Data from: Looking at cerebellar malformations through text-mined interactomes of mice and humans

We have generated and made publicly available two very large networks of
molecular interactions: 49,493 mouse-specific and 52,518 human-specific
interactions. These networks were generated through automated analysis of
368,331 full-text research articles and 8,039,972 article abstracts from
the PubMed database, using the GeneWays system. Our networks cover a wide
spectrum of molecular interactions, such as bind, phosphorylate,
glycosylate, and activate; 207 of these interaction types occur more than
1,000 times in our unfiltered, multi-species data set. Because mouse and
human genes are linked through an orthological relationship, human and
mouse networks are amenable to straightforward, joint computational
analysis. Using our newly generated networks and known associations
between mouse genes and cerebellar malformation phenotypes, we predicted a
number of new associations between genes and five cerebellar phenotypes
(small cerebellum, absent cerebellum, cerebellar degeneration, abnormal
foliation, and abnormal vermis). Using a battery of statistical tests, we
showed that genes that are associated with cerebellar phenotypes tend to
form compact network clusters. Further, we observed that cerebellar
malformation phenotypes tend to be associated with highly connected genes.
This tendency was stronger for developmental phenotypes and weaker for
cerebellar degeneration.