EMBO/SourceData huggingface dataset:
Figure legend: "(C,D) Normalized gene expression levels (read count normalized for each cell, log2) in different tissues, from the scRNA-seq experiment, for a TATA group gene, and a highly paused group gene, are shown. (C) The TATA gene, Ccp84Aa, shows noisy expression in the epidermis, without detectable background expression in non-expressing tissues. (D) The highly paused gene, Gip, shows very robust expression in crystal cells, but has high background expression in the non-expressing tissues."
NCBI gene IDs:
"Ccp84Aa: 40825
Gip: 31960"
Figure legend: "C, D) ATAC-seq chromatin accessibility was measured in different tissues isolated from 14-17 h embryos using INTACT. (C) Read-count normalized ATAC (RPM) signal at individual genes from the TATA group (Ccp84Aa) and highly paused gene group (ect) are shown. (D) Read-count normalized ATAC signals (RPM) from different tissues were calculated for each gene from 150 bp upstream of the TSS to the TSS. Paused genes show higher average accessibility across all tissues compared to the TATA genes (Wilcoxon two-sided test, *P &lt;2.2*10-16)."
NCBI gene IDs:
"Ccp84Aa: 40825
ect: 44135"
Figure legend: "B N-terminally GFP-tagged 50Q was checked for its autophagic degradation in indicated yeast cells by GFP processing assays after 1, 4 and 16 h starvation. Yeast cells with ATG1 deletion were used as positive controls."
NCBI gene IDs:
"ATG1: 852695"
Figure legend: "H Vacuole localization and degradation of endocytosis substrate GFP-Sna3 in WT, atg1∆ and rpb9∆ cells. Scale bars: 5 μm."
NCBI gene IDs:
"atg1: 852695
rpb9: 852810"
Figure legend: "I Carboxypeptidases Y (Cpy1), a vacuolar-resident hydrolases, was analyzed for its transporting to vacuoles by the secretory pathway in WT, atg1∆ and rpb9∆ cells."
NCBI gene IDs:
"atg1: 852695
rpb9: 852810"
Figure legend: "E-I Overexpression of ATG1 could partially restore autophagy in rpb9∆ cells. ATG1, ATG9, ATG13, ATG17 and ATG5 were overexpressed in rpb9∆ yeast cells, GFP-50Q was checked for its autophagic degradation by GFP processing assays after 1, 4 and 16 h starvation."
NCBI gene IDs:
"ATG1: 852695
ATG13: 856315
ATG17: 851142
ATG5: 855954
ATG9: 851406
rpb9: 852810"
Figure legend: "B Indicated Rpb9 truncates and mutants were expressed in rpb9∆ cells and autophagic degradation of GFP-50Q was checked by GFP-processing assays."
NCBI gene IDs:
"Rpb9: 852810
rpb9: 852810"
Figure legend: "F-G Neither overexpression of Gcn4 in rpb9∆ yeast cells nor overexpression of Rpb9 in gcn4∆ yeast cells can restore autophagy. Gcn4 or Rpb9 were overexpressed in rpb9∆ or gcn4∆ yeast cells respectively and autophagic degradation of GFP-50Q was detected."
NCBI gene IDs:
"Gcn4: 856709
gcn4: 856709
rpb9: 852810
Rpb9: 852810"
Figure legend: "C Rpb9 orthologs from complex eukaryotic species could restore autophagy in rpb9∆ yeast cells. Indicated Rpb9 orthologs were expressed in rpb9∆ yeast cells and autophagic degradation of GFP-50Q was detected."
NCBI gene IDs:
"Rpb9: 69920
Rpb9: 5438
rpb9: 852810"
Figure legend: "D N-terminal Zinc finger domain and linker region of Rpb9 orthologs from different species could restore autophagy defects in rpb9∆ yeast cells. Indicated truncates of Rpb9 orthologs were expressed in rpb9∆ yeast cells and autophagic degradation of GFP-50Q was detected."
