Last active
February 14, 2019 20:20
-
-
Save EpiDemos82/80bf495bf1e339c542737a6f9ef565ed to your computer and use it in GitHub Desktop.
Lab naming scheme
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Good Practices | |
| 1) It uniquely identifies the source of the sample (the location, the biological individual), or at least can be traced back to this information. | |
| 2) It is clear and cannot be confused with any other sample in the same project, lab, department, university, universe. | |
| 3) It is impossible to mis-write or mis-read. | |
| 4) It is short. | |
| -Study (2-3 letter) or code as a study number | |
| CF | |
| CAR | |
| IH | |
| -Organism (2 letter) | |
| SP - Streptococcus pneumoniae | |
| SA - Staphylococcus aureus | |
| PS - pseudomonas aeruginosa | |
| MT - Mycobacterium tuberculosis | |
| MA - Mycobacterium abscessus | |
| KP - Klebsiella pneumoniae | |
| S - sample/specimen | |
| -Type (1 letter) | |
| S - Sample/specimen | |
| P - Population | |
| I - Isolate | |
| G - gDNA | |
| -Participant Number (three numbers) | |
| 001 | |
| 002 | |
| -Isolate number (two numbers) | |
| 01 | |
| 02 | |
| 03 | |
| -Format: Study_Organism_TypeParticipant_Isolate | |
| Examples: | |
| CF_SA_G001_01 | |
| CAR_SP_G013_02 | |
| IH_PA_G999_01 | |
| #####################Save for metadata table##################### | |
| -"Sample/specimen" | |
| AN - anerior nares | |
| BLA - bronchial lavage | |
| NP - nasopharengeal | |
| IN - inguinal | |
| OP - oropharengeal | |
| SL - saliva | |
| SM - sputum | |
| UK - unknown | |
| ################################################################## |
Author
Thanks! In your opinion, should the numbering restart for each study/project?
It is a matter of your liking. The unique sample ID would be in that case the project acronym and the number. If you have a single number that is across projects , the only advantage I see is that you automatically know how many sample you have in the freezer by that number.
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
For the numbering , 999 isolates are easily reachable... I would consider at least 0001