Microfluidics Facilitates the Development of Single-Cell RNA Sequencing

Pan, Yating; Cao, Wenjian; Mu, Ying; Zhu, Qiangyuan

doi:10.3390/bios12070450

Cited by 13 publications

(9 citation statements)

References 105 publications

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“…Recently, microfluidics has played a significant role in advancing scRNA-seq by substantially reducing costs and significantly increasing the throughput of single-cell analysis 84 . Microfluidics is a technology that involves the manipulation and control of small volumes of fluids in microscale channels or chambers.…”

Section: Analytical Techniques Used To Characterize the Timementioning

confidence: 99%

“…Microfluidics is a technology that involves the manipulation and control of small volumes of fluids in microscale channels or chambers. Currently, droplet-based RNA-seq technologies, such as Drop-seq, inDrop, and the 10× Genomics Chromium system, as well as high-density microwell-based methods like Seq-well and Microwell-seq, have emerged as the predominant approaches for cell isolation 84 , 85 .…”

Section: Analytical Techniques Used To Characterize the Timementioning

confidence: 99%

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Advancements in technology for characterizing the tumor immune microenvironment

Yan,

Ju,

Huang

et al. 2024

Int. J. Biol. Sci.

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Immunotherapy plays a key role in cancer treatment, however, responses are limited to a small number of patients. The biological basis for the success of immunotherapy is the complex interaction between tumor cells and tumor immune microenvironment (TIME). Historically, research on tumor immune constitution was limited to the analysis of one or two markers, more novel technologies are needed to interpret the complex interactions between tumor cells and TIME. In recent years, major advances have already been made in depicting TIME at a considerably elevated degree of throughput, dimensionality and resolution, allowing dozens of markers to be labeled simultaneously, and analyzing the heterogeneity of tumour-immune infiltrates in detail at the single cell level, depicting the spatial landscape of the entire microenvironment, as well as applying artificial intelligence (AI) to interpret a large amount of complex data from TIME. In this review, we summarized emerging technologies that have made contributions to the field of TIME, and provided prospects for future research.

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Section: Analytical Techniques Used To Characterize the Timementioning

confidence: 99%

Section: Analytical Techniques Used To Characterize the Timementioning

confidence: 99%

Advancements in technology for characterizing the tumor immune microenvironment

Yan,

Ju,

Huang

et al. 2024

Int. J. Biol. Sci.

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“…scRNA-seq has led to new discoveries in well-studied animals, but it is particularly useful when studying non-model organisms where the wide diversity of cell types is unexplored (1) . At present, the highest-quality scRNA-seq methods require live cells, prepared in suspension after dissociation from tissues (2)(3)(4)(5) .…”

Section: Introductionmentioning

confidence: 99%

“…In droplet-based methods, the buffer in which cells are loaded must be compatible with the first step in scRNA-seq, a reverse transcription (RT) of mRNA to make complementary DNA (cDNA). This reaction is carried out using variants of the Moloney Murine Leukemia Virus (MMLV) reverse transcriptase, which is efficient at the osmolarity of vertebrate cells (approximately 300 mOsm/L) (4,5). Most marine organismsinvertebrates, protists, and some vertebrates -are osmoconformers, with an internal osmolarity close to that of sea water (approx.…”

Section: Introductionmentioning

confidence: 99%

A mannitol-based buffer improves single-cell RNA sequencing of high-salt marine cells

Scully

Klein

2023

Preprint

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Single-cell RNA sequencing (scRNA-seq) enables discovery of novel cell states by transcriptomic profiling with minimal prior knowledge, making it useful for studying non-model organisms. For most marine organisms, however, cells are viable at a higher salinity than is compatible with scRNA-seq, impacting data quality and cell representation. We show that a low-salinity phosphate buffer supplemented with D-mannitol (PBS-M) enables higher-quality scRNA-seq of blood cells from the tunicateCiona robusta. Using PBS-M reduces cell death and ambient mRNA, revealing cell states not otherwise detected. This simple protocol modification could enable or improve scRNA-seq for the majority of marine organisms.

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“…In the last few years, some trends in the area of spectrometry have emerged, including the use of nanoparticles, microfluidic platforms, specific biorecognition elements, and artificial intelligence [ 20 , 21 ]. Miniature devices related to spectroscopy microfluidic platforms in the field of biosensing have emerged in the last decade, and have been applied widely in biomedical devices [ 22 , 23 , 24 ]. Smartphones are ubiquitous, and user-friendly applications can be built for making point-of-care systems.…”

Section: Introductionmentioning

confidence: 99%

Recent Progress in Spectroscopic Methods for the Detection of Foodborne Pathogenic Bacteria

et al. 2022

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Detection of foodborne pathogens at an early stage is very important to control food quality and improve medical response. Rapid detection of foodborne pathogens with high sensitivity and specificity is becoming an urgent requirement in health safety, medical diagnostics, environmental safety, and controlling food quality. Despite the existing bacterial detection methods being reliable and widely used, these methods are time-consuming, expensive, and cumbersome. Therefore, researchers are trying to find new methods by integrating spectroscopy techniques with artificial intelligence and advanced materials. Within this progress report, advances in the detection of foodborne pathogens using spectroscopy techniques are discussed. This paper presents an overview of the progress and application of spectroscopy techniques for the detection of foodborne pathogens, particularly new trends in the past few years, including surface-enhanced Raman spectroscopy, surface plasmon resonance, fluorescence spectroscopy, multiangle laser light scattering, and imaging analysis. In addition, the applications of artificial intelligence, microfluidics, smartphone-based techniques, and advanced materials related to spectroscopy for the detection of bacterial pathogens are discussed. Finally, we conclude and discuss possible research prospects in aspects of spectroscopy techniques for the identification and classification of pathogens.

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Microfluidics Facilitates the Development of Single-Cell RNA Sequencing

Cited by 13 publications

References 105 publications

Advancements in technology for characterizing the tumor immune microenvironment

Advancements in technology for characterizing the tumor immune microenvironment

A mannitol-based buffer improves single-cell RNA sequencing of high-salt marine cells

Recent Progress in Spectroscopic Methods for the Detection of Foodborne Pathogenic Bacteria

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