NCBI gene IDs:
"Rpb9: 69920
Rpb9: 5438
rpb9: 852810"
Figure legend: "A. Representative plots of splenocytes from CD45.1 mice adoptively transferred with CD45.2 OT-II WT or CCR5-/- lymph node cell suspensions, five weeks after infection with rVACV-OVA virus. The gating strategy used to identify the memory CD4+ T cell subtypes is shown (n = 5)."
NCBI gene IDs:
"CCR5: 12774
OVA: 396058
CD45.1: 19265
CD45.2: 19265"
Figure legend: "C, Percentage of CD4+ TEM (C) in the OT-II WT and CCR5-/- populations (n = 5)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "D. Percentage of TCM (D) in the OT-II WT and CCR5-/- populations (n = 5)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "E. IFNγ-producing OT-II WT and CCR5-/- memory cells isolated from mice as in A and restimulated ex vivo with OVA323-339 (1 μM) (n = 4)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "A, Representative histograms and quantification of mean fluorescence intensity (MFI; A) in OT-II WT and CCR5‑/‑ lymphoblasts expanded in IL-2 or IL-15, as specified. Data shown as mean ± SEM (n ≥3)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "B. the percentage of cells positive for the indicated memory markers (B) in OT-II WT and CCR5‑/‑ lymphoblasts expanded in IL-2 or IL-15, as specified. Data shown as mean ± SEM (n ≥3)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "A-C. Analysis of TCR nanoclustering by EM in OT-II WT and CCR5-/- naïve cells (A; n = 6 cells/genotype; WT: 3427, CCR5-/-: 3528 particles), and IL-2- (B; WT, n = 8 cells, 15419 particles; CCR5-/-, n = 6 cells, 5410 particles) or IL-15-expanded lymphoblasts (C; WT, n = 8 cells, 27518 particles; CCR5-/-, n = 7 cells, 22696 particles). A representative small field image at the top of each panel shows gold particle distribution in the cell surface replicas of anti-CD3ε-labeled cells; at bottom, quantification (mean ± SEM) of gold particles in clusters of indicated size in WT (gray bars) and CCR5-/- cells (red). Insets show the distribution of clusters of one, two, three, four, or more than four particles, and statistical analysis."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "D, E. Posterior distribution in naïve (D) and IL-2-expanded lymphoblasts (E) of the clustering parameter b for WT (gray) and CCR5-/- cells (red); randomly generated distributions of receptors are shown in blue. The mean value of the b parameter is indicated for each condition. The probability of a chance distribution similar to that determined in cells is nearly 0% by the ROPE."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "F. Comparison of TCR oligomer size using BN-PAGE and anti-CD3ζ immunoblotting in day 10, IL-2-expanded WT and CCR5-/- OT-II lymphoblasts lysed in buffer containing digitonin or Brij-96. The marker protein is ferritin (f1, 440 and f2, 880 kDa forms). The ratio of TCR nanoclusters to monomeric TCR in each lysis condition was quantified by densitometry (right; n = 5)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "G. Top, representative small field EM images showing gold particle distribution in the cell surface replicas of CD4+ T cells isolated from OVA/OVA-immunized WT and CCR5-/- mice. Bottom, quantification (mean ± SEM) of gold particles in clusters of the indicated size (WT, gray bars; n = 5 cells, 14680 particles; CCR5-/-, red; n = 7 cells, 15374 particles). Insets show the distribution between clusters of one, two, three, four or more than four particles, and statistical analysis."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "A. Total Chol levels in WT and CCR5-/- OT-II lymphoblasts (day 10, IL-2-expanded) as determined by a fluorometric assay (n = 6)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "B-D. SM (B), Cer (C) and dhCer (D) levels in WT and CCR5-/- OT-II 10-day lymphoblasts, as determined by UPLC-TOF MS. Values, after normalization with C17 standards and cell number in each sample, are the mean of two independent experiments (n = 6)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "E. RT-qPCR determination of CerS mRNA levels in naïve and IL-2-expanded WT and CCR5‑/- OT-II 10-day lymphoblasts (n = 3-5)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "F. Representative immunoblot showing CerS2 protein levels in naïve and WT and CCR5-/- OT-II 10-day lymphoblasts, and densitometric quantification of blots as above (n = 10)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "G. ChIP analysis of the CerS2 promoter using an anti-H3K9Ac antibody. Scheme of the CerS2 promoter showing CpG islands and primers used for amplification. Relative ChIP of the CerS2 promoter in WT and CCR5-/- OT-II 10-day lymphoblasts (n = 3)."
