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Nanopore Sequencing


Ultra-Long read sequencing solves the genome assembly and scaffolding puzzle, in a greatly reduced computational time


Applications

Genome Scaffolding, Cell line characterization, Metagenomics, Methylation
Profiling, 16s RNA, Whole Genome, Fusions and Splice Variants, Base Modification, Structural Variations and Transcriptome Sequencing


Domains

Medical Microbiology, Cancer Biology, Vaccines, Biopharma,
Agriculture, Basic Research

  • ~100 Gb in 48 hours
  • Ultra-long reads up to 1Mb
  • Quickest Turn-around-Time
  • High yields for large genomes
  • Direct RNA sequencing


Over 100 Nanopore sequencing-based projects completed for Key Opinion Leaders, and multiple publications enabled

  • Run larger
  • sequencing
  • projects
  • Apply well-accepted
  • uses of long-read
  • data
  • Explore exciting new
  • applications of
  • Nanopore sequencing
  • Generate robust
  • data for large
  • projects
  • Analzye and interpret
  • data generated from
  • Nanopore sequencing


Over 500+ publications in reputed journals across the world


Case Study:

Whole Genome Sequencing in Record Time

Hybrid genome assembly with Illumina reads and Nanopore sequencing


Background and Objectives:

Soil salinity is a major abiotic stress of rice cultivation globally and rice cultivation areas under soil salinity stress are increasing gradually. Oryza coarctata, also knows as Asian wild rice grows naturally in the coastal region of south-East Asian countries. This plant was collected from the Sundarban delta of West Bengal, India. It is the only species in the genus Oryza that is halophyte in nature. The objective was to understand the genetic potential for salt tolerance of rice in natural population. In order to share arrive at meaningful insights, a draft genome assembly using a hybrid genome assembly method with Illumina reads and third generation Oxford Nanopore sequencing technology was put together.


Planning and Execution:

The project was initiated and completed on an overdrive, given the urgency stated by the client for achieving assembly, annotation, comparative analysis, and gene family comparison between many species. In order to support this effort, a team experienced in De novo genome assembly, comparative genomics and annotation was constituted – It comprised of a Group Leader (Ph.D with 10+ years), Scientific Contact (Ph.D with 20 years), Team Leader (Masters with 5+ years), Analyst (Masters with 2+ years), Project coordinator (Ph.D with 3+ years). The sales and client servicing efforts by led by a Business Unit contact (Ph.D with 2+ years).

Post requirement gathering, a detailed project flow was worked out with the client, keeping in view the final delivery time. Periodic updates were shared with the client, in order to map and communicate progress. Support was fast-tracked for data upload, publication and manuscript.


Outcomes:

The client achieved a De novo assembly of Oryza coarctata, along with comparative genomics against 12 Rice genomes in a very short time. In addition single copy ortholog genes were identified, and phylogenetic tree of the single copy gene, mitochondria genome, Synteny analysis among others were provided.

The research work was published, serving as an important resource for salinity tolerance genes
(Reference : https://f1000research.com/articles/6-1750/v1)

This project was completed in a record time of ~3 months, helping the client publish ahead of his competition. This resulted in multiple projects and engagements with the client.


Contact us for:
Project Planning | Execution | Analysis | R&D Consulting
genomics@genotypic.co.in
+919900035744
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