PCR amplification Articles
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Occurrence and antibiotic resistance of escherichia coli O157:H7 in a watershed in north-central Indiana
Received for publication February 11, 2008. The Wildcat Creek in north-central Indiana is an impaired stream with historically high fecal coliform counts. This study evaluated the presence of both fecal coliforms and Escherichia coli O157:H7 at five sites in rural and urban areas in the eastern part of the Wildcat Creek watershed. Escherichia coli O157:H7 was isolated by immunomagnetic ...
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How to Achieve Protein Sequencing?
Protein sequencing mainly refers to the determination of the primary structure of proteins. The primary structure of a protein is the sequence of amino acids that make up the protein. Protein amino acid sequence analysis is the process of determining the full amino acid sequence of a protein. The determination of protein amino acid sequence is the basis of protein chemistry research. Since the ...
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Long Read Sequencing Helps HLA Typing
HLA, human leukocyte surface antigen, a series of tightly interlocking motifs on the short arm of human chromosome 6, is the central basis for the immune system to recognize and differentiate between allogeneic substances. It is highly polymorphic and corresponds to a complex acquired immune system. It is importantly associated with a variety of autoimmune diseases, tumors, and infectious ...
By CD Genomics
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Bioinformatics Analysis of 16S rRNA Amplicon Sequencing
This article provides a brief introduction to good practices for the bioinformatics analysis of 16S rRNA sequencing by NGS (next-generation sequencing). The bioinformatics pipeline involves two main stages: the preprocessing of data (quality control) and quantification (including taxonomic profiling and predictive metagenomics profiling). Preprocessing to eliminate uninformative data Removal of ...
By CD Genomics
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Harnessing the Power of LAM PCR Service: A Near-Full Spectrum Genetic Analysis
As the life sciences explode with advancements in technology, clinicians and researchers require robust techniques with high throughput and precision to navigate the complexity of the genetic landscape. One such emerging technology, linear amplification-mediated polymerase chain reaction (LAM-PCR), is gaining significant attention for its proficiency in performing near-full spectrum genetic ...
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Advances in Targeted Region Enrichment Technologies
What is targeted region sequencing? Whole genome sequencing looks at the whole genome of an organism, while targeted region sequencing looks at only the parts that are of interest. Targeted genome sequencing is a very sensitive and specific way to find SNPs, indels, CNVs, and large SVs. Compared to whole genome sequencing, targeted genome sequencing is more focused, economical, and effective. ...
By CD Genomics
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SNP Array, A Powerful Tool for Diagnosis and Agrigenomics Research
Single-nucleotide polymorphisms (SNPs) are a kind of DNA polymorphisms caused by single-nucleotide variants in both coding and non-coding regions, which are the most common and smallest variants. There are more than 3 million SNPs in the human genome with an average of 1 in 500-1000 base pairs. SNP microarrays are capable of detecting a large number of subtle DNA alterations and/or abnormal ...
By CD Genomics
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CD Genomics Perspective: Practicing Genetic Marker Identification by Bulk Segregant Analysis
Introduction to Bulked Segregant Analysis BSA (bulked segregant analysis) is a method for identifying genetic markers linked to a mutant phenotype. Geneticists can use this information to find genes that confer disease resistance or susceptibility. Forming two groups with opposing phenotypes for a trait of interest is the goal of this technique. Individuals in one group, for example, are disease ...
By CD Genomics
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Spanish Cancer Company Universal Dx to Commercialize Methylation Method for Lung Cancer Detection
NEW YORK - Spanish cancer research firm Universal Diagnostics is gearing up to commercialize a liquid biopsy test that applies methylation biomarkers to detect lung cancer, based on data presented at the International Association for the Study of Lung Cancer 2020 World Conference for Lung Cancer (WCLC) last month. The Seville-based firm also expects to release clinical data on its next ...
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CRISPR Screening Technology Brings More Versatility to High-Throughput Sequencing
Introduction to CRISPR Screen Sequencing CRISPR Screen technology is used for high-throughput screening, allowing a large number of gene mutant cells to be created and a mutant cell library to be screened in various external environments. The relationship between phenotype and genotype can be further evaluated using high-throughput sequencing and bioinformatics analysis. Furthermore, ...
By CD Genomics
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Navigating the Bioinformatics Workflow for Whole Exome Sequencing: A Step-by-Step Guide
Next-generation sequencing (NGS), which makes millions to billions of sequence reads at a fast rate, has greatly sped up genomics research. At the moment, Illumina, Ion Torrent/Life Technologies, 454/Roche, Pacific Bioscience, Nanopore, and GenapSys are all NGS platforms that can be used. They can produce reads of 100–10,000 bp in length, enabling sufficient coverage of the genome at a ...
By CD Genomics
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The Workflow of Viral Metagenomics
As is known to all, most of the viruses infect microorganisms, plants, and animals. They cause familiar infectious diseases (such as the flu and warts) and even some severe illnesses such as smallpox, Ebola, and HIV/AIDS. Because less than one percent of microbial hosts have been cultivated, it is very important to identify and measure the community dynamics of viruses in the environment. Unlike ...
By CD Genomics
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Comparison Between Illumina and Nanopore Sequencing Technologies
What is Illumina Sequencing? Illumina sequencing is a second-generation sequencing technology that has become a powerful tool for genomics research. The method uses reversible dye terminator technology to detect the sequence of a DNA molecule. The process begins by fragmenting the DNA sample into short fragments, typically 100-150 base pairs (bp) in length. These fragments are then ligated to a ...
By CD Genomics
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The Methods of Whole Genome Sequencing
Overview of Whole Genome Sequencing The genome of each individual organism contains its entire genetic information. Whole genome sequencing technology can comprehensively and accurately analyze entire genomes, thereby breaking the information contained in it and revealing the complexity and diversity of the genome. The emergence of whole genome sequencing technology is a revolutionary advancement ...
By CD Genomics
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CD Genomics Perspective: Bioinformatic Analysis for HLA Genotyping
Introduction to HLA Human leukocyte antigen (HLA) is a 3.6 Mb segment on the short arm of chromosome 6 that contains over 200 genes. It is also known as the major histocompatibility complex (MHC), and it is the most polymorphic region in the human genome, involving diverse immune reactions. HLA is divided into HLA-class I (corresponding to MHC class I) and HLA-class II (corresponding to MHC class ...
By CD Genomics
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Nanobodies Definition, Structure, Advantages and Applications
What is a Nanobody?Nanobodies are the smallest functional single-domain antibodies known to be able to stably bind to antigens, and have unique structural and functional advantages. The molecular weight of nanobodies is only 12-15 kDa, which retains the antigen binding ability of traditional antibodies. However, nanobodies have higher solubility and stability, and have unique advantages in ...
By BOC Sciences
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Influenza A virus replication has a stronger dependency on Raf/MEK/ERK signaling pathway activity than SARS-CoV-2
The recent COVID-19 pandemic again highlighted the urgent need for broad-spectrum antivirals, both for therapeutic use in acute viral infection and for pandemic preparedness in general. The targeting of host cell factors hijacked by viruses during their replication cycle presents one possible strategy for development of broad-spectrum antivirals. By inhibiting the Raf/MEK/ERK signaling pathway, ...
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High Throughput SHERLOCK CRISPR SARS-CoV-2 Test
Abstract: The ability to control the spread of COVID-19 has been hampered by a lack of rapid, scalable, and easily deployable diagnostic solutions. Efforts to increase testing capacity have been adversely impacted by supply chain challenges due to dependencies on a limited set of reagents, consumables, and instrumentation. Here, we present a diagnostic method based on CRISPR (clustered regularly ...
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