A modified exponential amplification reaction (EXPAR) with an improved signal-to-noise ratio for ultrasensitive detection of polynucleotide kinase

We reported a modified exponential amplification reaction strategy and applied it to design an ultrasensitive biosensor for the detection of endogenous polynucleotide kinase activity at single-cell level.

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Label-free and ultrasensitive detection of polynucleotide kinase activity at the single-cell level

Chemical Communications ◽

10.1039/c7cc09573b ◽

2018 ◽

Vol 54 (13) ◽

pp. 1583-1586 ◽

Cited By ~ 12

Author(s):

Meng Liu ◽

Fei Ma ◽

Qianyi Zhang ◽

Chun-yang Zhang

Keyword(s):

Single Cell ◽

Kinase Activity ◽

Fluorescence Method ◽

Kinase Assay ◽

Ultrasensitive Detection ◽

Single Cell Level ◽

Label Free ◽

Cell Level ◽

Polynucleotide Kinase

We develop a label-free fluorescence method for the polynucleotide kinase assay at the single-cell level based on phosphorylation-triggered isothermal exponential amplification.

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Systematic evaluation of signal-to-noise ratio in variant detection from single cell genome multiple displacement amplification and exome sequencing

BMC Genomics ◽

10.1186/s12864-018-5063-5 ◽

2018 ◽

Vol 19 (1) ◽

Cited By ~ 3

Author(s):

Anita T. Simonsen ◽

Marcus C. Hansen ◽

Eigil Kjeldsen ◽

Peter L. Møller ◽

Johnny J. Hindkjær ◽

...

Keyword(s):

Single Cell ◽

Exome Sequencing ◽

Signal To Noise Ratio ◽

Multiple Displacement Amplification ◽

Systematic Evaluation ◽

Signal To Noise ◽

Variant Detection ◽

Noise Ratio ◽

Cell Genome ◽

Single Cell Genome

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DNA-fueled molecular machine for label-free and non-enzymatic ultrasensitive detection of telomerase activity

The Analyst ◽

10.1039/c6an00997b ◽

2016 ◽

Vol 141 (16) ◽

pp. 4855-4858 ◽

Cited By ~ 3

Author(s):

Panpan Sun ◽

Xiang Ran ◽

Chaoqun Liu ◽

Chaoying Liu ◽

Fang Pu ◽

...

Keyword(s):

Single Cell ◽

Cancer Cell ◽

Telomerase Activity ◽

Molecular Machine ◽

Ultrasensitive Detection ◽

Single Cell Level ◽

Label Free ◽

Enzymatic Method ◽

Cell Level ◽

Cell Extracts

A label-free and non-enzymatic method based on DNA-fueled molecular machine has been introduced for ultrasensitive detection of telomerase activity in cancer cell extracts even at the single-cell level.

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Ultrasensitive Detection of Telomerase Activity at the Single-Cell Level

Analytical Chemistry ◽

10.1021/ac402747r ◽

2013 ◽

Vol 85 (23) ◽

pp. 11509-11517 ◽

Cited By ~ 81

Author(s):

Li-juan Wang ◽

Yan Zhang ◽

Chun-yang Zhang

Keyword(s):

Single Cell ◽

Telomerase Activity ◽

Ultrasensitive Detection ◽

Single Cell Level ◽

Cell Level

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Lab in a Tube: Ultrasensitive Detection of MicroRNAs at the Single-Cell Level and in Breast Cancer Patients Using Quadratic Isothermal Amplification

Journal of the American Chemical Society ◽

10.1021/ja311313b ◽

2013 ◽

Vol 135 (12) ◽

pp. 4604-4607 ◽

Cited By ~ 254

Author(s):

Ruixue Duan ◽

Xiaolei Zuo ◽

Shutao Wang ◽

Xiyun Quan ◽

Dongliang Chen ◽

...

Keyword(s):

Breast Cancer ◽

Single Cell ◽

Cancer Patients ◽

Isothermal Amplification ◽

Ultrasensitive Detection ◽

Single Cell Level ◽

Breast Cancer Patients ◽

Cell Level

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Fluorescence nucleobase analogue-based strategy with high signal-to-noise ratio for ultrasensitive detection of food poisoning bacteria

The Analyst ◽

10.1039/d0an01026j ◽

2020 ◽

Vol 145 (19) ◽

pp. 6307-6312 ◽

Cited By ~ 1

Author(s):

Sung Hyun Hwang ◽

Jung Ho Kim ◽

Junghun Park ◽

Ki Soo Park

Keyword(s):

High Selectivity ◽

Signal To Noise Ratio ◽

Food Poisoning ◽

High Signal ◽

Ultrasensitive Detection ◽

Signal To Noise ◽

Target Dna ◽

G Quadruplex ◽

Noise Ratio

We developed a simple and ultrasensitive strategy for the identification of pathogens utilizing a fluorescent nucleobase analogue (2-aminopurine)-containing split G-quadruplex that binds blocker DNA, which shows the high selectivity for target DNA.

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Rare Earth Ion Mediated Fluorescence Accumulation on a Single Microbead: An Ultrasensitive Strategy for the Detection of Protein Kinase Activity at the Single-Cell Level

Angewandte Chemie ◽

10.1002/ange.201507580 ◽

2015 ◽

Vol 127 (50) ◽

pp. 15401-15405 ◽

Cited By ~ 2

Author(s):

Xiaobo Zhang ◽

Chenghui Liu ◽

Honghong Wang ◽

Hui Wang ◽

Zhengping Li

Keyword(s):

Rare Earth ◽

Protein Kinase ◽

Single Cell ◽

Kinase Activity ◽

Protein Kinase Activity ◽

Single Cell Level ◽

Cell Level ◽

Rare Earth Ion

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MLG: Multilayer graph clustering for multi-condition scRNA-seq data

10.1101/2021.03.26.437231 ◽

2021 ◽

Author(s):

Shan Lu ◽

Daniel J. Conn ◽

Shuyang Chen ◽

Kirby D Johnson ◽

Emery H. Bresnick ◽

...

Keyword(s):

Data Integration ◽

Dimensionality Reduction ◽

Single Cell ◽

Large Scale ◽

Signal To Noise Ratio ◽

Graph Clustering ◽

Cellular Heterogeneity ◽

Integrative Approach ◽

Signal To Noise ◽

Noise Ratio

Single-cell transcriptome sequencing (scRNA-seq) enabled investigations of cellular heterogeneity at exceedingly higher resolutions. Identification of novel cell types or transient developmental stages across multiple experimental conditions is one of its key applications. Linear and non-linear dimensionality reduction for data integration became a foundational tool in inference from scRNA-seq data. We present Multi Layer Graph Clustering (MLG) as an integrative approach for combining multiple dimensionality reduction of multi-condition scRNA-seq data. MLG generates a multilayer shared nearest neighbor cell graph with higher signal-to-noise ratio and outperforms current best practices in terms of clustering accuracy across large-scale benchmarking experiments. Application of MLG to a wide variety of datasets from multiple conditions highlights how MLG boosts signal-to-noise ratio for fine-grained sub-population identification. MLG is widely applicable to settings with single cell data integration via dimension reduction.

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