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GenMAPP
pathways at WikiPathways |
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The complete GenMAPP
pathway archives are now available for viewing and
editing at
WikiPathways.
In the "tradition" of
Wikipedia and other wiki platforms, WikiPathways is
intended to be an open, public space for content
editing dedicated to biological pathways,
facilitating the contribution and maintenance of
pathway information from the scientific community.
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Embryonic
stem cell differentiation |
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Interactive display of multiple time points
throughout mouse embryonic stem cell differentiation.
By viewing this data in the context of cell
cycle control, one can assess the effects of the loss
of pluripotency in the context of well characterized
cell cycle interactions. This view allows the user
to determine which time-points and genes may be critical
for this transition.
Microarray data for 11 differentiation time points and pluripotent stem cells from
Andrade et al. 2005 (collected
from
GEO).
View
step-by-step instructions for how to create this
visualization
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| Mouse
uterine pregnancy time course
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Interactive display of multiple time points in mouse
myometrium during pregnancy. The data analyzed has
two baselines, virgin non-pregnant myometrium
and mid-pregnancy myometrium. This comparison allows
the user to simultaneously examine the effects of pregnancy
as compared to non-pregnant animals and the specific
temporal effects leading up to labor through postpartum.
Microarray data
from
Salomonis
et al. 2005 Genome Biology 6:R12.16.
Supplemental data
View
step-by-step instructions for how to create this
visualization |
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| Alternative
splicing and gene expression in adult human
tissues
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An innovative way of displaying both alternative splicing
(rim color) and gene expression (center color) simultaneously, taking
advantage of GenMAPP's coloring rules. Microarray
data for all known and predicted exons for 11 adult
human tissues was used to calculate both gene
expression values and splicing scores.
Data
from
Affymetrix.
View step-by-step instructions for how to create
this visualization
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| Proteomic
and gene expression comparisons in yeast
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Simultaneous display of two different data types,
mRNA and protein ratios, from an experiment of
carbon source perturbation in Saccharomyces
cerevisiae. Microarray and mass spectromic data
were collected in parallel and for each data type,
the ratio of abundance in galactose vs. ethanol is
displayed.
Data
from
Griffin
et al. Mol Cell Proteomics 2002,
1(4):323-3336.
View step-by-step instructions for how to create
this visualization
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| SNP analysis of
human myocardial infarction
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Simultaneous display of SNPs
associated with myocardial infarction and additional
SNP parameters for genes on the pathway collected
from a public database of structure-based functional
SNP predictions.
SNP parameters from
LS-SNP.
Association data from
Tobin et al. Eur Heart J 2004, 25(6):459-467.
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| Human ESC gene
expression profiles
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Expression of human embryonic stem cell lines as
compared to the expression of 79 adult human
tissues, combined with phenotype data for
orthologous mouse genes, to determine whether or not
a particular gene was expressed at relatively high
or low levels in ESCs versus other tissues.
Microarray data from
multiple public sources, including
GEO
and
ArrayExpress.
Phenotype data from
Mouse Genome
Informatics.
View step-by-step instructions for how to create
this visualization |
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Mouse
uterine pregnancy time course |
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Global analysis of cluster groups displayed in a
composite view showing both the cluster profile and
Gene Ontology results.
Microarray data
from
Salomonis
et al. 2005 Genome Biology 6:R12.16.
Supplemental data
View step-by-step instructions for how to create
this visualization |
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Transcriptional
responses to cAMP |
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Global analysis of transcriptional responses to cAMP
treatment in S49 cells displayed in an interactive
table format.
Data from
Zambon
et al. Proc Natl Acad Sci U S A, 2005
102(24):8561-6.
View step-by-step instructions for how to create
this visualization |
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| External
Resources
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International
Gene Trap Consortium (IGTC)
The IGTC uses GenMAPP pathways as one of the
ways to display available knock-out mESC lines
available, using the MAPP Set Export feature in
GenMAPP.
View step-by-step instructions for how to create
this visualization
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