Supplies - 302898-2019

01/07/2019    S124    Supplies - Voluntary ex ante transparency notice - Negotiated procedure without a call for competition 

Denmark-Copenhagen: Database and operating software package

2019/S 124-302898

Voluntary ex ante transparency notice

Supplies

Legal Basis:

Directive 2014/24/EU

Section I: Contracting authority/entity

I.1)Name and addresses
Official name: Nationalt Genom Center
National registration number: 39851490
Postal address: Ørestads Boulevard 5
Town: Copenhagen
NUTS code: DK
Postal code: 2300
Country: Denmark
Contact person: Alexi Burns-Tang or Cathrine Jespersgaard, Direct phone: +45 3046 1850 Mail: cje@ngc.dk
E-mail: abt@ngc.dk
Telephone: +45 21307994

Internet address(es):

Main address: www.ngc.dk

I.4)Type of the contracting authority
Ministry or any other national or federal authority, including their regional or local subdivisions
I.5)Main activity
Health

Section II: Object

II.1)Scope of the procurement
II.1.1)Title:

HGMD Prof VCF Download, Clinical Use

II.1.2)Main CPV code
48600000
II.1.3)Type of contract
Supplies
II.1.4)Short description:

HGMD is the golden standard database when evaluating genetic variants. It contains curated information for published human inherited disease mutations. The information collected in this database is crucial when evaluating genetic variants in a patient. No other database is available as a VCF file ready for annotation of the identified variants in a patients genome.

II.1.6)Information about lots
This contract is divided into lots: no
II.1.7)Total value of the procurement (excluding VAT)
Value excluding VAT: 1 365 360.00 DKK
II.2)Description
II.2.1)Title:
II.2.2)Additional CPV code(s)
II.2.3)Place of performance
NUTS code: DK
II.2.4)Description of the procurement:

The HGMD Professional database initiated data collection back in 1996. The data collection consist of scanning journals and collecting knowledge regarding association of a given genomic variant and a disease. 4 times a year the database is updated with the gathered knowledge. The database is either available through a web interface a by downloading a VCF file, that may be implemented into a bioinformatic pipeline. The latter function is essential for a high throughput data analysis. In addition, the professional version of the database includes annotations and extra features, such as GRCh38/hg38 and GRCh37/hg19 genomic chromosomal coordinates, HGVS nomenclature, Variant Call Format (VCF), additional literature reports, advanced search features, conservation data and functional predictions.

In 2017 a review of the database and the contents reported that the database contains >203 000 mutation entries obtained from over 57 000 primary literature reports. The variants are divided into different categories depending on the evidence for the disease association. Furthermore, the HGMD curators reassess the variants if new information is reported which may lead to a different categorization of the variant. This reassessment and thereby updated information is crucial when performing clinical genetic diagnostics.

This comprehensive data collection plus the functionality of the annotation possibilities is an essential tool for evaluation of genetic variants. Currently no other databases contains the same comprehensive knowledge and have the same functionalities as the HGMD professional.

Reference:

Hum Genet. 2017 Jun;136(6):665-677.

The human gene mutation database: towards a comprehensive repository of inherited mutation data for medical research, genetic diagnosis and next-generation sequencing studies.

Stenson PD, Mort M, Ball EV, Evans K, Hayden M, Heywood S, Hussain M, Phillips AD, Cooper DN.

II.2.5)Award criteria
Quality criterion - Name: Quality / Weighting: 100
Price - Weighting: 0
II.2.11)Information about options
Options: no
II.2.13)Information about European Union funds
The procurement is related to a project and/or programme financed by European Union funds: no
II.2.14)Additional information

Section IV: Procedure

IV.1)Description
IV.1.1)Type of procedure
Negotiated procedure without prior publication
  • The works, supplies or services can be provided only by a particular economic operator for the following reason:
    • absence of competition for technical reasons
Explanation:

The HGMD Professional database initiated data collection back in 1996. The data collection consist of scanning journals and collecting knowledge regarding association of a given genomic variant and a disease. 4 times a year the database is updated with the gathered knowledge. The database is either available through a web interface a by downloading a VCF file, that may be implemented into a bioinformatic pipeline. The latter function is essential for a high throughput data analysis. In addition, the professional version of the database includes annotations and extra features, such as GRCh38/hg38 and GRCh37/hg19 genomic chromosomal coordinates, HGVS nomenclature, Variant Call Format (VCF), additional literature reports, advanced search features, conservation data and functional predictions.

