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Ribo-seq of Plant

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Introductions

Ribo seq

Ribo-seq is the abbreviation of ribosome profiling sequencing, which is a major technical means to study translationomics by using sequencing methods. Translation group sequencing refers to the sequencing of RNA fragments that are being translated combined with ribosomes to accurately obtain information and accurate quantification of all translatable molecules (including mRNA and other potentially translatable RNA molecules such as lncRNA, circRNA, etc.) in the sample. It is the bridge between the transcriptome and the proteome. It can analyze differentially expressed genes in the process of life at the translation level, such as environmental stimulation, metabolism or disease that affect translation efficiency, RNA structure or post-transcriptome modification affects translation products, opening a new perspective for scientific research. Its application fields are also very wide, such as studying the regulation mechanism of animals and plants under adversity stress, studying the molecular mechanism of ontogeny and senescence, and so on.

Services

With years of rich experience, Lifeasible provides ribosome profiling sequencing and analysis service. Customers only need to provide cells, tissues or RNA, and we complete the entire service process from sample extraction, quality testing, sequencing, biological information analysis to making reports.

Workflow of Ribo-seq

Workflow of Ribo-seq

Analysis content

Standard information analysis
  • Raw data filtering and sequencing quality evaluation
  • Compare and remove ribosomal RNA, tRNA, sRNA, etc.
  • Reads length distribution statistics and length filtering
  • Align with reference genome
  • Sequencing saturation analysis
  • Distribution statistics and classification of RF on the genome
  • The distribution statistics of RF around the start and stop codons
  • The distribution of codon positions for RF comparison
  • Translation gene statistics and expression analysis
  • Sample relationship analysis
  • Analysis of differentially translated genes between groups
  • GO/Pathway function enrichment analysis of differentially translated genes
Advanced information analysis (association analysis with transcriptome)
  • Comparison of gene translation level and transcription level
  • Translation efficiency calculation
  • Analysis of the relationship between translation efficiency and transcription level
  • Analysis of differential translation efficiency
Customized analysis
  • Circular RNA translation analysis
  • Translation analysis of Small ORF (uORF, lncRNA, etc.)
  • Correlation analysis with proteome (proteome data is required)
  • Association analysis with miRNA (small RNA sequencing data is required)

Sample requirements

  • Cell samples≥1×106. Cell samples need to be pre-treated with Harringtonine and cycloheximide, and then sent by quick freezing in liquid nitrogen.
  • Plant tissue samples≥400mg. After the tissue samples are collected, they are quickly frozen in liquid nitrogen and transported on dry ice.

Project cycle

  • The entire project generally takes about 3 months.

Feedback to customers

  • Raw data
  • A project report includes experimental process, instrument parameters, analysis methods and results, etc.

Service process

Workflow of Ribo-seq

Advantages

  • Lifeasible specializes in providing services related to agricultural molecular breeding, with standardized systems and scientific management.
  • The experiment adopts a carefully optimized experimental procedure, which has extremely high efficiency and specificity.
  • Strict quality control is carried out on each key step of the experiment, and the quality of the experiment is monitored throughout the process to ensure that customers receive high-quality data.
  • With a strong bioinformatics team, it can meet the various in-depth data analysis needs of customers.
  • The one-stop service we provide makes your upstream and downstream experiments seamlessly connected, facilitates your experiments more conveniently and quickly.
  • Personalized customized package service.

※ For research or industrial use.

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