Official name: Danmarks Tekniske Universitet — DTU
National registration number: 30060946
Postal address: Anker Engelunds Vej 1
Town: Kgs. Lyngby
NUTS code: DK01 Hovedstaden
Postal code: 2800
Country: Denmark
Contact person: Katrine Freiesleben Petersen
E-mail: kafre@dtu.dk
Telephone: +45 45252525

Internet address(es):

Main address: http://www.dtu.dk

Body governed by public law

Education

MiSeq System

38000000 Laboratory, optical and precision equipments (excl. glasses)

Supplies

1) Illumina MiSeq System (SY-410-1003), including delivery, installation and training in Nigeria, Africa;

2) 1 year bronze service contract for MiSeq System in Nigeria;

3) MiSeq Reagent Kit v2 (300 cycle) MS-102-2002) x 104;

4) Phix Control Kit (FC-110-3001) x 6.

This contract is divided into lots: no

Value excluding VAT: 300.00 USD

38400000 Instruments for checking physical characteristics

38430000 Detection and analysis apparatus

38900000 Miscellaneous evaluation or testing instruments

NUTS code: 00 Not specified

Main site or place of performance:

Nigeria, AFRICA.

1) Illumina MiSeq System (SY-410-1003), including delivery, installation and training in Nigeria, Africa;

2) 1 year bronze service contract for MiSeq System in Nigeria;

3) MiSeq Reagent Kit v2 (300 cycle) MS-102-2002) x 104;

4) Phix Control Kit (FC-110-3001) x 6.

DTU has got a task through funds from the Fleming Fund (UKAID) to establish regional reference centres for whole genome sequencing in Africa. This includes establishing a centre at University of Ibadan (UI) in Nigeria. In order to fill out the role as a reference centre for the Westafrican region, UI needs a well-established sequencing platform/technology for sequencing pathogen bacteria. Af-ter reviewing the specifications on other sequencing platforms, the conclusion is that only the Illumina MiSeq system can cover the specific sequencing need at UI, as a MiSeq system has the needed sequencing capacity.

Options: no

The procurement is related to a project and/or programme financed by European Union funds: no

Negotiated procedure without prior publication

Explanation:

Context:

The regional whole genome sequencing reference centre, which will be established at UI in Nigeria, needs a well-established WGS platform/technology to sequence bacterial pathogens to fulfill their role as the regional WGS reference centre in West Africa.

Requirements/specifications:

1) Short read technology which corresponds to read sizes ranging between 50 to 1000 bases combined with high accuracy nucleotide calling of app 99 %.

2) ‘Sequencing-by-synthesis’ system (SBS).

3) Medium yield of 0.5 - 15(Gb).

4) Relative medium throughput of 50 isolates per run.

5) Vital to have a low error rate to avoid re-runs and misinterpretations of data.

6) Output data needs to be applicable to the analytic workflow applied by UI (CGE Bacte-rial Analysis Pipeline).

7) Need of a service contract to cover: coverage of parts, reagents replacement, remote technical support, on-site application support, and protection of costly repairs in Nigeria.

Justification:

1) A platform with short-read technology is needed. Long-read sequencing platforms will not be considered due to the high error rate between 10 %-13 % by the two long-read platforms available: the Pacific Biosciences (PacBio) suite and the Oxford Nanopore Technologies (ONT) suite.

2) A ‘sequencing-by-synthesis‘ system (SBS) is needed. We are not able to use a ‘sequencing-by-ligation’ (SBL) system. Currently, only two available sequencing-by-ligation (SBL) platforms exist and both have a lower yield than required as well as problems sequencing palindromic sequences. Thus, SBL will not be considered.

3) Only Illumina MiSeq meet the required medium yield of 0.5 - 15 Gb as specified above. The other available platforms provide either a too small or too high a yield.

4) Only Illumina MiSeq meet the required medium throughput of 50 isolates per run as specified above.

5) Illumina platforms have an error rate of app. 1 %. A low error rate is vital for accurate identification of genes and mutations as well as phylogeny of bacteria. The long read technology platforms all have much higher error rates (10 %-13 %) which complicate an accurate analysis. Thus, data often are merged with Illumina data to make up for the errors for further analysis. In addition, Thermo Fisher platforms have problems with especially in homopolymeric regions, leading to difficulties for de novo assemblies complicating an accurate analysis.

6) The analytic workflow (software) applied by UI (CGE Bacterial Analysis Pipeline) is based on the output from Illumina technologies, thus, only fully applicable to Illumina platforms. In order to be able to analyse and compare data from non-Illumina technologies, considerable rewrites, coding and revalidation is needed.

7) Its vital that platforms are regularly serviced to warrant the high accuracy to ensure high quality genomic data for the analysis. To the best of our knowledge, only Alliance Global can support Illumina platforms in Nigeria.

It is only Illumina, who can support UI with the specific sequencing platform that they need, and among the different platforms that Illumina provides, the MiSeq has the sequencing capacity need-ed at UI.

The procurement is covered by the Government Procurement Agreement: yes

18/06/2020

The contract has been awarded to a group of economic operators: no

Official name: Alliance Global FZ-LLC
Postal address: Dubai Media City
Town: Dubai
NUTS code: 00 Not specified
Country: United Arab Emirates

The contractor/concessionaire will be an SME: no

Total value of the contract/lot/concession: 300.00 USD

The contract/lot/concession is likely to be subcontracted

Short description of the part of the contract to be subcontracted:

Illumnia Denmark ApS is the the company that produces the instrument. Alliance Global is the company that delivers the instrument and the company we will enter into an agreement with.

Official name: Klagenævnet for Udbud
Postal address: Nævnenes hus, Toldboden 2
Town: Viborg
Postal code: 8800
Country: Denmark
E-mail: klfu@erst.dk
Telephone: +45 35291000

Internet address: http://www.klfu.dk

Precise information on deadline(s) for review procedures:

Complaint regarding award of contract:

Complaint regarding the award of a contract must be submitted no later than 45 calendar days from the date after the Contracting Authority has published a notice in the European Union Official Journal informing that the contracting authority has awarded/concluded a contract, cf. lov om Klagenævnet for Udbud (Complaints Board for Tenders) § 7, Section 2, no 1.

Complaint regarding direct award of contract:

Complaint that the contracting authority, contrary to the Public Procurement Act, has concluded a contract without prior publication of a contract notice in the European Union Official Journal must be submitted no later than 30 calendar days from the date after a contract award notice has been published by the Contracting Authority in the European Union Official Journal and that contract award notice includes the grounds for the decision to award the contract directly, cf. lov om Klagenævnet for Udbud (Complaints Board for Tenders) § 7, section 3.

Official name: Konkurrence- og Forbrugerstyrelsen
Postal address: Carl Jacobsens Vej 35
Town: Valby
Postal code: 2500
Country: Denmark
E-mail: kfst@kfst.dk
Telephone: +45 41715000

Internet address: http://www.kfst.dk

18/06/2020