Microarray analysis of transcripts with elevated expression in the rat medial or lateral habenula

Full article is available in "Brain Structure and Function":http://link.springer.com/article/10.1007/s00429-016-1195-zby Franziska Wagner, René Bernard, Christian Derst, Leon French and Rüdiger W. Veh.In vertebrates the “anti-reward-system” mainly is represented by the habenula and its medial (MHb) and especially lateral (LHb) complexes. So far, considerable knowledge has accumulated especially concerning subnuclear structures and the connectivities of MHb and LHb subnuclei. The present investigation aimed to obtain novel information, whether MHb or LHb or their subnuclei display characteristic gene products, which may shed more light on biological functions of these areas. Using microarray analysis of mRNAs expressed in microdissected habenular and thalamic control areas yielded expression values of 17,745 RNAs representing protein-coding genes, to which annotated gene names could be assigned. High relative values of genes with known expression in MHb, LHb or thalamus in the corresponding areas indicated a high precision of the microdissection procedure. <strong>File descriptions</strong> Supplemental Table 1: Expression matrix with gene symbols and normalized values for each ref-seq probe. Supplemental Table 2: The first 100 transcripts with the highest absolute expression in MHb and LHb.Supplemental Table 3: Transcripts with enhanced expression in the lateral habenula as compared to the thalamus (FDR &lt; 0.05 and fold change &gt; 1.5). A “+” in column J or K indicates that this gene also is included in the indicated table and correspondingly depicted in the intersections of Figure 1. Gene ontology biological process terms are listed in the last column.Supplemental Table 4: Transcripts with enhanced expression in the lateral habenula as compared to the thalamus (FDR &lt; 0.2 and fold change &gt; 1.5). A “+” in column J or K indicates that this gene also is included in the indicated table and correspondingly depicted in the intersections of Figure 1. Gene ontology biological process terms are listed in the last column.<br>Supplemental Table 5: Genes deferentially expressed between medial and the lateral habenula (FDR &lt; 0.05 and absolute fold change &gt; 1.5). A “+” in column J or K indicates that this gene also is included in the indicated table and correspondingly depicted in the intersections of Figure 1. Gene ontology biological process terms are listed in the last column.<br>Supplemental Table 6: Gene ontology term enrichment results (six sheets in one table). These results were computed by ErmineJ. Gene Ontology files were downloaded on June 2015. Enrichment was tested on genes that had a corrected p &lt; 0.05 for each direction of change. Except for the LHb-Thal comparisons due to a limited number of genes that pass FDR &lt; 0.05. For these LHb-Thal comparisons the area under the receiver operating curve enrichment (AROC) method was applied.