Barrick lab strains are stored in a MySQL database (accessible after log in).
column
example
description
strain
REL
Initials of strain designation
number
606
Number of strain designation
freezer
Barrick 1
Freezer where sample is located. Choose from list.
rack
Barrick 3
Rack where sample is located. Should be in format: [last name] [number]
box
Barrick 4
Rack where sample is located. Should be in format: [last name] [number]
container
2 ml glass vial
Type of container used to freeze sample. Choose from list.
well
Well number for samples frozen in microplates.
experiment
LTEE
Sample experiment. Choose from list.
population
Sample population in experiment.)
time
0
Sample time point in experiment.
M/C
C
Mixed population or Clone sample
clone
Designation of particular clone. Either a number or a letter.
description
Ara– ancestor clone used to begin the long-term experiment.
Full description of the strain. Include information about what strain it is derived from and whether this sample has been subcultured from different samples.
media
DM1000
Media strain was grown in for freezing.
cryoprotectant
Glycerol
Choose from list.
source
REL
Stock center or other lab strain is from.
frozen
2002-08-17
Date when sample was frozen.
Important Points
In population names, use the minus sign "–" character, rather than a hyphen "-" (option-hyphen on Mac). These must be entered consistently for searching to work.
e.g. Ara–3 NOT Ara-3
Backing up the database
Periodically and before doing any complex SQL operations, backup the database.
In phpMyAdmin, select the "strain" table from the "lab" database. Then click on "Operations". In the "Copy table to" box select the "backup" database and name the new table "strain_YYYY_MM_DD", e.g. "strain_2011-05-31". Be sure the "structure and data" button is selected. Hit "go".
Batch Editing
You can use MySQL commands by clicking on the SQL tab in phpMyAdmin.
Set up a SELECT statement that retrieves the items you want to change.
SELECT *
FROM `strain_5-31-11`
WHERE `strain` LIKE 'JEB'
AND `number` >=622
AND `number` <=702
AND `freezer` = 'Barrick 1'
Deleted:
< <
LIMIT 0 , 50
If you need to change multiple items at once use the following UPDATE statement.
UPDATE `strain`
SET `rack` = 'Barrick 1', `box` = 'Barrick 3'
WHERE `strain` LIKE 'JEB'
AND `number` >=622
AND `number` <=702
AND `freezer` = 'Barrick 1'
