Venn diagrams showing the common genes in CF, CF associated genes and Liver Disease (OMIM).

<p>24 genes were found in common in CF, CF associated genes and Liver Disease.</p

Workflow of the study.

<p>Common genes in CF, PI and Liver Disease were retrieved from OMIM, CTD and HuGE. Candidate genes were also retrieved from published works (PubMed) and datasets were re-analyzed in GEO. Potential modifier genes from the 3 different origins were compared and analyzed to search for pathways and protein-protein interactions.</p

Dealing with missing phase and missing data in phylogeny-based analysis-2

Ation method (in red) or the most likely haplotypes obtained with ZAPLO (in black). Colored bars: the best site (with the highest ) is neither DR nor locus C. Empty bars: sum of two error rates, error on the best site and error on the second best site only (i.e., the site with the highest Vis either locus C or DR, but the site with the second highest is neither locus C nor DR).<p><b>Copyright information:</b></p><p>Taken from "Dealing with missing phase and missing data in phylogeny-based analysis"</p><p>http://www.biomedcentral.com/1753-6561/1/S1/S22</p><p>BMC Proceedings 2007;1(Suppl 1):S22-S22.</p><p>Published online 18 Dec 2007</p><p>PMCID:PMC2367603.</p><p></p

Genes involved in CF, Chronic Pancreatitis and Liver Disease.

<p>Common genes present in our re-analyzed data of the GEO database and in our bibliographic analysis. Common genes in CF and in pancreatic and in liver affections are underlined.</p

PPI networks association of the new potential modifier genes.

<p>The recent 10.0 version of STRING (High confidence ≥ 0.7) was used to search for PPI. <b>A.</b> PPI between proteins encoded by IFI16, CCNE2 and IGFBP2 (CF candidates). We observed that CFTR and IFI16 have a common partner: UBC. <b>B.</b> Interactions involving the proteins encoded by common genes in CF and <i>Chronic Pancreatitis</i> (EPHX1, HLA-DQA1 -DQB1, DSP and CFTR). EPHX1, DSP and CFTR were found to be linked by UBC. <b>C.</b> Networks formed by the proteins encoded by the genes found in CF in link to Liver Disease (SLC33A1, GPNMB, NCF2, RASGRP1, LGALS3 and PTPN13). SLC33A1 forms a protein complex together with CFTR, with UBC as an intermediate. <b>D.</b> Network formed by the proteins encoded by the genes involved in CF, in CF plus Chronic Pancreatitis and in CF plus Liver Disease, which were found in a network linked to the CFTR protein. UBC was observed as a central node. UBC is likely a key component in CF physiopathology. The proteins used in the search tool are marked by a red arrow.</p

Retrieved differentially expressed genes in CF (adapted from [31]).

<p>The lower part of the table shows genes shared between two or more studies when all six studies are combined. Common genes in at least three studies are underlined.</p

Venn diagrams of the HuGE Navigator database search.

<p>Common genes in PI, CF and Liver Disease were CFTR, SPINK1, GSTP1, PRSS1, ADRB2, GSTM1, GSTT1, HRAS, MIF, OGG1 and TNF. (score > 5).</p

Combined differentially expressed genes in Chronic Pancreatitis [43, 44].

<p>Some genes were withdrawn according to the reasons explained in Methods. OMIM ID and full names were searched for each gene. 23 genes were found to be decreased and 229 genes were found to be increased in Chronic Pancreatitis (p<0.05).</p

Associated pathways with the retrieved potential modifiers in CF, in CF and Chronic Pancreatitis and in CF and Liver Disease.

<p>Common pathways are underlined.</p

Retrieved differentially expressed genes in Chronic Pancreatitis (from [43]).

<p>Some genes were withdrawn according to the reasons explained in Methods.</p