NCBI gene IDs:
"CCR5: 12774
CerS2: 76893"
Figure legend: "H. Relative CerS2 mRNA level in CD4 T cells treated with PTx (n = 3)."
NCBI gene IDs:
"CerS2: 76893"
Figure legend: "L. Representative immunofluorescence images showing pSer142-GATA-1 staining (green) of OT-II WT and CCR5-/- lymphoblasts. The green channel (top) and the merge with nuclear DAPI staining (blue; bottom) are shown. Scale bar, 10 μm. M. Quantification of nuclear staining of the cells plotted as integrated density fluorescence intensity in DAPI-stained area; n ≥50 cells/condition)."
NCBI gene IDs:
"CCR5: 12774"
Figure legend: "N. Top, basic scheme of the CerS2 promoter, indicating the putative GATA-1 binding site (blue) and location of the primers used for amplification in ChIP assays (black arrows). Bottom, relative anti-GATA-1 ChIP levels in OT-II WT and CCR5-/- lymphoblasts (n = 5)."
NCBI gene IDs:
"CCR5: 12774
CerS2: 76893"
Figure legend: "F. GFP expression in shCtrl- (black) and shCerS2 (orange)-transduced 2B4 cells after puromycin selection, as determined by FACS."
NCBI gene IDs:
"GFP: 
CerS2: 76893"
Figure legend: "G. Relative CerS2 mRNA levels in TAK-779-treated 2B4 cells as in F. Values were normalized to those obtained in untransduced TAK-779-treated 2B4 cells (n = 3)."
NCBI gene IDs:
"CerS2: 76893"
Figure legend: "H. Representative immunoblot with anti-CerS2 antibody to determine CerS2 protein levels in shCtrl and ShCerS2-transduced 2B4 cells as in G. Filters were rehybridized with β-actin as loading control."
NCBI gene IDs:
"CerS2: 76893"
Figure legend: "I. TCR nanoclustering of shCtrl- and shCerS2 transduced 2B4 cells in the presence of TAK-779 as determined by EM. Representative small field images and quantification (mean ± SEM) of gold particles in clusters of indicated sizes in cell surface replicas shCtrl (gray black bars; n = 6 cells, 12337 particles) and shCerS2 2B4 lymphoblasts (orange; n = 7 cells, 13456 particles). Inset, distribution between clusters of indicated size and statistical analysis."
NCBI gene IDs:
"CerS2: 76893"
Figure legend: "J. Percentage of CD69+ shCtrl (black) and shCerS2 (orange) 2B4 cells restimulated with plate-bound anti-CD3ε antibody in the presence of TAK-779 (n = 3)."
NCBI gene IDs:
"CerS2: 76893"
Figure legend: "A. Analysis of TCR nanoclustering in lymphoblasts from healthy WT and ccr5Δ32 homozygous donors by EM. Top, representative small field image showing gold particle distribution in cell surface replicas of anti-CD3ε-labeled cells; bottom, quantification (mean ± SEM) of gold particles in clusters of the indicated size in the WT (gray bars; n = 5 cells, 17689 particles) and Δ32/Δ32 cells (light red; n = 4 cells, 16938 particles). Insets show the distribution between clusters of one, two, three, four or more than four particles, and statistical analysis."
