Universial Gene List Manager Panel
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1. Introduction
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The information is stored in a
centralized place so that any DAVID tools can cross-access them. Users
do not need to re-submit the same gene list for different DAVID Tools.
Therefore, the List Manager Panel is centralized and universial for all
DAVID tools.
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2. Upload Tab
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Gene List Format: You can either
load a gene list from a file or paste a gene list to the text box.
DAVID was designed to accept the data starting from the first row
without hearder (i.e. accession). The gene list has to be in a format
of one gene in one row and only the first column is considered in the
analysis. DAVID is case insensitive for all the accessions/IDs. Since
DAVID list manager is centrilized, the format requirement to submit a
gene list are the same for ALL DAVID tools. In addition, the submitted
gene lists could be used as customized background genes in the
enrichment analysis based on your choice at step 3. The indication of a
successful submission is that you should see the corresponding gene
lists listed by list tab or background tab. Moreover, an expected gene
# should also associated with the gene lists.
About Step 3: Gene List
means the submitted genes are for annotation analysis. Usually they are
users' interesting genes selected from experiment, e.g. genes with
significant fold changes in an Affy array experiment. The gene list
submitted as Gene List will show up in List Tab; Background means the submitted genes
as a cutomized gene background are for enrichment background
calculation purpose. This feature only is useful when all pre-built
backgrounds in DAVID are not satisfied with users' particular
purpose.Please read more how
to use customized background. The gene list submitted as background
will show up in Background Tab.
What are the demo_list 1 and
demo_list 2? Demo_list 1 & 2 from our published Affy microarray studies
are
pre-built gene lists for new users to easily get into and test DAVID
functions.
An
example:
Copy/paste IDs to "box A" ->
Select Identifier as "Affy_ID" ->
List Type as "Gene
List" -> Click "Submit" button
1007_s_at
1053_at
117_at
121_at
1255_g_at
1294_at
1316_at
1320_at
1405_i_at
1431_at
1438_at
1487_at
1494_f_at
1598_g_at
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3. List Tab
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Gene-Species
Mapping Manager(top box):
After
selecting a gene list from List Manager (bottom), this box specifically generates a summary
of gene-species mapping. If the gene list contains multiple
species, users can define one or multiple gene-species groups to
analyze together/separately.
List Manager (bottom box):
Uers are
allowed to input multiple gene list in one web session.
Each gene input gene list is remembered and listed in this box. By
default, the last input gene list is the current list being
selected and to be analyzed.
Special Note:
Clicking <<Use>>
and <<Select>>
buttons are required in order to make according switches.
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4. Background Tab
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Background
Tab allows you to manage different
background for enrichment analysis
Last edited: Jan. 2007
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