The protein expression profile of ACE2 in human tissues

Molecular Systems Biology, Год журнала: 2020, Номер 16(7)

Опубликована: Июль 1, 2020

Язык: Английский

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Deciphering miRNAs’ Action through miRNA Editing

International Journal of Molecular Sciences, Год журнала: 2019, Номер 20(24), С. 6249 - 6249

Опубликована: Дек. 11, 2019

MicroRNAs (miRNAs) are small non-coding RNAs with the capability of modulating gene expression at post-transcriptional level either by inhibiting messenger RNA (mRNA) translation or promoting mRNA degradation. The outcome a myriad physiological processes and pathologies, including cancer, cardiovascular metabolic diseases, relies highly on miRNAs. However, deciphering precise roles specific miRNAs in these pathophysiological contexts is challenging due to high levels complexity their actions. Indeed, regulation frequently cell/organ specific; dependent stress status organism; often poorly correlated miRNA levels. Such biological features suggest that various regulatory mechanisms control not only expression, but also activity and/or bioavailability. Several have been described modulate action, genetic polymorphisms, methylation promoters, asymmetric strand selection, interactions RNA-binding proteins (RBPs) other coding/non-coding RNAs. Moreover, nucleotide modifications (A-to-I C-to-U) within sequences different stages maturation critical for functionality. This mechanism called "RNA editing" involves enzymes adenosine/cytidine deaminase family, which trigger single changes primary These greatly influence miRNA's stability, changing its specificity towards target mRNAs. Understanding how editing events impact ability regulate responses cells organs, development e.g., diseases should deepen our knowledge molecular underlying complex can facilitate design new therapeutic approaches based targeting. Herein, we will discuss current this regulates biogenesis activity.

Язык: Английский

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Integrating single-cell and spatial transcriptomics to elucidate intercellular tissue dynamics

Nature Reviews Genetics, Год журнала: 2021, Номер 22(10), С. 627 - 644

Опубликована: Июнь 18, 2021

Язык: Английский

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Redefining Tumor-Associated Macrophage Subpopulations and Functions in the Tumor Microenvironment

Frontiers in Immunology, Год журнала: 2020, Номер 11

Опубликована: Авг. 4, 2020

The immunosuppressive status of the tumour microenvironment (TME) remains poorly defined due to a lack understanding regarding function tumour-associated macrophages (TAMs), which are abundant in TME. TAMs crucial drivers progression, metastasis and resistance therapy. Intra- inter-tumoural spatial heterogeneities potential keys relationships between subpopulations their functions. Antitumour M1-like pro-tumour M2-like coexist within tumours, opposing effects these M1/M2 on tumours directly impact current strategies improve antitumour immune responses. Recent studies have found significant differences among monocytes or from distinct other investigations explored existence diverse TAM subsets at molecular level. In this review, we discuss emerging evidence highlighting redefinition functions TME possibility separating macrophage with into during development tumours. Such may relate differential cellular origin monocyte plasticity heterogeneity TAMs, all potentially biomarkers our how phenotypes dictated by ontogeny, activation localization. Therefore, detailed landscape must be deciphered integration new technologies, such as multiplexed immunohistochemistry (mIHC), mass cytometry time-of-flight (CyTOF), single-cell RNA-seq (scRNA-seq), transcriptomics systems biology approaches, for analyses

Язык: Английский

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Next-Generation Sequencing Technology: Current Trends and Advancements

Biology, Год журнала: 2023, Номер 12(7), С. 997 - 997

Опубликована: Июль 13, 2023

The advent of next-generation sequencing (NGS) has brought about a paradigm shift in genomics research, offering unparalleled capabilities for analyzing DNA and RNA molecules high-throughput cost-effective manner. This transformative technology swiftly propelled advancements across diverse domains. NGS allows the rapid millions fragments simultaneously, providing comprehensive insights into genome structure, genetic variations, gene expression profiles, epigenetic modifications. versatility platforms expanded scope facilitating studies on rare diseases, cancer genomics, microbiome analysis, infectious population genetics. Moreover, enabled development targeted therapies, precision medicine approaches, improved diagnostic methods. review provides an insightful overview current trends recent technology, highlighting its potential impact areas genomic research. delves challenges encountered future directions including endeavors to enhance accuracy sensitivity data, novel algorithms data pursuit more efficient, scalable, solutions that lie ahead.

