Pangolin Lineage Classification of SARS-CoV-2 Genome Sequences

Overview

Development stage

DeployedSource: c) Deployed – The use case is being actively authorized or utilized to support the functions or mission of an agency.

High-impact designation

Not high-impactSource: c) Not high-impact

Impact justification

Not reported

Start date

2021-04 (month precision)Source: Apr-21

Withheld from public reporting

NoSource: a) No

Mission

Topic area

Science

Operational functions

No function tag matched Derived by keyword rules; see methodology

Problem the AI is intended to solve

Process a high volume of sequence data in real time to identify meaningful mutational patterns while minimizing the need for human effort.

Expected benefits

Improved user retrieval of SARS-CoV-2 genome sequences based on classification and tracking of specific lineages, including those associated with mutations that may decrease effectiveness of therapeutics or protection provided by vaccination.?

System outputs

Lineage classification identifiers for sequences

Technology

AI classification

Classical / predictive MLSource: Classical/Predictive Machine Learning: Models trained on data to make predictions or classifications based on identified patterns or relatio…

System name(s)

Not reported

Custom-developed code

No

Public source code

github.com ↗

Sourcing

How it was built

Purchased from vendorSource: a) Purchased from a vendor

Vendor (as reported)

http://cov-lineages.org; https://pangolin.cog-uk.io/

Vendors (standardized)

None on the standard list

A vendor is the supplier named by the agency. It does not identify the underlying model or AI technology.

Data and privacy

Involves PII

No

Privacy Impact Assessment

Not reported

Authorization to Operate

No

Demographic features

k) None of the above

Training and evaluation data

Publicly available SARS-CoV-2 sequence data from the GenBank resource was used to develop the tool

Federal Data Catalog

Not reported

Governance

0 of 8 minimum-practice questions answered. A blank answer means the agency reported nothing; it does not mean the practice is absent.

Potential impacts and how they were identified

Not reported