# Uniref90 and MetaCyc database versions and dates **URL:** \ **Category:** HUMAnN\ **Created:** [May 11, 2020, 5:32pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458 "2020-05-11T17:32:08Z")\ **Posts on this page:** 13\ **Page:** 1
**Author:** ![nk77](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/nk77/32/1536_2.png) [@nk77](https://forum.biobakery.org/u/nk77)\ **Post date:** [May 11, 2020, 5:32pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/1 "2020-05-11T17:32:08Z")
Hi guys! First of all, thank you for making an amazing tool for functional profiling of metagenomes. HUMAaN2 is awesome. I had a question about database versions. So, when I download the database using humann2\_databases script, it downloads this version of the database “[//huttenhower.sph.harvard.edu/humann2\_data/uniprot/uniref\_annotated/uniref90\_annotated\_1\_1.tar.gz](https://huttenhower.sph.harvard.edu/humann2_data/uniprot/uniref_annotated/uniref90_annotated_1_1.tar.gz)”. However, it seems like this file has been last updated in 2016. So do you guys update your database periodically? And if i want to cite this version of the uniref90 database that has been used for my analysis in a paper, which version number or date should I mention. Can you please inform me on that part? Lastly, the current metacyc database version number is v23.5 released in Dec, 19. So is Humann2 using the recent version or an older version. Can you please let me know the version number and date of Metacyc’s mapping file in your package? Thank you once again for the amazing pipeline! Will be waiting to hear back from you guys then ---
**Author:** ![franzosa](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/franzosa/32/3511_2.png) [@franzosa](https://forum.biobakery.org/u/franzosa)\ **Post date:** [May 18, 2020, 12:56pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/2 "2020-05-18T12:56:49Z")
HUMAnN 2.0 is based on UniProt/UniRef 2014\_07 and MetaCyc 19.1. HUMAnN 3.0 (currently in alpha release) is based on UniProt/UniRef 2019\_01 and MetaCyc 19.1; we intend to update the MetaCyc pathways for the final 3.0 release. ---
**Author:** ![nk77](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/nk77/32/1536_2.png) [@nk77](https://forum.biobakery.org/u/nk77)\ **Post date:** [May 18, 2020, 6:56pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/3 "2020-05-18T18:56:32Z")
Thank you very much for the reply. Appreciate it! Looking forward to the updated databases in HUMAnN 3.0. ---
**Author:** ![nick-youngblut](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/nick-youngblut/32/528_2.png) [@nick-youngblut](https://forum.biobakery.org/u/nick-youngblut)\ **Post date:** [May 21, 2020, 4:35am UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/4 "2020-05-21T04:35:59Z")
Do you mean UniRef 2014\_01? I don’t see any 2014\_07 release on the uniprot/uniref ftp site: ftp://ftp.uniprot.org/pub/databases/uniprot/previous\_releases/ ---
**Author:** ![franzosa](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/franzosa/32/3511_2.png) [@franzosa](https://forum.biobakery.org/u/franzosa)\ **Post date:** [May 21, 2020, 1:30pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/5 "2020-05-21T13:30:15Z")
It looks like they only have yearly releases archived before 2015. What do you need from 2014\_07? We still have the original sequence files and could host/share them for download. ---
**Author:** ![nick-youngblut](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/nick-youngblut/32/528_2.png) [@nick-youngblut](https://forum.biobakery.org/u/nick-youngblut)\ **Post date:** [May 21, 2020, 1:49pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/6 "2020-05-21T13:49:30Z")
I’d like to have that release so that I can map some data from the GTDB to those UniRef IDs. It would be great if you could make those sequences available, at least for UniRef50 ---
