Hi-C

Hi-C sequencing

Introduction

Hi-C is a technique derived from the Chromosome Conformation Capture(3C) combined with high-throughput sequencing. It mainly crosslinks DNA fragments that are adjacent in space structure, then enriches the crosslinked DNA fragments, performs high-throughput sequencing, futher more combines with bioinformatics analysis methods to achieve capture of interactions between chromosome segments throughput the genome.

Application Areas

Genome Assembly

Hi-C Interaction

Hi-C data were used to assemble the jumbled genome sequences to the chromosomal level

Hi-C combining with RNA-seq , resequencing, ATAC-seq, Chip-seq, WGBS and other research methods could be used to conduct multi-omics analysis, and further in-depth study biological 

Hi-C Advantages


●Rich experience
Completed nearly 300 species and built nearly a thousand libraries.
●Accurate service
Provided customized services for specific species.
●Patent protection
Acquired patents and software copyrights for experimental and bioinformatics analysis.
●Remarkable achievement
Accomplished the assembly of polyploidy species by Hi-C technology, and up to 100% of the genome is anchored onto the chromosome.

Genome Assembly

Introduction

Based on the draft genome assembled from the second or third generation sequencing and the number of known chromosomes. The Hi-C sequencing data was used to divide the sequences of the draft genome into chromosomes, and then the order and direction of each sequence on the chromosome was determined to obtain the genome at the chromosome level.

Research strategy

Products


Platform


Sequencing strategy

Product Cycles


Genome Assembly


Hiseq

Simple Genome:≥100×;Complex Genome:≥150×

60 natural days

Data analysis Pipeline

 
Nanopore-pipeline

Advantages and Application Areas


●Material availability
There is no need to construct a genetic population, and only one material can achieve chromosome localization.
●Wild applicability
It is applicable not only to simple genome, but also to complex with polyploidy, high heterozygosity and high repetition.
●High accuracy
The use of heat maps can accurately and intuitively detect assembly errors and correct them.
●High coverage
The high marker density can anchored more contig onto chromosome.

Introduction

High-resolution chromatin three-dimensional structure information can be obtained through studying genome-wide interaction information by high-throughput sequencing technology  assist with bioinformatics analysis methods .Hi-C combining with RNA-seq , resequencing, ATAC-seq, Chip-seq, WGBS and other research methods could be used to conduct multi-omics analysis, and further in-depth study biological problems from various aspects.

Research Strategy

Product
Platform
Sequencing Strategy
Product Cycle
Hi-C interaction
Hiseq
≥150×
60 natural days

Workflow

 
Workflow

Advantages and Application Areas


●Rich experience
Completed the construction and sequencing of nearly 300 species, such as crops, forest trees, flowers, Chinese herbal medicines and so on.
●Mature library building techniques
Leading library construction technology with valid rate as high as 93%, with an average ratio of up to 68%.
●Wide coverage
The interactive information are capture from the genome-wide level , which study three-dimensional conformation of chromosomes.
●In-depth research
Hi-C combining with RNA-seq , resequencing, ATAC-seq, Chip-seq, WGBS and other research methods could be used to perform multi-omics
analysis, and further in-depth study complex molecular mechanisms.

Biomarker Successful Cases

[1] Resequencing of 243 diploid cotton accessions based on an updated A genome identifies the genetic basis of key agronomic traits[J]. Nature genetics, 2018, IF = 27.125.

[2] Reference genome sequences of two cultivated allotetraploid cottons, Gossypium hirsutum and Gossypium barbadense[J]. Nature genetics, 2019, IF = 27.125.

[3] Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L[J]. Nature genetics, 2018, IF = 27.125.

[4] Genome of an allotetraploid wild peanut Arachis monticola: a de novo assembly[J]. GigaScience, 2018, IF = 7.267.

[5] Population Genomic Analysis and De novo Assembly Reveal the Origin of Weedy Rice as an Evolutionary Game[J]. Molecular plant, 2019, IF = 9.326.

[6] A Chromosome-Scale Genome Assembly of Paper Mulberry (Broussonetia papyrifera) Provides New Insights into Its Forage and Papermaking Usage[J]. Molecular plant, 2019, IF = 9.326 .

[7] Chromosome-scale genome assembly of kiwifruit Actinidia eriantha with single-molecule sequencing and chromatin interaction mapping[J]. GigaScience, 2019, IF = 7.267.