Anopheles gambiae

PopGenBase

Tutorial

vectorbase.org

http://www.vectorbase.org/(TBA)

Main Ag PopGenBase Page

Access individual

genotype data and

chromosome images.

See distribution of

genetic polymorphism

on maps in real time.

Download pre-

generated GoogleEarth

layers for visualizing

genotype frequency and

environment.

PopGenBase Tutorial

and other documents for

data organizations and

naming conventions

[Genetic Data]

Query page

Selection

panels

Use Ctrl key

+ left mouse

button to

select multiple

items.

Default

selection is

“All”

Select species of interest.

G for An. gambiae and R for An.

arabiensis. See additional info

about abbreviations in the

“Document” section.

HTML and csv output

formats are available

Use left mouse button to

select an initial item and hit

Shift key + left mouse button

to select an end item for

choosing multiple items.

Click “Submit

Query” button to

retrieve data.

[Genetic Data]

Various query output format

HTML format

CSV formatLinks to chromosome

images.

[Genetic Data]

Chromosome Images

[Genetic Data]

Formatomatichttp://taylor0.biology.ucla.edu/~manoukis/Pub_programs/Formatomatic/N. C. Manoukis (2007) Formatomatic: a program for converting diploid allelic data between common formats for population genetic analysis

Formatomatic download location.A link is provided in Document

section as well.

Select input data format and a file

for conversion.

Select an output format and specify

output file name.

[Genetic Data]

Formatomatic

Click ‘Convert’button to initiate

conversion process.

If conversion fails, error messages gives

you a clue on how to fix the problem. In this case, output file name was not

specified, which generated an error.

Message when a conversion was

successful.

[GoogleMaps API]

Map View

Click a link on the

right panels or click a water mark to open a

pop-up window

Pop-up window will

display sample collection information

by year.

“Forms” Tab displays chromosomal form and

molecular form distribution

of An. gambiae for this collection site.

[GoogleEarth]

Layer file downloadDownload GE layer for

genotype frequency data summarized in pie charts

per site.

Currently IGBP Landcoverdata (2004) is available as

environment descriptor.

View kmz files using

GoogleEarth. If you don’t have GE installed, please download

from link provided here.

[GoogleEarth]

Layer View on GoogleEarth

Square with a green checkmark indicates a particular layer is on

view. For example, the “Species” and “Forms”layer is on view but the

“inversion 2La” layer is hidden from view.

Information window pops up when you click

the title of the layer.

Legends for the IGBP land

cover layer is displayed on top. However, this legend

can be hidden.

[Documentations]

Main Documentations Page

Formatomaticdownload link.

Table definitions, description of allowed

values and abbreviations.