EMBO/SourceData huggingface dataset:
Figure legend: "(B) Effects of RNF5 knockdown on virus-induced K11-linked polyubiquitination of endogenous MITA. The 293-HA-Ub-K11O cells (2×107) were transfected with the indicated RNAi plasmid (10 µg each). Twelve hours after transfection, the cells were selected with puromycin (1 µg/mL) for twenty-four hours and infected with SeV for the indicated time points or left uninfected. Cell lysates were subjected to IP under denatured conditions with anti-MITA and the immunoprecipitates were analyzed by immunoblots with anti-HA (upper panel) or anti-MITA (lower panel). The whole cell lysates were analyzed by immunoblots with antibodies against the indicated antibodies."
NCBI gene IDs:
"RNF5: 6048"
Figure legend: "(C) RNF26 and RNF5 competed with each other on MITA polyubiquitination. The 293 cells (5×106) were transfected with MITA (5 µg), Flag-Ub-K48O and HA-Ub-K11O (1 µg each) together with indicated amount of RNF26 and RNF5. Twenty-four hours after transfection, cell lysates were subjected to IP under denatured conditions with anti-MITA and the immunoprecipitates were analyzed by immunoblots with anti-Flag (upper panel), anti-HA (middle panel) or anti-MITA (lower panel). The whole cell lysates were analyzed by immunoblots with antibodies against the indicated proteins."
NCBI gene IDs:
"RNF26: 79102
RNF5: 6048
MITA: 340061
Ub: 7316///7314///7311///6233"
Figure legend: "(D) Effects of RNF26 knockdown on virus-triggered MITA degradation. The THP-1-RNF26-RNAi or control cells (1×106) were infected with SeV or HSV-1 for the indicated time points or left uninfected. Cells were lysed and whole cell lysates were analyzed by immunoblots with antibodies against the indicated proteins (upper immunoblots). The relative protein levels of MITA in reference to β-actin were analyzed by Quantity One program and data shown are mean ± S.D. of three independent experiments (lower histographs)."
NCBI gene IDs:
"RNF26: 79102"
Figure legend: "(A) Effects of RNF26 knockdown on SeV-triggered activation of the IFN-β promoter. The 293 cells (2×105) were transfected with the IFN-β promoter reporter (0.1 µg) and the indicated RNAi plasmid (0.5 µg each). Thirty hours after transfection, cells were infected with SeV for 12 hours or left uninfected before reporter assays were performed."
NCBI gene IDs:
"IFN-β: 3456
RNF26: 79102"
Figure legend: "(B and C) Effects of RNF26 knockdown on virus-triggered induction of IFN-β in THP-1 cells. The THP-1-RNF26-RNAi or control cells (1×106) were infected with SeV or HSV-1 for the indicated time points or left uninfected followed by quantitative real-time PCR (B)"
NCBI gene IDs:
"IFN-β: 3456
RNF26: 79102"
Figure legend: "(B and C) Effects of RNF26 knockdown on virus-triggered induction of IFN-β in THP-1 cells. The THP-1-RNF26-RNAi or control cells (1×106) were infected with SeV or HSV-1 for the indicated time points or left uninfected followed by quantitative real-time PCR (B) or ELISA analysis (C"
NCBI gene IDs:
"RNF26: 79102"
Figure legend: "(D) Effects of RNF26 knockdown on virus-triggered induction of IFNB1 gene in THP-1 cells. The THP-1-RNF26-RNAi or control cells (1×106) were infected with VSV, EMCV or ECTV for the indicated time points or left uninfected before quantitative real-time PCR analysis was performed as in (B)."
NCBI gene IDs:
"IFNB1: 3456
RNF26: 79102"
Figure legend: "(E and F) Effects of RNF26 knockdown on virus-triggered induction of TNFα in THP-1 cells. The THP-1-RNF26-RNAi or control cells (1×106) were infected with SeV or HSV-1 for the indicated time points or left uninfected followed by quantitative real-time PCR (E) and ELISA analysis (F)."
