News

  • The cell surface is the crucial interface between cell-cell and cell-environment interactions. These interactions involve extracellular signal sensing, extracellular matrix anchoring, or antigen presentation. The key bioactive molecules in these cell surface functions are transmembrane proteins, glycans, or lipids. In contrast, the contribution of RNAs to the cell functions is largely unknown.
  • We previously introduced Oxford Nanopore sequencing, a third-generation sequencing that read the nucleotide sequences at a single-molecule level. It has many advantages than the current Illumina sequencing platform, however, its output and reads accuracy so far is far inferior to that of Illumina. Quick Biology believes the products of Illumina and Oxford Nanopore have different applications; both will occupy a certain share in the current high throughput sequencing market.
  • Single-cell RNA sequencing is a great method to study cell heterogeneity, track cell lineages in developments, but it obscures spatial (location) and temporal resolution. To get spatial information, many other methods are developed such as (1)Geo-seq (Geographical position sequencing) through tissue staining and laser capture microdissection developed by Dr. Han and Dr.Jing’s group in CHINA (Ref1) ; (2) Slide-seq, whereby RNA was spatially resolved from tissue sections by transfer onto a surface covered with DNA-barcoded beads developed by Dr. Chen and Dr. Macosko in Broad Institute in the USA (Ref2).
  • Extrachromosomal DNA (ecDNA) is any DNA that is found off the chromosomes. In early Feb, we discussed one research work led by UCSD and Stanford. By integrating RNA-Seq, ATAC-seq and 4C-seq etc, they revealed extrachromosomal circular DNA (eccDNA) is common in cancer cells, has a loose chromatin structure, genes encoded in eccDNA are most highly expressed.
  • Ticks (Acari: Ixodidae) are obligate blood-feeding arthropods. They are the most versatile vectors, transmit the most diverse human and animal pathogens. Due to urbanization, deforestation, and climate change, tick-borne diseases (TBDs) have increased unpredictably, worsen the quality of human health.
  • Decoding the genome of the species is a fundamental question in biology. Current short-read sequencing technology cannot cover the low complexity of simple repetitive regions such as centromeric or telomeric, and cannot assemble large structural variation. In plants, higher genomic rearrangement events, abundant repeat expansion, and plant polyploids make it much more challenging for uncovering their complete genomes.
  • N6-methyladenosine (m6A) is the most abundant modification of mRNA. This modification has critical roles in stem cell proliferation, differentiation, mRNA splicing, RNA metabolism, etc. Previously, we described the DART-seq method developed by Dr. Kate D.Meyer, an antibody-free method for global m6A detection. In DART-seq, the researcher fused APOBEC1 to the m6A-binding YTH domain. Recruitment of APOBEC1 to m6A site will enable the deamination of cytidine immediately following m6A residue like C-to-U editing. 
  • The nucleus of the human cell harbors very densely packed chromosomes (Fig.1). Determining how these chromosomes are folded and interacted is critical in understanding gene regulation. Besides imaging approaches like FISH (fluorescence in situ hybridization), approaches based on chromosome conformation capture (3C), especially Hi-C (high-throughput chromosome conformation capture) is becoming more popular in current years (Fig. 2).
  • Third-generation sequencing (also knowns as long-read sequencing) is a technology that reads the nucleotide sequences at the single-molecule level. Comparing to existing methods (such as Illumina platform, BGI complete genomics platform, Thermofisher Ion Torrent platform, Qiagen GeneReader Platform) that infer nucleotide sequences by amplification and synthesis (SBS: sequencing by synthesis), the third-generation sequencing gives three major advantages.
  • The COVID-19 pandemic has already greatly disrupted all our life and society since the outbreak about seven months ago. As of July 13th, SARs-CoV2 has already resulted in over 3.4 million confirmed cases and 137,786 deaths in the USA (https://coronavirus.jhu.edu/map.html). Something worse is happening, at the beginning of June 2020, as more and more states are moving to reopen their economies. Such ease of coronavirus restrictions planning for the economic and society reopening, many of the states, especially states especially Florida, Arizona, and Alabama are experiencing a surge in cases. To adequately combat the COVID-19 pandemic and reopen society safely, comprehensive, and reliable SARs-CoV2 screening is essential to guide the community to contain the spread.

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