News

  • One-Seq: a novel “pooling-before-amplification” strategy for NGS-based SARS-CoV-2 diagnostic
    NGS-based SARS-CoV-2 virus detection not only eliminates bottlenecks in scalability but also identifies viral variants, which plays a big role in current SARS-CoV2 VOC (Variants of concerns) surveillance. Previously, Quick Biology reported several scientists’ works, that followed traditional barcoding and sequencing workflows, and required individual RNA extraction and PCR thermocycling steps. In recent medRxiv, researchers from Harvard Medical School reported a new method “One-Seq”, that eliminates the current bottlenecks in scalability by enabling early pooling of samples, before any extraction or amplification steps.
    2021-04-22
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  • IscChIC-seq: a new method to profile single-cell histone modification
    Chromatin packing and histone modification are important factors for gene regulation. ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing), and chromatin immunoprecipitation (ChIP)-seq are typical methods for chromatin accessibility and histone modifications. While the genomic profiles of various chromatin and histone modifications have been extensively characterized at the bulk cells, biotech is now at the stage of single-cell resolution.
    2021-04-15
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  • Developmental trajectory of the human gut microbiota by 16S rRNA gene profiling
    Gut microbiota lives in our digestive tracts and is established at birth. Initial research suggests certain bacteria in our gut can prevent and treat many common diseases, such enormous system of organisms’ influences, improves our health conditions. Understanding how population changes or evolves of gut microbiota in our body in development is fundamental, critical, but challenging as trillions of gut bacteria in ~ 1,000 different species in our body.
    2021-04-05
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  • Multiplexed isothermal amplification for virus detection
    Multiplex detection is the test that numerous analyte targets and internal controls are conducted simultaneously in one reaction. In nucleic acid detection, the gold standard RT-qPCR is multiplexable, which uses the TaqMan method that each target probe is labeled by different fluorescence. The benefits of multiplexing not only reduce reaction costs by at least 50% but also give “self-calibrated” data as all analytes are conducted in the same reaction.
    2021-03-29
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  • SARS-CoV-2 Variants of Concern in 2021
    The ongoing pandemic of SARS-CoV-2 has resulted in the generation of hundreds of thousands of virus genome sequences, as of Feb 3, 2021, 468,000 sequences of SARS-CoV-2 from COVID-19 patients have been uploaded into public databases. A rational and dynamic virus nomenclature uses a phylogenetic framework to identify lineages.
    2021-03-22
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  • Clinically relevant mutations of antibiotic resistance using NGS
    Antimicrobial resistance (AMR) is a serious public health concern, especially in Asian countries due to antibiotic overuse. The mechanism of antibiotic resistance is complex but is generally grouped into three broad categories: target modification, drug inactivation, and drug transport.
    2021-03-15
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  • High-throughput SARS-CoV-2 detection updates using NGS
    As people in the U.S. are receiving the vaccine for SARS-CoV-2, the pandemic slows down. In many states, public schools plan back to normal. High throughput virus test before back to work, full day-in person school learning is critical for controlling any future spread of SARS-CoV-2.
    2021-03-08
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  • Histone-modification in cell-free DNAs informs on pathology-related cells of origin
    Liquid biopsy cell-free DNA (cfDNA) in human plasma provides access to molecular information about the pathological processes in individuals. cfDNA analysis is widely used for the assessment of fetus chromosomal aberrations, graft rejection, monitoring tumor dynamics, and targeted treatment (i.e, circulating tumor DNA). cfDNA originates from pathogenic or healthy organisms, the precise mechanism of cfDNA release is unclear. Upon cell death, the genome is fragmented into nucleosome-complex sizes (~150bp, ~300 bp, ~450 bp, about 150bp per Unit size).
    2021-03-01
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  • Non-coding variants in human genome affect binding of transcription factors
    Genome-wide association studies (GWAS) have implicated hundreds of thousands of single-nucleotide polymorphisms (SNPs) in human diseases and traits, but very few of them have been functionally characterized. Most of these disease or trait-associated SNPs are in the intron region (i.e., non-coding region) or intergenic region, which makes it harder to interpret whether they are true causal genetic sites or just hitch-hiking genetic variants.
    2021-02-22
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  • Using multi-omics data with deep machine learning for characterization of mutations altering protein degradation in human cancer
    The Ubiquitin/Proteasome System (UPS) is a highly regulated mechanism of intracellular protein degradation and turnover, plays major roles in a variety of basic pathways during cell life and death. The UPS is also an attractive target for novel cancer therapies, however, the precise UPS genes and substrates important for cancer growth are not completely understood.
    2021-02-15
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