NCBI gene IDs:
"ccr5: 12774"
Figure legend: "C. Relative CerS2 mRNA levels in day 8 WT and ccr5Δ32 lymphoblasts. Each data point is the average of a technical triplicate from 3 donors in two independent experiments (n = 6)"
NCBI gene IDs:
"ccr5: 12774
CerS2: 76893"
Figure legend: "A, B. RT-qPCR analysis of Zfp207 and Oct4 in mouse ESCs during (A) retinoic acid (RA)-induced and (B) embryoid body (EB)-mediated differentiation. Nestin was used as a neuronal differentiation marker to monitor RA-mediated differentiation. mRNA levels are relative to the expression at day 0."
NCBI gene IDs:
"Nestin: 18008
Oct4: 18999
Zfp207: 22680"
Figure legend: "J, K. (J) AP staining of shScr and Zfp207-depleted (sh1 and sh2) mouse ESCs. Scale bars, 20 µM. (K) Percentage of fully differentiated (FD), partially differentiated (PD) and undifferentiated (UN) ESC colonies in shScr, sh1 and sh2."
NCBI gene IDs:
"Zfp207: 22680"
Figure legend: "M, N. (M) Western blot of ZFP207, OCT4, NANOG, and SOX2 in shScr, sh1 and sh2 ESCs and (N) RT-qPCR analysis of Oct4, Nanog, and Sox2 in shScr, sh1 and sh2 ESCs; data is relative to shScr."
NCBI gene IDs:
"Nanog: 71950
Oct4: 18999
Sox2: 20674"
Figure legend: "D. RT-qPCR of Zfp207, the pluripotency genes (Oct4, Nanog and Sox2), the mesodermal markers (Msx1 and Brachyury, T), the endodermal markers (Foxa2, Sox17), and the neural-associated genes (Pax6, Sox11 and Nestin) in shScr, sh1 and sh2 ESCs along the time-course of EB-mediated differentiation. mRNA levels are relative to the expression of shScr at day 0."
NCBI gene IDs:
"Foxa2: 15376
Msx1: 17701
Nanog: 71950
Nestin: 18008
Pax6: 18508
Oct4: 18999
Sox11: 20666
Sox17: 20671
Sox2: 20674
Brachyury: 20997
T: 20997
Zfp207: 22680"
Figure legend: "G. RT-qPCR of Zfp207 and neural-associated markers in shScr, sh1 and sh2 along the course of neural differentiation. mRNA levels are relative to shScr at day 0."
NCBI gene IDs:
"Zfp207: 22680"
Figure legend: "(A) Volcano plots of common differentially expressed genes in shScr and Zfp207-depleted (sh1 and sh2) mouse ESCs. Up-regulated (Up) and down-regulated (Down) genes are indicated in red and blue, respectively (p &lt; 0.05; &gt; 1.5-fold). Zfp207 is depicted in black. Grey dots indicate non-significant (NS) and &lt; 1.5-fold differential expressed genes."
NCBI gene IDs:
"Zfp207: 22680"
Figure legend: "F. RT-PCR of Zfp207-regulated AS events. For Mta1, AS1 (alternative splicing 1) and AS2 (alternative splicing 2). #1 and #2 indicate distinct biological replicates. *Denotes an isoform that was not taken in consideration for the quantification. The structure of each isoform is indicated (not to scale). Alternative exons are blue. The percent spliced in (PSI) was quantified for each condition."
NCBI gene IDs:
"Mta1: 116870
Zfp207: 22680"
Figure legend: "(I) Scanning confocal microscopy analysis of Saos2 WT and CRISPR-Cas9 IDUA Saos2 at steady state, immunolabeled for PC1 and LAMP1. Nuclei were stained with Hoechst. Scale bar = 10 µm. The insets show higher magnification (left = x3.09; right = x3.12) and single colour channels of the boxed area. Bar graph shows quantification of lysosomes containing PC1 expressed as % of total LAMP1 per cell (mean +/- SEM). n= 31 WT cells, n=33 CRISPR cells counted; 3 independent experiments. Student's unpaired, two-tailed T-Test *** P&lt;0.0001."
