Quotations (NGS) Invited in the Department

Post date: Feb 28, 2020 11:17:4 AM

No. /DCB/ 438/2019-2020 27/02/2020

NOTIFICATION

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

Competitive Tenders are invited from service providers for carrying out Whole genome 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 and tenders shall not be opened.

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

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

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

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

  8. 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 genome sequencing and de novo assembly for undertaking the Whole Genome Sequencing of Helicobacter pylori using Illumina platforms and Scaffolding of the genome using standard assemblers.

Details of the species

Scientific Name – Helicobacter pylori (bacteria)

Genome size ~1.6 Mb

Specifications for sequencing

• 1. Whole Genome Sequencing and analysis of Helicobacter pylori using Illumina HiSeqX platforms

  2. Library – Insert range for Illumina HiSeqX (300 – 500 bp). Paired-end sequencing 2x150bp sequencing. Total Coverage should be 100x per Sample.

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

  4. Primary Bioinformatics analysis should include Base Calling, Filtering, Trimming

  5. Secondary Bioinformatics analysis should include Error correction and Denovo Assembly using standard assemblers and Functional Annotation.

  6. The final report should contain Statistics of raw reads, Raw data QC, Statistics of clean and filtered reads, Statistics after error correction, De novo assembly statistics, Scaffolding and gap closure. Distribution of reads throughout the genome to be provided.

All interested service providers are requested to send their Tender in sealed envelope super scribing “Tender No. DCB/ADMIN/438/2019-2020–dt 27/02/2020” 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 16-03-2020. The received Tenders will be opened on the next working day at 10am.