NCBI gene IDs:
"RNF26: 79102
TNFα: 7124"
Figure legend: "(G) Effects of RNF26 knockdown on virus-triggered phosphorylation of TBK1, IRF3 and IκBα. The THP-1-RNF26-RNAi or control cells (1×106) were infected with SeV or HSV-1 for the indicated time points or left uninfected, whole cell lysates were analyzed by immunoblots with anti-p-TBK1, anti-TBK1, anti-p-IRF3, anti-IRF3, anti-p-IκBα, anti-IκBα, anti-RNF26 or anti-β-actin as indicated. All experiments were repeated for at least three times with similar results. The bar graphs show mean ± S.D. (n = 3) of a representative experiment performed in triplicate."
NCBI gene IDs:
"RNF26: 79102"
Figure legend: "A) Effects of RNF26 knockdown on IRF3 level. In the left panel, whole cell lysates of THP-1-RNF26-RNAi or control cells (1×106) were analyzed by immunoblots with the indicated antibodies. In the right panel, cells (1×106) were subjected to quantitative real-time PCR analysis."
NCBI gene IDs:
"RNF26: 79102"
Figure legend: "B) Effects of RNF26 on IRF3 stability. The 293 cells (1×106) were transfected with HA-IRF3 (0.5 µg) and HA-β-actin (0.1 µg) together with RNF26 or its mutant (0.3 µg each). Twenty-four hours later, whole cell lysates were analyzed by immunoblots with anti-HA or anti-RNF26."
NCBI gene IDs:
"RNF26: 79102"
Figure legend: "(C) Effects of RNF26 and its mutant on SeV-triggered activation of the IFN-β promoter. The 293 cells (2×105) were transfected with the IFN-β promoter reporter (0.1 µg) and RNF26 or its mutant (0.1 µg each). Twenty hours after transfection, cells were infected with SeV for 12 hours or left uninfected before reporter assays were performed."
NCBI gene IDs:
"IFN-β: 3456
RNF26: 79102"
Figure legend: "(D) Effects of RNF26 on IRF3 ubiquitination. The 293 cells (5×106) were transfected with Flag-IRF3 (5 µg) and RNF26 (1 µg) together with HA-Ub or its mutants (1 µg each). Eighteen hours after transfection, 3-MA (500 ng/mL) was added into culture medium for 4 hours to protect IRF3 from autophagosomal degradation during the experiment. The cell lysates were subjected to IP under denatured conditions with anti-Flag and the immunoprecipitates were analyzed by immunoblots with anti-HA (upper panels) or anti-Flag (lower panels). The whole cell lysates were analyzed by immunoblots with anti-Flag or anti-RNF26 as indicated."
NCBI gene IDs:
"IRF3: Q14653///3661
RNF26: Q9BY78///79102
Ub: 7316///7314///7311///6233"
Figure legend: "(E) Effects of inhibitors on RNF26-mediated destabilization of IRF3. The 293 cells (1×106) were transfected with the indicated plasmids as described in (B). Eighteen hours after transfection, 3-MA (500 ng/mL), NH4Cl (25 mM) or MG132 (100 µM) was added into culture medium for four hours. Whole cell lysates were analyzed by immunoblots with anti-HA or anti-RNF26."
NCBI gene IDs:
"IRF3: 3661
RNF26: 79102"
Figure legend: "(F) Effects of ATG12 knockdown on RNF26-mediated destabilization of IRF3. The 293-ATG12-RNAi or control cells (1×106) were transfected with the indicated plasmids. Twenty-four hours later, whole cell lysates were analyzed by immunoblots with anti-HA, anti-RNF26 or anti-ATG12 as indicated. All experiments were repeated for at least three times with similar results. The bar graphs show mean ± S.D. (n = 3) of a representative experiment performed in triplicate."