**Author:** ![nick-youngblut](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/nick-youngblut/32/528_2.png) [@nick-youngblut](https://forum.biobakery.org/u/nick-youngblut)\ **Post date:** [June 2, 2020, 5:04pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/7 "2020-06-02T17:04:15Z")
Congrats on HUMAnN 3.0! The same goes for you PhyloPhlAn 3.0 paper. I just wanted to follow up on this. For the time being, we will still be using HUMAnN2, so it would be great to get the data fro 2014\_07 ---
**Author:** ![franzosa](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/franzosa/32/3511_2.png) [@franzosa](https://forum.biobakery.org/u/franzosa)\ **Post date:** [June 2, 2020, 5:17pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/8 "2020-06-02T17:17:02Z")
Thank you and confirmed - I haven’t forgotten. In the middle of teaching a workshop this week but will look into getting those hosted when we’re done. ---
**Author:** ![nick-youngblut](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/nick-youngblut/32/528_2.png) [@nick-youngblut](https://forum.biobakery.org/u/nick-youngblut)\ **Post date:** [June 2, 2020, 5:29pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/9 "2020-06-02T17:29:49Z")
Sounds good. Thanks for your quick reply! Good luck with the workshop! ---
**Author:** ![franzosa](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/franzosa/32/3511_2.png) [@franzosa](https://forum.biobakery.org/u/franzosa)\ **Post date:** [June 8, 2020, 7:23pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/10 "2020-06-08T19:23:02Z")
@nick-youngblut As promised (if late) here are the FASTAs for UniRef90/50 v2014\_07 as used in HUMAnN 2.0: [http://huttenhower.sph.harvard.edu/humann2\_data/uniref\_201407/uniref90\_201407\_annotated.fasta.gz](http://huttenhower.sph.harvard.edu/humann2_data/uniref_201407/uniref90_201407_annotated.fasta.gz) (5.7 GB) [http://huttenhower.sph.harvard.edu/humann2\_data/uniref\_201407/uniref50\_201407\_annotated.fasta.gz](http://huttenhower.sph.harvard.edu/humann2_data/uniref_201407/uniref50_201407_annotated.fasta.gz) (2.4 GB) ---
**Author:** ![nick-youngblut](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/nick-youngblut/32/528_2.png) [@nick-youngblut](https://forum.biobakery.org/u/nick-youngblut)\ **Post date:** [June 10, 2020, 10:19am UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/11 "2020-06-10T10:19:18Z")
Thank you so much for the sequence data! ---
**Author:** ![nk77](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/nk77/32/1536_2.png) [@nk77](https://forum.biobakery.org/u/nk77)\ **Post date:** [June 29, 2022, 5:54pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/12 "2022-06-29T17:54:57Z")
Hi @franzosa , Is there any update to MetaCyc database version 19.1 to the most recent ones? Also when will the post alpha version of Humann3 be released? Thanks! ---
**Author:** ![franzosa](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/franzosa/32/3511_2.png) [@franzosa](https://forum.biobakery.org/u/franzosa)\ **Post date:** [June 29, 2022, 6:07pm UTC](https://forum.biobakery.org/t/uniref90-and-metacyc-database-versions-and-dates/458/13 "2022-06-29T18:07:16Z")
We’ve been post-alpha for a while now! 🙂 Please see the post below for details. Version 3.0.0 added MetaCyc 24.0 and it is now the default pathway set in v3.0.1. > [@Release notes for HUMAnN 3.0.0 and ChocoPhlAn 201901b](https://forum.biobakery.org/t/release-notes-for-humann-3-0-0-and-chocophlan-201901b/2544): > > Hi All - HUMAnN 3.0.0 has been out in the wild for a little while now, but I was slow in getting these release notes together. Please reply with any questions. Thanks! -Eric Introduction HUMAnN 3.0.0 is a major update to HUMAnN (ending the HUMAnN 3.0.0.alpha lineage). Users will need to update their HUMAnN software and all database files for this release. Installation instructions can be found here: [http://huttenhower.sph.harvard.edu/humann](http://huttenhower.sph.harvard.edu/humann). Database updates The ChocoPhlAn database has …