ATCC Genome Portal FAQs

Your research is important and you need answers fast. The ATCC Genome Portal makes it easy for you to find the high-quality whole-genome sequencing data needed for your research. With high-quality, annotated data at your fingertips, you can find the answers you need in less time! Just in case you have any additional questions, check out our frequently asked questions below to find the help you need.

How do I know if an ATCC product has genome sequencing data available?

On atcc.org, all products with genomic sequencing data available have a “Genomic Sequence Available” icon on the respective product page.

Genome Sequence Available

These products are also highlighted in the search results with a “Genomic Sequence” icon.

Genome Sequence Available

You can also limit your search results to products that were verified by whole-genome sequencing by selecting the “Whole-genome sequencing” option in the “Verified by” filter on the left-hand column on the search results page.

How can I tell if my purchased product has genome sequencing data available?

If you purchased products after September 2019, you can view your products that have genomic data available by logging into your account on atcc.org and visiting the "My Genomes" tab in your profile. If you purchased a product with genomic data before September 2019, these products will not display on the “My Genomes” tab, but you can find the sequence on genomes.atcc.org by performing a search for that product. 

Do I have to purchase a product to see the genome sequencing data for that product?

No. As part of ATCC’s pledge to advance authentication in science, our whole-genome sequence data are publicly available to the scientific community through genomes.atcc.org.

How do I access genome sequencing data for a product?

Genome sequencing data are available to the scientific community and accessed at genomes.atcc.org.

All first-time users of the ATCC Genome Portal are required to register for an account on genomes.atcc.org before gaining access the genome sequencing data.

We recommend using one of the following browsers when accessing the ATCC Genome Portal

  • Google Chrome
  • Microsoft Edge
  • Mozilla Firefox
  • Safari

Important: The ATCC Genome Portal will function using Microsoft Internet Explorer although the experience is not optimized, and certain features of the portal may not function properly.

Why do some products have genome sequencing data while others do not?

As part of our Enhanced Authentication Initiative, our long-term goal is to offer genome sequencing data for many of the materials in our collection. As you may expect, whole-genome sequencing requires a great amount of effort and takes significant time. However, we wanted to make these data available as soon as possible to you and will release additional sequencing data for additional products on a continual basis.

What criteria must the data meet before we consider the genome to be of reference quality and release the whole-genome sequence on the ATCC Genome Portal?

The ATCC bacterial whole-genome sequencing workflow is an optimized methodology designed to achieve complete, circularized (when biologically appropriate) bacterial genomic elements by using a five-step, hybrid assembly technique. Each step is accompanied by rigorous quality control methods and criteria to ensure that the data proceeding to the next step are the highest quality possible. Only the data that pass all quality control criteria are published on the ATCC Genome Portal

If you want to know all the details about this process, please read our technical document that explains our approach.

Can my sequencing data be added to the ATCC Genome Portal?

No. As part of our Enhanced Authentication Initiative, we have made a pledge to authenticate our diverse collection using the most current technology available. As such, our genome portal only includes genomic data that were produced, verified, and published by ATCC using authenticated ATCC products.

Is ATCC planning to deposit genomic sequencing data to publicly available databases

No, we are not uploading our data to other publicly available databases as we want to provide the scientific community reference-grade products that pair a particular material with the authenticated genome. We are linking the sequencing data with low-passage materials and provide those products to the scientific community.

Am I allowed to upload the genomic data to a publicly available database?

No. The data use agreement for the ATCC Genome Portal states that users are not allowed to upload our sequencing data to publicly available database.

Can I download the raw sequencing data as a FASTQ file?

No. We are not providing the raw sequencing data in FASTQ format as part of the ATCC Genome Portal.  However, we are providing whole-genome assemblies in FASTA format and annotated sequences in GBK file format.

How do I open the GBK files I download from the portal?

To expedite the download process, all GBK files are offered in a compressed file format. Windows users can decompress the GBK files using compression software whereas macOS users can simply right-click on the file and select “Extract.” Once decompressed, GBK files can be opened in a text editor application. We highly recommend you use the Genome Browser tab on the ATCC Genome Portal if you plan on manually exploring genome annotations. The GBK file format is also compatible with many bioinformatics software.

How do I search for genomes on the ATCC Genome Portal using my own nucleotide sequence?

You can perform a search with any nucleotide sequence by using the “Sequence Search” on genomes.atcc.org. The search matches all k-mers in the query against all available ATCC reference genomes and lists up to five organisms that have greater than an 80% match to the input nucleotide sequence.


How do I report issues with the ATCC Genome Portal?

Please contact tech@atcc.org to report any concerns with the ATCC Genome Portal or its content.

Why does a product not appear in search results when I search for it on the ATCC Genome Portal?

Genomic data on genomes.atcc.org is indexed using the source organism and its product number. Make sure to search for the source organism or source organism product number – exclude any suffixes that might be included for derivative products.

For example, remove the “DX” suffix from “10145DX” to find the applicable organism and its genomic data.