Dec 31,2023 — Added Emoji to Suggestions Taxon to improve clarity on the list (See above)
Dec 27-31,2023 — Fixed some sign reversals for impact on parent and child bacteria. The logic used could produce the wrong sign (i.e. minor increases when minor decrease was intended)
This impacts some suggestions, in some cases major impacts.
The adding Emoji above exposed the issue.
Dec 1,2023 — Update the Taxonomy Hierarchy and Names to the latest NCBI Standards.
This may cause some suggestions to move up or down
Nov 1,2023 — started to purge stale and unused tables and code. Minor breakages are expected.
Oct, 2023 — Updated Processing of Kaltoft-Moldrup ranges with tuning.
April 11th, Updated Modifiers inferred from Bacteria Association
April 9th, Updated Bacteria Association data (3 hours of computations)
April 7th, added impact of modifiers on PubMed Medical conditions, Video
April 5th, add percentage vs percentile to Multiple Samples compare Video
April 3rd, added detection of likely bacteria causing microbiome dysfunction Video.
April 1st, added finding antibiotics for treating multiple bacteria issues with ability to see which would have the best side effects. Video
March 30, added “Just give me the suggestions” – a dumb down fast way to get suggestions. The items listed are partially based on the amount of information we have on each substance.
There has also been de-duplication of some items that are apparent contradictions. The one with more information was usually selected. Video
March 20, fixed bug entering symptoms when symptoms were entered for a prior sample.
March 19, Automatic removal of specific probiotic species suggested when the sample has a percentile over 70%ile.
March 4, Cleaned Citations removing duplicate facts, restructured to prevent future duplications
March 2, Add Food button to Bacteria Look Up
Feb 19, Added new filter buttons to Modifier Page.
Feb 20 – Dropped parent and child extrapolated suggestions when there was 3 or more direct studies. Removed inferred parent suggestions for Phylum and Class taxa ranks.
Feb 5th, Some percentiles on Health Analysis / Potential Medical Conditions Detected were incorrect The cause only impacted a few of them but was exposed when doing a blog post.
Feb 3rd, Add Unhealthy Aging Microbiome to Medical Conditions, see Microbiome and Age
Jan 16 Updates Percentile Tables, triage backend issues with updates.
Jan 15 Fixed issue of incorrect Percentile being assigned showing when a value higher than all previous values is found
Jan 8 Changed default ordering on several pages to be easier to use
Where the new page is – this uses the symptoms entered with the sample’s enzymes computations
April 22, Added Probiotics for Symptoms based on KEGG Enzymes (not sample specific – generic), see this post
Apr 4-21 Implemented Categoric Logistic Regression to Symptoms for:
Bacteria (Taxonomy)
Compounds estimated from KEGG
Enzymes estimated from KEGG
LocationThe page show the odds for increasing or decreasing by over 1690 different significant factors
April 3, Refactor KEGG Probiotic Suggestions, see post.
April 2, Added/Update Bacteria Healthy ranges on per bacteria basis. The computed ranges are linked to pages explaining the method
Example from https://microbiomeprescription.com/library/details?taxon=1578
April 1, Implement periodic update from NCBI on new bacteria (on 21st of each month). Today, there was 2,419,768 different bacteria classified and assigned NCBI numbers
Mar 27,investigate odd Kaltoft-Moldrup ranges. Discovered typo in formula, running tests and recalculations.
Mar 26, Change all distribution charts to real time (Taxon broke for a short while — now fixed)
Feb 12, implemented Display Levels to allow people to better handle information overload.
February — rework the KEGG data to estimate species from existing strain information
Jan 19, Added links to Bacteria Details from Researched Probiotics Page
Jan 17, added Kegg Detail pages (for bacteria in KEGG)
Jan 15, Fixed bacteria selection bug on GMRepro page
January – onwards. Move periodic updates to a dedicated machine (16 GB memory, SSD Drive, 8 processors) and proceeding to replace old adhoc code with consistent new code. as well as improve performance. (The first complete update run of the old code was over 72 hrs, this has been greatly reduced). Work is still ongoing (mainly catching issues)
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