NCBI gene IDs:
"ATG12: 9140
IRF3: 3661
RNF26: 79102"
Figure legend: "C57BL/6, SHP-KO, and FGF15-KO or littermate mice  were fasted  overnight and then   re-fed  for 6 (A-C) Levels of the indicated proteins detected by IB  in (A) liver  and intestinal  extracts from C57BL/6 mice  and in intestinal  extracts from (B) C57BL/6 or SHP-KO mice or (C) FGF15-KO mice or littermates. Band quantitation was done using Image J, and the LC3 II/I ratio and p62/actin and lamp1/actin  ratios are shown at the right. (A-C) The mean and standard deviation (SD) are plotted. Statistical significance was determined by (A) two-tailed Student's t-tests or (B, C) two-way ANOVA with the Tukey post-test. P-values are indicated (n=3 mice)."
NCBI gene IDs:
"FGF15: 14170
SHP: 23957"
Figure legend: "C57BL/6, SHP-KO, and FGF15-KO or littermate mice  as indicated were fasted   for 12 h and then, re-fed   for 6 h. levels of the indicated proteins in intestinal  extracts from (B) C57BL/6 and SHP-KO mice  or (D) FGF15-KO mice and littermates with quantitation of the bands at right. , (B, D) n=3 mice. The mean and SD are plotted. Statistical significance was determined by two-way ANOVA with the Tukey post-test P-values are indicated"
NCBI gene IDs:
"FGF15: 14170
SHP: 23957"
Figure legend: "(G) HT29 cells were transfected with GFP-LC3  and with SHP  siRNA or SHP  expression plasmids and incubated in serum-free medium containing 200 μM  oleic acid for 6 h followed by treatment with 50 ng/ml FGF19  for 6 h The control group (Veh) was treated with vehicle for FGF19, control plasmid DNA, and scrambled siRNA. The FGF19  groups were treated with control DNA or SHP  expression plasmid or SHP  siRNA or control scrambled siRNA as indicated. Cells were imaged by confocal microscopy (Zeiss, LSM700). GFP-LC3  puncta were counted and the number of puncta/cell is shown at right (n = 20). Scale bar, 10 μm. G, The mean and SD are plotted. Statistical significance was determined by (G) one-way ANOVA with the Tukey post-test. P-values are indicated"
NCBI gene IDs:
"GFP: 
LC3: 67443///66734
SHP: 8431"
Figure legend: "(I) HT29  cells were transfected with Lamp1  siRNA or scrambled siRNA and 48 h later were treated with 50 ng/ml FGF19  for the indicated times. ApoB48  and actin  levels were determined by IB  (n=2 culture plates)."
NCBI gene IDs:
"Lamp1: 3916"
Figure legend: "(A) HT29  cells were transfected with GFP-LC3  and with Atg7  siRNA or control scrambled RNA (siCtl) and incubated in serum-free medium containing 200 μM oleic acid  for 6 h followed by treatment with 50 ng/ml FGF19  for 6 h The control group (Veh) was treated with vehicle for FGF19 and control siRNA. The FGF19  groups were treated with Atg7  siRNA or scrambled siRNA as indicated. Cells were imaged by  confocal microscopy (Zeiss, LSM700). GFP-LC3  puncta were counted and the number of puncta/cell is shown at right (n = 20). Scale bar, 20 μm. The mean and SD are plotted. Statistical significance was determined by one-way ANOVA with the Tukey post-test. P-values are indicated."
NCBI gene IDs:
"GFP: 
Atg7: 10533
LC3: 67443///66734"
Figure legend: "(B) HT29  cells were transfected with Atg7 siRNA or control scrambled siRNA and 48 h later were treated with 50 ng/ml FGF19  for 12 h. LC3  and actin   levels in cell extracts determined by IB  (n=3 culture plates)."
NCBI gene IDs:
"Atg7: 10533"
Figure legend: "D) HT29  cells were transfected with Atg7  siRNA or control scrambled siRNA (siCtl) for 48 h and then treated with  oleic acid for 6 h followed by treatment with 50 ng/ml FGF19  for 12 h. (D) ApoB48  and actin  levels in cell extracts determined by IB. Bands were quantified and the LC3-II/LC3-I ratio is shown at the right (n=3 culture plates). The mean and SD are plotted. Statistical significance was determined by one-way ANOVA with the Tukey post-test. P-values are indicated."