Язык: Английский

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scRepertoire: An R-based toolkit for single-cell immune receptor analysis

F1000Research, Год журнала: 2020, Номер 9, С. 47 - 47

Опубликована: Янв. 27, 2020

Single-cell sequencing is an emerging technology in the field of immunology and oncology that allows researchers to couple RNA quantification other modalities, like immune cell receptor profiling at level individual cell. A number workflows software packages have been created process analyze single-cell transcriptomic data. These allow users take vast dimensionality data generated single-cell-based experiments distill into novel insights. Unlike field, there a lack options for profiling. Enabling easily combine mRNA profiling, scRepertoire was built derived from 10x Genomics Chromium Immune Profiling both T-cell (TCR) immunoglobulin (Ig) enrichment subsequently interacts with popular Seurat R package. The package processed are open source available on GitHub provides in-depth tutorials capability

Язык: Английский

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scRepertoire: An R-based toolkit for single-cell immune receptor analysis

F1000Research, Год журнала: 2020, Номер 9, С. 47 - 47

Опубликована: Июнь 15, 2020

Single-cell sequencing is an emerging technology in the field of immunology and oncology that allows researchers to couple RNA quantification other modalities, like immune cell receptor profiling at level individual cell. A number workflows software packages have been created process analyze single-cell transcriptomic data. These allow users take vast dimensionality data generated single-cell-based experiments distill into novel insights. Unlike field, there a lack options for profiling. Enabling easily combine mRNA profiling, scRepertoire was built derived from 10x Genomics Chromium Immune Profiling both T-cell (TCR) immunoglobulin (Ig) enrichment subsequently interacts with popular R expression, such as Seurat. The package processed are open source available on GitHub provides in-depth tutorials capability package.

Язык: Английский

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Single-Cell Transcriptome Analysis Reveals Dynamic Cell Populations and Differential Gene Expression Patterns in Control and Aneurysmal Human Aortic Tissue

Circulation, Год журнала: 2020, Номер 142(14), С. 1374 - 1388

Опубликована: Окт. 5, 2020

Background: Ascending thoracic aortic aneurysm (ATAA) is caused by the progressive weakening and dilatation of wall can lead to dissection, rupture, other life-threatening complications. To improve our understanding ATAA pathogenesis, we aimed comprehensively characterize cellular composition ascending identify molecular alterations in each cell population human tissues. Methods: We performed single-cell RNA sequencing analysis tissues from 11 study participants, including 8 patients with (4 women 4 men) 3 control subjects (2 1 man). Cells extracted tissue were analyzed categorized data perform cluster identification. ATAA-related changes then examined comparing proportions type gene expression profiles between also which genes may be critical for performing integrative publicly available genome-wide association studies. Results: identified major types tissue; high-resolution reclustering these cells further divided them into 40 subtypes. Multiple subtypes observed smooth muscle cells, macrophages, T lymphocytes, suggesting that have multiple functional populations wall. In general, had fewer nonimmune more immune especially than did. Differential suggested presence extensive mitochondrial dysfunction addition, public promoter capture Hi-C erythroblast transformation-specific related gene( ERG ) exerts an important role maintaining normal function. Conclusions: Our provides a comprehensive evaluation reveals how landscape altered tissue. The information this makes contributions formation progression.

Язык: Английский

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A guide for the diagnosis of rare and undiagnosed disease: beyond the exome

Genome Medicine, Год журнала: 2022, Номер 14(1)

Опубликована: Фев. 28, 2022

Abstract Rare diseases affect 30 million people in the USA and more than 300–400 worldwide, often causing chronic illness, disability, premature death. Traditional diagnostic techniques rely heavily on heuristic approaches, coupling clinical experience from prior rare disease presentations with medical literature. A large number of patients remain undiagnosed for years many even die without an accurate diagnosis. In recent years, gene panels, microarrays, exome sequencing have helped to identify molecular cause such diseases. These technologies allowed diagnoses a sizable proportion (25–35%) patients, actionable findings. However, these undiagnosed. this review, we focus that can be adopted if is unrevealing. We discuss benefits whole genome additional benefit may offered by long-read technology, pan-genome reference, transcriptomics, metabolomics, proteomics, methyl profiling. highlight computational methods help regionally distant similar phenotypes or genetic mutations. Finally, describe approaches automate accelerate genomic analysis. The strategies discussed here are intended serve as guide clinicians researchers next steps when encountering non-diagnostic exomes.

Язык: Английский

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Applying high-dimensional single-cell technologies to the analysis of cancer immunotherapy

Nature Reviews Clinical Oncology, Год журнала: 2020, Номер 18(4), С. 244 - 256

Опубликована: Дек. 4, 2020

Язык: Английский

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