NCBI gene IDs:
"IDUA: 3425"
Figure legend: "(J) WT and CRISPR IDUA Saos2 lysed and analysed by western blot. Data are representative of 3 independent experiments."
NCBI gene IDs:
"IDUA: 3425"
Figure legend: "(D) Correlative Light Electron Microscopy (CLEM) and Electron Tomography of Saos2 cells transfected with GFP-LC3 (green) and labelled for PC1 (568, red and nanogold particles) and CANX (647, blue). Cells were first imaged by confocal microscopy (top left panel) and then the same region was retraced in EM (upper middle panel) and overlay is shown (upper right panel). Arrow indicates a LC3 positive vesicle containing CANX and PC1 molecules."
NCBI gene IDs:
"LC3: 84557"
Figure legend: "(A) WT and CRISPR-Cas9 Fam134b knockout MEFs were treated as indicated, lysed and analysed by western blot with the indicated antibodies. Western blots are representative of 4 independent experiments."
NCBI gene IDs:
"Fam134b: 66270"
Figure legend: "(B) WT and CRISPR-Cas9 Fam134b MEFs were immunolabeled for PC1 (568, red), nuclei stained with Hoechst (blue) and analysed by scanning confocal microscopy. Scale bar = 10 µm."
NCBI gene IDs:
"Fam134b: 66270"
Figure legend: "(C) CRISPR FAM134B MEF mock, wild type FAM134B-HA or FAM134Blir-HA transfected were immunolabeled for PC1 (568, red), LAMP1 (488, green) and HA (647, violet) and analysed by scanning confocal microscopy. Scale bar = 10 µm. Inset panels show magnification of the boxed area. Bar graph shows quantification of LAMP1 vesicles positive for PC1, expressed as % of total lysosomes (mean +/- SEM), quantification of n=10 cells per treatment; 3 independent experiments. One-way ANOVA with Dunnett's multiple comparisons test was performed. ns ≥0.05, *** P&lt;0.0001."
NCBI gene IDs:
"FAM134B: 66270
FAM134B: 54463"
Figure legend: "(B) WT and Canx-/- MEFs were untreated or treated with BafA1 (10 μM) for 6 h, lysed and analysed by western blot with indicated antibodies. Filamin and β-actin were used as loading control. Dashed line indicates that unnecessary lanes were removed. Western blot is representative of 3 independent experiments."
NCBI gene IDs:
"Canx: 12330"
Figure legend: "(A, B) Volcano plot comparing protein fold changes between WT versus Fam134b-/- (A) and WT versus Canx-/- MEFs (B). Significantly regulated proteins are labelled in red (log2 fold change &gt; 1, -log10 p&gt;1.3). Red dots with blue ring indicate collagen 1 peptides. Graphs represent statistics from three separate experiments for each genotype."
NCBI gene IDs:
"Canx: 12330
Fam134b: 66270"
Figure legend: "(B) U2OS cells were transfected with empty vector control (pcDNA3), FAM134B-HA WT or mutant constructs as indicated. Complexes were immune-isolated with HA-magnetic beads, separated by western blot and visualised with antibodies against CANX, FAM134B 5% of the input is shown. Western blots are representative of 3 independent experiments. Dashed line indicates that unnecessary lanes were removed."
NCBI gene IDs:
"FAM134B: 54463"
Figure legend: "U2OS cells were transfected with HALO-PC2, FAM134B-HA or FAM134Blir-HA constructs, treated with 100 nM BafA1 for 6h and with CST where indicated. Complexes were immune-isolated with HA-magnetic beads, separated by western blot and visualised with antibodies against HALO, CANX, FAM134B, LC3 5% of the input is shown. Western blots are representative of 3 independent experiments. Dashed line indicates that unnecessary lanes were removed."