NCBI gene IDs:
"Atg7: 10533"
Figure legend: "(F, G) Protein levels detected by IB  of ULK1  and ATGL  in intestinal  extracts from (F) C57BL/6 and SHP-KO mice  or (G) FGF15-KO mice or littermates re-fed for 6 h after fasting   overnight (n=3 mice)."
NCBI gene IDs:
"FGF15: 14170
SHP: 23957"
Figure legend: "(A) HT29  cells were transfected with GFP-LC3  and with Tfeb  siRNA or Tfeb  expression plasmids and incubated in serum-free medium containing 200 μM oleic acid for 6 h followed by treatment with 50 ng/ml FGF19  for 6 h The control group (Veh) was treated with vehicle for FGF19  and transfected with control plasmid DNA and scrambled siRNA. The FGF19  groups were treated with control DNA or TFEB  expression plasmid or with Tfeb  siRNA or scrambled siRNA as indicated. Cells were imaged by  confocal microscopy (Zeiss, LSM700). GFP-LC3  puncta were counted and the number of puncta/cell is shown at right (n = 20 cells). Scale bar, 10 μm. (A, The mean and SD are plotted. Statistical significance was determined by (A) one-way ANOVA with the Tukey post-test, P-values are indicated."
NCBI gene IDs:
"GFP: 
LC3: 67443///66734
Tfeb: 7942
TFEB: 7942"
Figure legend: "(B) HT29  cells were transfected with siRNA for Tfeb  (siTFEB) or control scrambled siRNA (siCtl), followed 48 h later by treatment with FGF19  or vehicle with or without 100 nM  bafilomycin A1  (BAF) for 12 h. Levels of the indicated proteins determined by IB.  LC3 II/I and p62/actin  ratios are shown at the right (n=3-4 culture plates). B, The mean and SD are plotted. Statistical significance was determined by (B) two-way ANOVA with the Tukey post-test, P-values are indicated."
NCBI gene IDs:
"Tfeb: 7942
TFEB: 7942"
Figure legend: "(C) HT29  cells were transfected with siRNA for TFEB  (siTFEB) or control RNA (siCtl), followed 48 h later by treatment with FGF19  or vehicle for 12 h. Protein levels detected by IB  of ULK1  and ATGL  (n=3 culture plates)."
NCBI gene IDs:
"TFEB: 7942"
Figure legend: "(E) HT29  cells were transfected with siRNA for Tfeb  (siTFEB) or scrambled siRNA (siCtl), followed 48 h later by treatment with FGF19  or vehicle for 12 h. ApoB48  and actin  levels in cell extracts determined by IB  (n=3 culture plates)."
NCBI gene IDs:
"Tfeb: 7942
TFEB: 7942"
Figure legend: "B) FGF15-KO mice  or littermates (B) were  re-fed  for 6 h after fasting   overnight. the indicated proteins were detected by IB  (n=2 mice). TBLN  indicates tubulin."
NCBI gene IDs:
"FGF15: 14170"
Figure legend: "FGF15-KO mice  or littermates were fasted  overnight and re-fed  for the indicated times. (C) The nuclear  fraction was isolated and the nuclear  levels of TFEB, SHP, and LAMIN  were determined by IB."
NCBI gene IDs:
"FGF15: 14170"
Figure legend: "FGF15-KO mice  or littermates were fasted  overnight and  re-fed  for the indicated times. (D) Levels of LC3, p62, and actin in cell extracts were determined by IB."
NCBI gene IDs:
"FGF15: 14170"
Figure legend: "(F) FGF15-KO mice  or littermates were re-fed  for 0, 2, or 3 h after fasting  overnight. The indicated proteins in intestinal  extracts were detected by IB  (n=2 mice)."
