Quotations Invited in the Department

Post date: Jan 30, 2020 6:32:41 AM

No. DCB/State Plan F./393 /19-20 dated 29/01/2020

Sub: Quotations invited for Next Generation Sequencing (NGS) service

Competitive Tenders are invited from service providers for carrying out Next Generation Sequencing work as shown in Annexure. Tenders should specifically show the charges, taxes, forwarding charges and terms of delivery separately. Evaluation will be based on total amount

Validity of the offer and the time required for effecting the sequencing work after placing the order should also be mentioned in the Tender.

Successful bidder has to complete the work within the stipulated time failing which the order will be treated as cancelled without any further intimation. You are requested to quote the reference number and date of this letter in all your correspondence.

Terms and Conditions

• 1. Each bidder shall submit only one Tender

  2. Fax/email bids shall not be accepted.

  3. Late/Delayed tenders shall not be opened.

  4. Wrongly referenced / enclosed Tenders and Unsigned (wherever signature required) bids will be rejected summarily

  5. The companies participating should provide the Installation certificate for Illumina in their facility in India

  6. The cost should be mentioned separately for sequencing using different platforms and bioinformatics analysis

  7. Payment conditions: 100% payment on receipt of the results as per specifications.

  8. The sample should not be sent outside India for sequencing.

  9. Delivery: To be made available to this Institute in soft copies and hard disc.

Annexure

Tenders are invited from firms providing DNA sequencing services with proven track record of whole transcriptome sequencing and de novo assembly using next generation sequencing platforms for undertaking the De novo whole transcriptome sequencing and differential expression analysis (bioinformatics analysis) in a medicinal plant (Boerhavia diffusa) using paired end libraries.

Specifications for sequencing

• • Whole Transcriptome Sequencing and Differential expression analysis of Boerhavia diffusa using Illumina platforms.

  • De novo assembly of the comprehensive sequence data set with a minimum of 80% genome coverage.

  • De novo Transcriptome Sequencing, assembly and Bioinformatic Analysis of Boerhavia diffusa leaf, root and stem samples (in triplicates) on Illumina Platform.

  • Primary Bioinformatics analysis should include Base Calling, Filtering, QC, Trimming, contamination removal.

  • Secondary Bioinformatics analysis should include Error correction, Denovo Assembly and Mapping of transcriptome, functional annotation, and differential expression analysis.

  • The final report should contains Statistics of raw reads, Raw data QC, Statistics of clean and filtered reads, Statistics after error correction, Denovo assembly, functional annotation, differential expression analysis, Distribution of reads throughout the genome to be provided.

The following information also should be provided in the Tender.

• 1. Amount for isolation of RNA from the sample

  2. Proposed sequencing and assembly strategies in detail for Boerhavia diffusa

  3. Type of sequencing platform (s) including software/ programme modules to be used.

  4. Modal read lengths for different platforms

  5. Depth of sequencing

  6. Details of all bioinformatics services to be provided

All interested service providers are requested to send their Tender in sealed envelope super scribing “Tender No. DCB/ State Plan F./ 393/19-20 dated 29/01/2020” for Next Generation Sequencing Work” to “The Head, Department of Computational Biology and Bioinformatics, University of Kerala, Kariavattom, Trivandrum, Kerala, India- 695581” on or before 5pm on 20/02/2020. The received Tenders will be opened on the next working day at 11AM.