NCBI gene IDs:
"PC2: 
FAM134B: 54463"
Figure legend: "A‐C) Time‐lapse imaging of hepatoma cells infected with UIS4‐mCherry‐expressing Plasmodium berghei was used to determine the velocities of the UIS4‐positive features, e.g., a tubule (A), elongated membrane cluster (B) and vesicle (C) were tracked over time. Measured speeds of the dynamic features indicated with white arrows are depicted graphically to the right. Scale bars, 10 µm."
NCBI gene IDs:
"UIS4: "
Figure legend: "B) Cells infected with UIS4‐mCherry‐expressing parasites were treated with nocodazole for 1.5 h (top) or cytochalasin D for 30 min (bottom) and imaged by confocal microscopy. Imaging occurred 29 and 24 h post‐infection, respectively. UIS4‐positive tubules, static (top) and dynamic (bottom), are indicated with white arrowheads. Displayed cells are representative of five imaged parasites from at least two different experiments."
NCBI gene IDs:
"UIS4: "
Figure legend: "d. Real-time reverse transcription quantitative PCR (RT-qPCR) showing Fbxw7, Pten and Trp53 expression in mouse uteri at 4 weeks and 8 weeks postnatal age (NB Trp53R172H uteri were not analysed at the 4 week timepoint). Box extends from 25th to 75th percentiles, with line at median, whiskers indicate minimum and maximum values, and dots individual values (n=5 samples per group with exception of Ptendel and Ptendel, Fbxw7mut genotypes at 8 weeks which contain n=7 samples each). Statistical comparison between WT controls and other genotypes was performed by unadjusted, unpaired Mann Whitney test; * indicates P&lt;0.05, ** indicates P&lt;0.01"
NCBI gene IDs:
"Fbxw7: 50754
Pten: 19211
Trp53: 22059"
Figure legend: "e. Western blot of mouse uteri at 8 weeks postnatal age (NB Trp53R172H uteri were not analysed by Western blotting). Values indicate densitometric units (mean ± SD) normalised to control group of WT samples in case of Fbxw7 protein and both WT and Fbxw7mut samples in case of Pten and p53 proteins. Image is representative of duplicate technical replicates. Statistical comparison between controls and other groups was performed by unadjusted, unpaired Mann Whitney test; and are shown next to densitometry results where statistically significant."
NCBI gene IDs:
"Fbxw7: 50754
Trp53: 22059"
Figure legend: "c. Low and high power images of GEMM uteri at 8 weeks age and at study endpoint after H&amp;E staining or IHC for cytokeratin 8 (CK8) (epithelia). Scale bars in low and high magnification panels indicate 1000μm and 100μm respectively. Images are representative of a minimum of 5 mice per genotype per timepoint, with exception of wild-type and Fbxw7mut mice at 8 weeks age where 3 mice were analysed."
NCBI gene IDs:
"Fbxw7: 50754"
Figure legend: "e. H&amp;E-stained sections of high grade external sarcomas in Trp53del, Trp53del; Fbxw7mut, Trp53mut and Trp53mut; Fbxw7mut mice. Images are representative of minimum of 3 mice examined for each genotype. Scale bar indicates 100μm."
NCBI gene IDs:
"Fbxw7: 50754
Trp53: 22059"
Figure legend: "a. (Left panel) Schematic illustrating gene expression profiling of mouse uterine samples of indicated genotypes and group sizes at 8 weeks age, with groups compared by enrichment analysis. (Right panel) Dot plot indicating enrichment of MSigDB C6 oncogenic gene sets in Ptendel; Fbxw7mut uteri vs Ptendel uteri. Arrows indicate enrichment of LEF1 signatures."
