An enhanced isothermal amplification assay for viral detection

AbstractRapid, inexpensive, robust diagnostics are essential to control the spread of infectious diseases. Current state of the art diagnostics are highly sensitive and specific, but slow, and require expensive equipment. Here we report the development of a molecular diagnostic test for SARS-CoV-2 based on an enhanced recombinase polymerase amplification (eRPA) reaction. eRPA has a detection limit on patient samples down to 5 viral copies, requires minimal instrumentation, and is highly scalable and inexpensive. eRPA does not cross-react with other common coronaviruses, does not require RNA purification, and takes ~45 min from sample collection to results. eRPA represents a first step toward at-home SARS-CoV-2 detection and can be adapted to future viruses within days of genomic sequence availability.

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An enhanced isothermal amplification assay for viral detection

10.1101/2020.05.28.118059 ◽

2020 ◽

Cited By ~ 2

Author(s):

Jason Qian ◽

Sarah A. Boswell ◽

Christopher Chidley ◽

Zhi-xiang Lu ◽

Mary E. Pettit ◽

...

Keyword(s):

Rna Isolation ◽

Isothermal Amplification ◽

Molecular Diagnostic ◽

Nucleic Acid Detection ◽

Sample Collection ◽

Amplification Method ◽

Current State ◽

Highly Sensitive ◽

Amplification Assay ◽

Molecular Diagnostic Test

AbstractRapid, inexpensive, robust diagnostics are essential to control the spread of infectious diseases. Current state of the art diagnostics are highly sensitive and specific, but slow, and require expensive equipment. We developed a molecular diagnostic test for SARS-CoV-2, FIND (Fast Isothermal Nucleic acid Detection), based on an enhanced isothermal recombinase polymerase amplification reaction. FIND has a detection limit on patient samples close to that of RT-qPCR, requires minimal instrumentation, and is highly scalable and cheap. It can be performed in high throughput, does not cross-react with other common coronaviruses, avoids bottlenecks caused by the current worldwide shortage of RNA isolation kits, and takes ~45 minutes from sample collection to results. FIND can be adapted to future novel viruses in days once sequence is available.One sentence summarySensitive, specific, rapid, scalable, enhanced isothermal amplification method for detecting SARS-CoV-2 from patient samples.

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Development of a pan-rickettsial molecular diagnostic test based on recombinase polymerase amplification assay

Analytical Biochemistry ◽

10.1016/j.ab.2017.12.018 ◽

2018 ◽

Vol 544 ◽

pp. 29-33 ◽

Cited By ~ 9

Author(s):

Jonas Kissenkötter ◽

Sören Hansen ◽

Susanne Böhlken-Fascher ◽

Olusegun George Ademowo ◽

Oladapo Elijah Oyinloye ◽

...

Keyword(s):

Diagnostic Test ◽

Recombinase Polymerase Amplification ◽

Molecular Diagnostic ◽

Amplification Assay ◽

Molecular Diagnostic Test ◽

Recombinase Polymerase Amplification Assay

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ALeS: Adaptive-length spaced-seed design

Bioinformatics ◽

10.1093/bioinformatics/btaa945 ◽

2020 ◽

Author(s):

Arnab Mallik ◽

Lucian Ilie

Keyword(s):

Heuristic Algorithms ◽

State Of The Art ◽

Sequence Similarity ◽

Supplementary Information ◽

Biological Research ◽

Art Programs ◽

Current State ◽

Spaced Seeds ◽

Highly Sensitive ◽

Blast Program

Abstract Motivation Sequence similarity is the most frequently used procedure in biological research, as proved by the widely used BLAST program. The consecutive seed used by BLAST can be dramatically improved by considering multiple spaced seeds. Finding the best seeds is a hard problem and much effort went into developing heuristic algorithms and software for designing highly sensitive spaced seeds. Results We introduce a new algorithm and software, ALeS, that produces more sensitive seeds than the current state-of-the-art programs, as shown by extensive testing. We also accurately estimate the sensitivity of a seed, enabling its computation for arbitrary seeds. Availability The source code is freely available at github.com/lucian-ilie/ALeS. Supplementary information Supplementary data are available at Bioinformatics online.

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Behavioral Genetics: Concepts for Research and Practice in Language Development and Disorders

Journal of Speech Language and Hearing Research ◽

10.1044/jshr.3805.1126 ◽

1995 ◽

Vol 38 (5) ◽

pp. 1126-1142 ◽

Cited By ~ 14

Author(s):

Jeffrey W. Gilger

Keyword(s):

Language Development ◽

Behavioral Genetics ◽

State Of The Art ◽

Genetic Research ◽

Great Promise ◽

Behavioral Genetic ◽

Fine Grained ◽

Future Goals ◽

Current State ◽

Research Designs

This paper is an introduction to behavioral genetics for researchers and practioners in language development and disorders. The specific aims are to illustrate some essential concepts and to show how behavioral genetic research can be applied to the language sciences. Past genetic research on language-related traits has tended to focus on simple etiology (i.e., the heritability or familiality of language skills). The current state of the art, however, suggests that great promise lies in addressing more complex questions through behavioral genetic paradigms. In terms of future goals it is suggested that: (a) more behavioral genetic work of all types should be done—including replications and expansions of preliminary studies already in print; (b) work should focus on fine-grained, theory-based phenotypes with research designs that can address complex questions in language development; and (c) work in this area should utilize a variety of samples and methods (e.g., twin and family samples, heritability and segregation analyses, linkage and association tests, etc.).

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Abstract #862529: Development and Validation of a Molecular Diagnostic Test for Medullary Thyroid Carcinoma Using NGS Mutation Detection and Microrna Expression Profiling

Endocrine Practice ◽

10.1016/s1530-891x(20)39869-4 ◽

2020 ◽

Vol 26 ◽

pp. 310-311

Author(s):

Gyanendra Kumar

Keyword(s):

Thyroid Carcinoma ◽

Medullary Thyroid Carcinoma ◽

Diagnostic Test ◽

Expression Profiling ◽

Mutation Detection ◽

Microrna Expression ◽

Molecular Diagnostic ◽

Medullary Thyroid ◽

Development And Validation ◽

Molecular Diagnostic Test

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Schizophrenia Research: Current State of the Art

Contemporary Psychology ◽

10.1037/015267 ◽

1976 ◽

Vol 21 (7) ◽

pp. 497-498

Author(s):

STANLEY GRAND

Keyword(s):

State Of The Art ◽

Current State

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Umbral Calculus

The Electronic Journal of Combinatorics ◽

10.37236/24 ◽

2002 ◽

Vol 1000 ◽

Author(s):

A. Di Bucchianico ◽

D. Loeb

Keyword(s):

19Th Century ◽

Finite Differences ◽

State Of The Art ◽

Umbral Calculus ◽

Current State ◽

Logical Foundation ◽

Complete Bibliography ◽

The 19Th Century ◽

Mathematical Literature

We survey the mathematical literature on umbral calculus (otherwise known as the calculus of finite differences) from its roots in the 19th century (and earlier) as a set of “magic rules” for lowering and raising indices, through its rebirth in the 1970’s as Rota’s school set it on a firm logical foundation using operator methods, to the current state of the art with numerous generalizations and applications. The survey itself is complemented by a fairly complete bibliography (over 500 references) which we expect to update regularly.

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