Ioannis Nellas
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View article: The NFIA-ETO2 fusion blocks erythroid maturation and induces pure erythroid leukemia in cooperation with mutant TP53
The NFIA-ETO2 fusion blocks erythroid maturation and induces pure erythroid leukemia in cooperation with mutant TP53 Open
The NFIA-ETO2 fusion is the product of a t(1;16)(p31;q24) chromosomal translocation so far exclusively found in pediatric patients with pure erythroid leukemia (PEL). To address the role for the pathogenesis of the disease, we expressed th…
View article: Hedgehog signaling can enhance glycolytic <scp>ATP</scp> production in the <i>Drosophila</i> wing disc
Hedgehog signaling can enhance glycolytic <span>ATP</span> production in the <i>Drosophila</i> wing disc Open
Adenosine triphosphate (ATP) production and utilization is critically important for animal development. How these processes are regulated in space and time during tissue growth remains largely unclear. We used a FRET-based sensor to dynami…
View article: Hedgehog signaling can enhance glycolytic ATP production in the <i>Drosophila</i> wing disc
Hedgehog signaling can enhance glycolytic ATP production in the <i>Drosophila</i> wing disc Open
Energy production and utilization is critically important for animal development and growth. How it is regulated in space and time during tissue growth remains largely unclear. Toward this end, we used a FRET-based adenosine triphosphate (…
View article: Glycolysis regulates Hedgehog signalling via the plasma membrane potential
Glycolysis regulates Hedgehog signalling via the plasma membrane potential Open
Changes in cell metabolism and plasma membrane potential have been linked to shifts between tissue growth and differentiation, and to developmental patterning. How such changes mediate these effects is poorly understood. Here, we use the d…
View article: Transformation Mechanisms of the Nfia-ETO2 Fusion Gene Associated with Pediatric Pure Acute Erythroleukemia
Transformation Mechanisms of the Nfia-ETO2 Fusion Gene Associated with Pediatric Pure Acute Erythroleukemia Open
Pure erythroleukemia (PEL) is a very aggressive, but poorly understood form of acute myeloid leukemia characterized by malignant accumulation of erythroid progenitor cells. A novel t(1;16)(p31;q24) chromosomal translocation leading to expr…
View article: Additional file 9: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 9: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S8. Tabulation of 10,744 orthologous genes between Bombyx mori and Drosophila melanogaster. Data was integrated from OrthoDB [107], g:Orth [40], OrthoMCL [108] and manually curated, literature-based data. The final dataset was enrich…
View article: Additional file 7: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 7: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S7. Tabulation of 650 loci of Bombyx mori genone whose transcript abundance in PG cells was used to determine the genes expressed in these cells. Data from Bowtie2 (column F and G) [27, 28] and Cufflinks (column D and E) was integrat…
View article: Additional file 13: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 13: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S12. Tabulation of 76 gene models that were down-regulated by PTTH and 173 gene models that were up-regulated by PTTH based on data from [4]. Data derived from [4] was annotated using the nomenclature of KAIKObase ( http://sgp.dna.af…
View article: Additional file 24: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 24: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S18. Integration of Bombyx mori plasma membrane receptor expression data in PG cells with RNA-seq data from Drosophila melanogaster orthologous genes. Our previous analysis results of plasma membrane receptors expressed in PG cells […
View article: Additional file 6: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 6: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S6. Tabulation of 98 unique differentially spliced loci based on the TransDecoder and Cufflinks output. Data from Additional file 5: Table S5 was manually annotated to filter out duplicate entries based on locus and protein sequence.…
View article: Additional file 22: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 22: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Figure S5. Circos plot comparing the expression profiles of Halloween genes and other ecdysteroidogenesis-related genes during the final larval instar and the first day of the pupal stage of Bm. Percentage values are related to CΤ values …
View article: Additional file 1: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 1: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S1. Tabulation of 61,260 tests carried out by Cufflinks on the raw transcriptomic data. In cases where a gene model was included between the examined locus, this is indicated using the nomenclature of KAIKObase ( http://sgp.dna.affrc…
View article: Additional file 25: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 25: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S19. Checklist of compliance with the MIQE guidelines [127]. (XLSX 17 kb)
View article: Additional file 11: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 11: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S10. Tabulation of 272 PG-specifc gene models using the nomenclature of KAIKObase ( http://sgp.dna.affrc.go.jp/KAIKObase/ ). Data included in this table is shortlisted from Additional file 10: Table S9 and used in Fig. 2b and c (see …
View article: Additional file 3: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 3: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S3. Tabulation of 16,550 unique loci based on the TransDecoder and Cufflinks output. Data from Additional file 2: Table S2 was manually annotated to filter out duplicate entries based on locus and protein sequence. Columns E to H are…
View article: Additional file 26: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 26: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S20. List of primers used to determine transcript abundance of the 650 genes shown in Additional file 7: Table S7. (XLSX 94 kb)
View article: Additional file 16: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 16: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S15. Tabulation of 1894 gene models, using the nomenclature of KAIKObase ( http://sgp.dna.affrc.go.jp/KAIKObase/ ), whose Drosophila melanogaster orthologues had an obvious phenotype (column AT) when silenced by RG-specific RNAi. Dat…
View article: Additional file 4: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 4: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S4. Tabulation of 51,035 tests carried out by Cufflinks to identify splicing events that lead to differential gene expression in Bombyx mori PGs between V-0 and V-6 of the 5th instar. In cases where a gene model was included between …
View article: Additional file 15: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 15: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S14. Tabulation of 350 loci with >â 1,000,000 short reads per locus based on the Cufflinks output. Data from Additional file 3: Table S3 with the indication HIDATA (column I) is shown. In cases where a gene model was included between…
View article: Additional file 10: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 10: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S9. Analysis of RNA-seq data from PGs and Br-CC-CA at the wandering stage of Bombyx mori using PANDORA [39]. RNA-seq data was downloaded from DDBJ Sequence Read Archive (Accession number: DRA002282) [29, 30] and analysed to identify …
View article: Additional file 12: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 12: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S11. Tabulation of 1617 data points used to construct Fig. 2b. Data was derived from [4, 27â 32] (see text for details). (XLSX 647 kb)
View article: Additional file 20: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 20: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S17. Cytochrome P450 genes of Bombyx mori. Annotation for each gene was enriched with data from [27, 28]. The sequence of each protein used to construct the posterior probability tree (Additional file 21: Figure S4.) is shown in colu…
View article: Additional file 14: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 14: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S13. Integration of Bombyx mori orthologues with the Drosophila melanogaster RG-specific genes affected by RasV12 or Torso-RNAi phenotypes as described [4]. The data shown in the table corresponds to data presented on Fig. 5i and j o…
View article: Additional file 17: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 17: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S16. Adenylate cyclases, phosphodiesterases, protein kinases C and phospholipases C of Bombyx mori and Drosophila melanogaster. Annotation for each gene was enriched with data from [4, 27â 32]. The sequence of each protein used to co…
View article: Additional file 5: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 5: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S5. Tabulation of the 231 differentially spliced loci identified by Cufflinks in Bombyx mori PGs between V-0 and V-6 of the 5th instar. In cases where a gene model was included between the test ID coordinates (Column C), this is indi…
View article: Additional file 2: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands
Additional file 2: of Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands Open
Table S2. Tabulation of 43,242 tests carried out by TransDecoder on the Cufflinks output. TransDecoder settings were adjusted to filter out ORFs encoding