NCBI gene IDs:
"Fbxw7: 50754
Pten: 19211"
Figure legend: "a. HEK293T cells were transfected with constructs encoding FLAG-V5-tagged FBXW7α and Myc-tagged LEF1. FLAG-V5-tagged FBXW7 α was immunoprecipitated (IP) from cell extracts with anti-FLAG antibody before immunoblotting for tagged proteins as indicated (upper panels). Lower panels show inputs. b. HEK293T cells were transfected with constructs encoding FLAG-V5-tagged FBXW7α and Myc-tagged TCF7L2. IP was performed as in (a) before immunoblotting for tagged proteins as indicated. Data information: All images shown are representative of a minimum of two independent experiments"
NCBI gene IDs:
"FLAG: 
Myc: 
V5: 
FBXW7α: 55294
LEF1: 51176
TCF7L2: 6934"
Figure legend: "g. HEK293T cells were transfected with Myc-tagged FBXW7α and either FLAG-V5-tagged full length LEF1 (FL) or truncated LEF1 in which the N terminal domain required for β-catenin binding has been deleted. Immunoblotting for indicated proteins was performed following IP by anti-FLAG antibody. Data information: All images shown are representative of a minimum of two independent experiments"
NCBI gene IDs:
"FLAG: 
Myc: 
V5: 
FBXW7α: 55294
LEF1: 51176"
Figure legend: "a. Dot plot showing log2-transformed expression of FBXW7, LEF1 and other wnt pathway genes in endometrial epithelial cell subsets defined by single cell RNAseq (scRNAseq)"
NCBI gene IDs:
"FBXW7: 55294
LEF1: 51176"
Figure legend: "d. Immunohistochemistry for LEF1 and β-catenin from endometrial carcinomas in Ptendel ± Fbxw7mut mice. High power images show representative staining in LEF1 negative and positive glands. Scale bar bar indicates 1000μm. "
NCBI gene IDs:
"Fbxw7: 50754
Pten: 19211"
Figure legend: "ISCts midguts expressing YFP alone (control), or expressing two non-overlapping EcR-RNAi, and quantification of the number of YFP-positive cells (yellow). The graph also plots the number of GFP-positive cells in esgts midgut expressing GFP alone (ctrl), or expressing EcR-RNAi#1, EcR-RNAi#2, and mcherry-RNAi as an additional negative control (see EV2B)."
NCBI gene IDs:
"GFP: 
EcR: 35540
esg: 34903"
Figure legend: "esgts midguts expressing GFP alone (control), or expressing EcR-DN, and EcR-DN + pri. Samples were stained for GFP (green). The graph shows quantification of the number of GFP-positive cells in the different genotypes."
NCBI gene IDs:
"GFP: 
EcR: 35540
esg: 34903"
Figure legend: "Posterior midguts containing control and Ubr3 null MARCM clones (GFP, green)."
NCBI gene IDs:
"Ubr3: 31713"
Figure legend: "esgts midguts expressing GFP alone (control), or expressing Ubr3-RNAi, and Ubr3-RNAi + OvoB. Samples were stained for GFP (green). H' quantification of GFP-positive cells from H."
NCBI gene IDs:
"GFP: 
esg: 34903
OvoB: 31429
Ubr3: 31713"
Figure legend: "esgts midguts expressing GFP alone (control) or expressing SvbACT. Samples were stained for GFP (green), and ß-catenin (purple), DE-Cadherin (white) or Scribble (yellow). Top and bottom pictures show separate channels for a same region."
NCBI gene IDs:
"GFP: 
Svb: 31429"
Figure legend: "esgts midguts expressing GFP alone (control), or expressing miR8, OvoB, and mir8 + OvoB. Samples were stained for GFP (green) and ß-catenin (purple). The graph shows quantification of GFP-positive cells for each genotype. The Y axis is drawn using a log(10) scale."
NCBI gene IDs:
"GFP: 
miR8: 12798320
mir8: 12798320
OvoB: 31429"