAseq) in the pinch biopsies of terminal ileum of four age-matched men [56 years, healthy control, compensated, early (ascites and lactulose use) and advanced decompensated cirrhosis (ascites and rifaximin use)]. …”
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Enhancing Lung Cancer Classification and Prediction With Deep Learning and Multi-Omics Data by Tehnan I. A. Mohamed, Absalom El-Shamir Ezugwu

“…Recent large-scale analyses have probed into RNASeq, miRNA, and DNA methylation alterations in LUAD. …”
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Network analyses of brain tumor multiomic data reveal pharmacological opportunities to alter cell state transitions by Brandon Bumbaca, Jonah R. Huggins, Marc R. Birtwistle, James M. Gallo

“…To study these phenomenon, publicly available snRNAseq and bulk RNAseq data from patient samples were used to categorize cells from patients into four cell states (i.e., phenotypes), namely: (i) neural progenitor-like (NPC-like), (ii) oligodendrocyte progenitor-like (OPC-like), (iii) astrocyte-like (AC-like), and (iv) mesenchymal-like (MES-like). …”
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Understanding and exploiting naïve human pluripotency by Dodsworth, B

“…I have established the naïve to primed differentiation and identified the miRNAome of naïve, differentiating and primed human pluripotent stem cells by miRNAseq. This novel dataset has revealed that the largest difference in the miRNAome between mouse and the human is due to cell state rather than species. …”

Characterising CD8+ T cell transcriptomic and clonal consequences of immune checkpoint blockade for the treatment of cancer by Watson, RA

“…</p> <p><b>Methods:</b> Single-cell RNA sequencing and T cell receptor (TCR) sequencing was performed on peripheral CD8+ T cells taken at multiple time points before, during and after treatment with ICB from patients with metastatic melanoma and renal cell carcinoma (n=30 scRNAseq, n=139 TCRseq), coupled with bulk RNAseq, genotyping and clinical follow-up data across a larger cohort (n=214 patients). …”

Analysis of the progeny of sibling matings reveals regulatory variation impacting the transcriptome of immune cells in commercial chickens by Freem, L, Summers, KM, Gheyas, AA, Psifidi, A, Boulton, K, MacCallum, A, Harne, R, O'Dell, J, Bush, SJ, Hume, DA

“…In selected F2 sibships we performed RNAseq analysis of the spleen and isolated bone marrow-derived macrophages (with and without lipopolysaccharide stimulation). …”