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Infection causes extensive destruction of T-helper cells, macrophages, dendritic cells and other cellular components associated with cell-mediated immunity, eventually leading to AIDS [1, 2].
This analysis showed enrichment for both Biological Processes and Cellular Components associated with photosynthesis.
Furthermore, cellular components associated with the vacuole were over-represented, indicating the important role of the vacuole in the Fe-deficiency response.
A statistical approach using gene annotation enrichment analysis (DAVID) was carried out, together with an extensive analysis of the literature, to elucidate the biological processes, molecular functions and cellular components associated with sleep and wake in astrocytes (Fig. 4, Additional file 5: Table S5 and Additional file 6: Table S6).
When we determined the cellular components associated with these genes using the gene ontology (GO) (Ashburner et al. 2000), the genes preferentially expressed in neurons (NEX) are enriched in GO groups that are "specific" for neurons, such as the groups "axons," "synaptic vesicle membrane," and "post synaptic membrane" (table 1).
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GO terms ("biological process", "molecular function" and "cellular component") associated with all retained Ensembl genes as well as their fish, rat, mouse and human orthologs were extracted using the Ensembl BioMart (Ensembl version 52) and associated with the corresponding trout clones.
For example, for Drosophila melanogaster, approximately 28% of the 14,029 predicted genes have no Gene Ontology (GO) term (either Molecular Function, Biological Process and/or Cellular Component) associated with them (including both curated and electronic annotations) and only 58% have a GO‐BP (Biological Process) term [ 1].
They were defined by Pike [5] as 'small (10 200 nm), heterogeneous, highly dynamic, sterol- and sphingolipid-enriched domains that compartmentalise cellular processes.' Components associated with lipid rafts have (controversially) been identified by their insolubility in detergents, and the association of these regions with the accumulation of raft-associated proteins [6].
Several significantly induced GO terms representing cellular components were associated with plastids and membranes for both affected inner and outer cortex.
In this experiment, biological processes, molecular functions, and cellular components were associated with 20,990 unigenes, 22,866 unigenes, and 9,961 unigenes, respectively (Additional file 2).
Enrichment analysis revealed overrepresented biological process terms associated with skeletal muscle regeneration, cell differentiation, chemotaxis and the bacteria-induced defense response, molecular function terms associated with chemokine activity and heparin binding, and one cellular component term associated with the myosin complex, as first identified at 14 days PI.
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