In 2017 a review of the database and the contents reported that the database contains >203 000 mutation entries obtained from over 57 000 primary literature reports. The variants are divided into different categories depending on the evidence for the disease association. Furthermore, the HGMD curators reassess the variants if new information is reported which may lead to a different categorization of the variant. This reassessment and thereby updated information is crucial when performing clinical genetic diagnostics.

This comprehensive data collection plus the functionality of the annotation possibilities is an essential tool for evaluation of genetic variants. Currently no other databases contains the same comprehensive knowledge and have the same functionalities as the HGMD professional.

Reference:

Hum Genet. 2017 Jun;136(6):665-677.

The human gene mutation database: towards a comprehensive repository of inherited mutation data for medical research, genetic diagnosis and next-generation sequencing studies.

Stenson PD, Mort M, Ball EV, Evans K, Hayden M, Heywood S, Hussain M, Phillips AD, Cooper DN.

IV.1.3)Information about framework agreement
IV.1.8)Information about the Government Procurement Agreement (GPA)
The procurement is covered by the Government Procurement Agreement: yes
IV.2)Administrative information
IV.2.1)Previous publication concerning this procedure

Section V: Award of contract/concession

V.2)Award of contract/concession
V.2.1)Date of contract award decision:
26/06/2019
V.2.2)Information about tenders
The contract has been awarded to a group of economic operators: no
V.2.3)Name and address of the contractor/concessionaire
Official name: QIAGEN Danmark
National registration number: 28693206
Town: Vedbæk
NUTS code: DK
Postal code: 2950
Country: Denmark
The contractor/concessionaire will be an SME: yes
V.2.4)Information on value of the contract/lot/concession (excluding VAT)
Initial estimated total value of the contract/lot/concession: 1 365 360.00 DKK
Total value of the contract/lot/concession: 1 365 360.00 DKK
V.2.5)Information about subcontracting

Section VI: Complementary information

VI.3)Additional information:
VI.4)Procedures for review
VI.4.1)Review body
Official name: Klagenævn for udbud
Postal address: Toldboden 2
Town: Viborg
Postal code: 8800
Country: Denmark
E-mail: nh@naevneneshus.dk
Telephone: +45 72405600
VI.4.2)Body responsible for mediation procedures
VI.4.3)Review procedure
Precise information on deadline(s) for review procedures:

Klagenævnet for Udbud) § 7, Section 1.

Complaint regarding the award of contract:

Complaint regarding the award of contract must be submitted no later than 45 calendar days from the date after the Contracting Authority has published a contract award notice in the European Union Official Journal informing that the Contracting

Authority has awarded the contract, cf. Law regarding Complaints board (in danish Klagenævnet for Udbud) § 7, Section 2, No 1.

Complaint regarding the award of a contract under a Framework Agreement with a reopening of the competition:

complaint regarding the award of a contract under a Framework Agreement with a reopening of the competition must be submitted no later than 30 calendar days form the date after the Contracting Authority has notified the concerned tenderers that a contract has been awarded, if the notification includes the grounds for the decision, Cf. Law regarding Complaints board (in danish Klagenævnet for Udbud) § 7, Section 2, No 2.

Complaint regarding the award of a Framework Agreement:

Complaint regarding the award of a Framework Agreement must be submitted no later than 6 months from the date after the Contracting Authority have notified the concerned candidates and tenderers that award of contract has happened, cf. Law Regarding the Complaints board (in Danish Klagenævnet for Udbud) § 7, Section 2, No 3.

Complaint regarding direct award of contract:

Complaint regarding the Contracting Authority’s award of contract without prior publication of a Contract Notice in the European Union Official Journal must be VI.4.4) 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. Law regarding Complaints board (in danish Klagenævnet for Udbud) § 7, Section 3.

Compliant regarding public procurements below the EU threshold:

Complaint regarding public procurements below the EU threshold must be

Submitted no later than 45 calendar days from the date after the Contracting Authority has notified the tenderers about the award of contract if this notification includes the grounds for the decision; and no later than 6 months after the date where the Contracting Authority has notified the candidates and tenderers about that award of a Framework Agreement, if the notification includes the grounds for the decision, cf. Law regarding Complaints board (in danish Klagenævnet for Udbud) § 7, section 4, No 1 and 2. Compliant regarding a decision on shortlisting on procurement below the EU threshold must be submitted no later than 20 calendar days from the date after the Contracting Authority has sent a notification to the concerned candidates regarding who has been selected and this notification includes the grounds for the decision, cf. Law regarding Complaints board (in danish Klagenævnet for Udbud) § 7, Section 5.

VI.4.4)Service from which information about the review procedure may be obtained
VI.5)Date of dispatch of this notice:
26/06/2019