Supplementary MaterialsS1 Fig: Predictive values (in Bayesian log chances) versus human genome coverage for each mammalian data set available in CilDBv2

Supplementary MaterialsS1 Fig: Predictive values (in Bayesian log chances) versus human genome coverage for each mammalian data set available in CilDBv2. with Dutogliptin the curve of the classifier trained with the full set (black). The similarity of the distributions of the negative and positive sets for each fold validation indicates that the results are very robust.(PDF) pone.0216705.s002.pdf (124K) GUID:?25B3B125-D878-422F-B524-3155902393BB S3 Fig: Images showing dye uptake in null mutant strains for DMD, MAGI2 and OSCP1. Dye uptake in wild type is provided for comparison.(PDF) pone.0216705.s003.pdf (183K) GUID:?9209C52C-C063-4CB3-B575-EB1E2F201569 S4 Fig: Localization of nine eCFP fusion constructs of candidate genes in hTERT-RPE1 cells. Per eCFP fusion protein two representative photos are taken, made up of at least one ciliated cell from the same slide. Cells transfected for c15orf22::eCFP and c16orf80 ciliated only when expression of the eCFP fusion protein was low. Exposure times used to image the eCFP protein are shown above each panel. For all those constructs, except IQCA, ciliary and/or basal body localization Dutogliptin could be observed with optical sectioning using structured illumination under normal exposure times (100ms-3000ms). Images with digitally increased gamma are shown for IQCA1::eCFP, demonstrating absence of eCFP fusion protein in and around the cilium. Poly glutamylated tubulin (red) is used to color the ciliary axoneme.(PDF) pone.0216705.s004.pdf (17M) GUID:?1A8647BF-6B09-4B59-98DE-4D5852EB0497 S5 Fig: Localization of OSCP-1::GFP fusion in amphid and phasmid cilia. a) OSCP-1 localization is not altered in worms with disrupted ciliary transition zones. Shown are phasmid cilia of worms expressing GFP-tagged OSCP-1 and XBX-1::tdTomato Dutogliptin (ciliary marker). Scale bar; 5 m. b) The ciliary transition zone is intact in mutant worms. Shown are images of phasmid cilia of worms expressing markers for transition zone proteins (MKS-5, NPHP-4 and MKS-2), the periciliary membrane (TRAM-1; normally excluded from the ciliary membrane), and the ciliary axoneme (DYF-11 and CHE-11). NPHP-4, MKS-2 and MKS-5 localizations are unaffected in worms, indicating that the composition of the transition zone is not dramatically affected. TRAM-1 remains excluded from the ciliary membrane of mutant indicating the membrane diffusion barrier at the transition zone membrane is usually intact. The ciliary axoneme markers (see also XBX-1 marker in the top panels) show that phasmid cilia are assembled and of grossly normal duration in mutant worms. Size club; 5 m.(PDF) pone.0216705.s005.pdf (938K) GUID:?CF863291-F6D0-4F9F-A6CF-C94591A42140 S6 Fig: Localization of OSCP1 in ciliated murine ATDC5 and IMCD3 cells using three different antibodies. Size club; 5 m.(PDF) pone.0216705.s006.pdf (6.0M) GUID:?5FB96A9E-FC74-4ABB-8B76-B945F10E66D0 S7 Fig: zebrafish morpholino phenotypes. Zebrafish solid oscp1 mo phenotype: brief body, small eyesight, apparent pronephric cyst advancement, and obvious center edemas. Zebrafish weakened oscp1 mo phenotype: brief body, small eyesight, small heads, Dutogliptin but simply no obvious pronephric heart or cyst edemas.(TIF) pone.0216705.s007.tif (5.7M) GUID:?6DD7D43B-4B18-4C80-AA34-B3B6CBE750B7 S8 Fig: Venn diagram showing the overlaps of the average person components of the CiliaCarta resources. GO, the SYSCILIA Gold Standard Rabbit Polyclonal to RHOB (SCGS), and the top predictions of our Bayesian integration. Surface size of each Dutogliptin circle and overlap corresponds to the size of the set enclosed.(PDF) pone.0216705.s008.pdf (102K) GUID:?D0A3E679-DD09-442B-96D8-510CA2B101BB S9 Fig: Ultrastructure of amphid channel cilia in mutant. Shown are transmission electron microscopy (TEM) serial cross-section images of wild-type and amphid channel cilia. Like wild type controls (N2 worms), the amphid channels of mutants contain a full complement of 10 ciliary axonemes, each demonstrating intact distal segment (DS; singlet A-tubules), middle segment (MS; doublet A/B tubules), transition zone (TZ; with Y-links), and periciliary membrane (PCMC; swelling at distal dendrite ending immediately proximal to the ciliary axoneme) compartments. Also, the integrity of the ciliary membranes and microtubules were normal in worms. Schematics show the amphid channel in cross section and longitudinal orientations (only 3 axonemes shown for simplicity in longitudinal cartoon). Numbers above images indicate the position of the section relative to the most anterior section (at 0); section positions also indicated in schematic by arrows. Scale bars; 200 nm.(PDF) pone.0216705.s009.pdf (1.8M) GUID:?D8D975B0-176E-4FF1-B120-BD79FD239839 S10 Fig: Pairwise correlations of CiliaCarta datasets. a) Pairwise correlations between data sets according to the positive training set. b).