Mouse Phenome Databases &
Mouse Colony Programs
Browse or search the Mouse Brain Library (MBL). The library contains
high resolutions images (3060 x 2036 pixels, 25 µm per pixel) of
individual slides, usually two per case. We are in the process of
acquiring images for more than 1500 cases, usually 8 cases per strain
cut in either the horizontal or coronal planes. All sections are
currently 30 µm-thick sections stained with cresyl violet (an analine
dye that preferentially stains RNA and DNA). Over 800 cases are now
(by Elissa Chesler and Mary-Kathleen Sullivan; updated Aug 19, 2003 by RW).
A table that allows navigation between brain slides from different
strains in the Mouse Brain Library.
Average brain weights of more than 230 types of mice. The database
can be searched and sorted. SD is the standard deviation. CV is the
coefficient of variation. Body weights are the means for our samples.
Note that sex has no effect on brain weight in the mouse. Age has a
small and inconsistent positive effect.
Brain weight, body weight, sex, age, litter size and litter parity
(when known) for a set of approximately 9674 mice of different types.
The database can be searched and sorted. Brain weights (usually after
fixation) include the medulla and paraflocculi. Unfixed brain weights
are typically 15 mg heavier. The column labeled litter is the number of
animals in the litter on the day of birth. The next column (Parity)
provides an index of the mother's age and experience, where Parity = 1
refers to animals that were in her first litter. To find a single strain
you may find it helpful to begin your entry with an equal sign, for
example enter "=C57BL/6J" to get data for ~130 of these mice.
A summary of the main results of our analysis of the retinal ganglion
cell population of over 573 mice belonging to 62 strains.
A database in tab-delimited text format on the retinal ganglion cell
population size of approximately 573 mice belonging to more than 62
distinct strains. Use a spreadsheet program to view these data. All
estimates have been reviewed and more than 146 cases have been
replicated. This database is in progress and does contain some errors
A small text-format tab-delimited database on olfactory bulb weight
for a set of approximately 400 mice used to map four bulb-specific QTLs.
Import data from this file into a spreadsheet program to view these
data. This file accompanies a paper in
Behavior Genetics by Williams and colleagues (2000).
Animal Colony Databases
MouSeek: A FileMaker Pro Colony Database
by Caleb F.
Jeff Noebels laboratory, Baylor College of Medicine
MouSeek is a FileMaker Pro relational database designed to make it easier to maintain murine colonies. Download links and other details on MouSeek are available from the user support forum at http://groups.yahoo.com/group/mouseek/
Williams Lab FileMaker Pro Colony Databases
The following four databases (which require
version 3, 4, 5 or 5.5 respectively) are used by R. Williams and colleagues. They can be used
to assemble an inexpensive but powerful relational database to help
maintain a mouse colony. Download all four files. Each file include some
of our mouse colony data so that you can see relationships among files.
If you decide to use the databases, simply delete all of our data. If you
want to test these files but do not have FileMaker Pro, you can download
a free test version at
One of the set of four related databases used to manage a mouse
colony. New litters are entered in this database. Note: many of the
sorting buttons along the top of forms need to be activated by
attaching simple scripts. Read through the FileMaker Pro manual to
learn how to do this. The process is simple. When you open these files
they may ask you to link to related files that you do not have (e.g.,
PerfusionDB). To eliminate this request simply delete the relationship
(see "Relationships..." under the File menu heading).
The cage database is used to track the history of a particular mouse
cage. This database is similar in use to the cage cards attached to
each cage in a colony.
This database tracks the position of a cage in a rack and room. Used
to track total mouse use.
A database used to follow the history of mice used for breeding.
Truett Lab FileMaker Pro Colony Databases
The first of two FileMaker Pro colony databases by Gary Truett used to
follow the history of mice used for breeding. This database contains the
records for all mice. For other details on using this file see
about using these files.
The second of two FileMaker Pro colony databases by Gary Truett used to
follow the history of mice used for breeding. This database contains
breeding records of individual dams. See
Gary's comments about using these files.
Information and Other Projects
A repository of information useful for mapping genes or QTLs. Data on
our neurogenic QTLs will be made available in Map Manager format. The
Map Manager QT files will be useful only if you have already downloaded
Map Manager QT from Ken Manly. You can obtain
Manager via FTP from Roswell Park Cancer Institute.