Services
- Genetic Marker Assisted Breeding
- Plant Molecular Biology Research
- Research on DNA Level of Plant
- Research on Microspore Embryogenesis
- Plant Genetic Engineering
- Plant Genome Editing with CRISPR / Cas9
- Plant Genome Editing with TALEN
- Plant Genome Editing with ZFN
- RNAi Mediated Plant Gene Silencing
- Overexpression of Plant Genes
- Arabidopsis thaliana Transformation
- Oryza sativa Transformation
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- Glycine max Transformation
- Gossypium hirsutum Transformation
- Nicotiana tabacum Transformation
- Solanum lycopersicum Transformation
- Brassica napus Transformation
- Solanum tuberosum Transformation
- Virus-Induced Gene Silencing (VIGS) of Plant Genes
- Research on Protein Level of Plant
- Plant Epigenetic Modification Testing Services
- Sequencing-based Plant Breeding
- Plant DNA-level Sequencing Services
- Plant Genome De Novo Service
- Plant Whole Genome Resequencing Service
- Plant Reduced-Representation Genome Sequencing (RRGS)
- Plant Genetic Map Service
- BSA Trait Positioning of Plant
- Genome-Wide Association Study (GWAS) of Plant
- eQTL Analysis of Plant
- Plant Genetic Evolution Service
- Plant Pan-genome Sequencing
- Plant Whole Exome Sequencing Service
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- Mixing-tank Selection Pressure Analysis of Plant
- Plant Whole Genome Survey
- Plant RNA Level Sequencing Services
- Eukaryotic Transcriptome Sequencing without Reference Genome
- Eukaryotic Transcriptome Sequencing with Reference Genome
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- LncRNA Sequencing of Plant
- Plant Small RNA Sequencing
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- Plant Comparative Transcriptome Service
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- Plant Isoform-sequencing without Reference Genome
- Ribo-seq of Plant
- Metatranscriptome Sequencing of Plant
- Plant Single Cell Level Sequencing Services
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- Plant Proteomics Service
- Proteomics Qualitative Analysis in Plant
- Plant Protein Quantitative Analysis Service Based on Isotope Labeling (iTRAQ / TMT)
- Non-labeled Plant Protein Quantitative Analysis (Label-free / DIA)
- Plant Protein Targeted Quantitative Service (PRM / MRM / AQUA)
- Post-translational Modification Proteomics (PTMs) Service for Plant
- Plant Metabolomics Services
- Plant DNA-level Sequencing Services
- Other Services
- Plant CNV Analysis Service
- Plant Mutation Detection Service
- Plant Strain / Cell Level Services
- Plant Tissue and Cell Culture Services
- Plant Polyploidization Services
- Plant Haploidization Services
- Plant Phenotypic Analysis
- Plant Stress Response Indicators Analysis
- Plant Biochemical Analysis
- Plant Tissue and Cell Imaging Services
- Plant Disease Identification Services
- Plant Organelle Isolation Services
- Genetically Modified Plant Testing Services
- Seed Testing Services
ATAC-seq in Plant
INQUIRYIntroductions
The chromatin in most genomes is tightly coiled in the nucleus, but there are also some regions that appear loose after chromatin remodeling. This part of the naked DNA region without nucleosomes is called open chromatin, and DNA replication and gene transcription all occur in these regions. This property of chromatin is called chromatin accessibility. By studying the chromatin regions that are open in a specific state of a cell, it is possible to understand its transcriptional regulation at the DNA level, and ATAC-seq is applied to this. ATAC-seq (assay for transposase accessible chromatin with high-throughput sequencing) uses Tn5 transposase to cut open regions of chromatin for high-throughput sequencing, and then uses bioinformatics analysis to identify transcription factor binding sites and nucleosome region locations , so as to provide effective methods for studying gene regulation and DNA imprinting. The main applications of this technology in the process of agricultural molecular breeding include: studying epigenetics, studying open chromatin maps, analyze nucleosome location and transcription factor binding sites, assist in the study of environmental stress and disease pathogenesis, etc.
Services
Workflow of ATAC-seq in plant
Analysis content
| Analysis content | Solved problem |
|---|---|
| Sequencing data quality assessment | Filter out low-quality data to ensure data quality |
| Align with reference sequence | Only-aligned reads distribution statistics |
| Peak calling | Analysis of nucleosomes and transcription factor binding sites |
| Motif analysis | Transcription factor binding sequence information |
| Peak related gene annotation | Peak distribution on the genome and functional regions |
| Difference peak analysis | Analyze the difference peak between different samples |
| Related gene function analysis | GO/KEGG enrichment analysis of peak related genes |
| For personalized analysis such as multi-omics association analysis, please contact us for evaluation. | |
Sample requirements
- Sample type: cultured cells, cell samples of plant tissues
- Initial cell volume: ≥ 50000 cells
- Recommended number of biological replicates: 3-5
Project cycle
- It takes 60~90 working days to complete the standard process.
Feedback to customers
- Raw data
- A project report includes experimental process, instrument parameters, analysis methods and results, etc.
Service process
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.
- The one-stop service we provide makes your upstream and downstream experiments seamlessly connected, facilitates your experiments more conveniently and quickly.
- With a strong bioinformatics team, it can meet the various in-depth data analysis needs of customers.
- Personalized customized package service.
※ It should be noted that our service is only used for research.
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