NCBI gene IDs:
"FGF15: 14170"
Figure legend: "(G) HT29  cells were transfected with expression plasmids for flag-tagged TFEB  or its mutants as indicated and 24 h later, cells were treated with FGF19 (50 ng/ml) for 12 h. ∆CT indicates the TFEB  mutant with a C-terminal deletion of 15 amino acids. The indicated proteins were detected by IB (n=3 culture plates)."
NCBI gene IDs:
"flag: 
TFEB: 7942"
Figure legend: "A  Hormone-inducible  nuclear  import assay, representative still images of GCR2-EGFP2-TDP-43 Wt, 12D and 12A before and during import triggered by addition of dexamethasone. Images were live  recorded by spinning disc confocal microscopy. Bar, 20 µm. B Quantification of the  hormone-inducible  nuclear import  measured during a total  time course  of 50 min. Values represent the mean fluorescence intensity of GCR2-EGFP2-TDP-43 in the  cytoplasm for three independent replicates ± SEM (≥ 42 cells per condition)."
NCBI gene IDs:
"EGFP: 
GCR: 2908
TDP-43: 23435"
Figure legend: "C Phosphomimetic 12D  TDP-43 is competent in autoregulating  TDP-43 expression. SDS-PAGE followed by TDP-43 Western blot showing downregulation of endogenous TDP-43 through autoregulation (60) after 48 h expression of Wt, 12D and 12A variants in  HeLa cells. TDP-43 was detected using rabbit anti-TDP-43 C-term antibody (Proteintech), Histone H3 (rabbit anti-Histone H3 antibody, Abcam) was visualized as a loading control. * denotes an unspecific band."
NCBI gene IDs:
"TDP-43: 23435"
Figure legend: "E Splicing  analysis by RT-PCR  of known TDP-43 splice targets (SKAR  exon 3 and  Bim  exon 3) in HeLa  cells. Silencing of endogenous TDP-43 by siRNA leads to altered splice isoforms of SKAR  and Bim  (second vs. first lane). These  splicing alterations can be rescued by re-expression of TDP-43 Wt, but also 12D or 12A variants, demonstrating that phosphomimetic TDP-43 is fully competent in regulation  splicing  of these  TDP-43  splice targets. "
NCBI gene IDs:
"Bim: 10018
SKAR: 84271
TDP-43: 23435"
Figure legend: "F SG  recruitment of different  TDP-43-NLSmut variants in intact HeLa  cells in the absence of endogenous TDP-43. After TDP-43 silencing and expression of NLSmut Wt, 12D and 12A variants, SGs were induced by H2O2 treatment and  SG recruitment of TDP-43 was monitored by TDP-43 and G3BP1 immunostaining. For clarity, signals were converted to grey values in the individual channels (upper two rows). In the merge (lower row), nuclei  were stained in DAPI (turquoise), TDP-43 (green) and G3BP1 (red). Bar, 40 µm."
NCBI gene IDs:
"TDP-43: 23435"
Figure legend: "H Recruitment of TDP-43 into arsenite-induced nuclear bodies (NBs) in HeLa cells. After TDP-43 silencing and expression myc-TDP-43 Wt, 12D and 12A, NBs were induced by sodium arsenite treatment and NB  recruitment of  TDP-43 was monitored by TDP-43 immunostaining. Bar, 20 µm."
NCBI gene IDs:
"myc: 
TDP-43: 23435"
Figure legend: "J Intensity profiles (right) of  TDP-43 Wt, 12D and 12A variants (green) along white lines (left). Bar, 10 µm."
NCBI gene IDs:
"TDP-43: 23435"
Figure legend: "A Biochemical fractionation into  RIPA-soluble (S) and RIPA-insoluble (I) fractions to analyze solubility of the different myc-TDP-43 variants (Wt, 12D and 12A) expressed in HeLa  cells for 48 h.  TDP-43 was detected by TDP-43 Western blot (upper blot, rabbit anti-TDP-43 C-term, Proteintech) and Myc Western blot (lower blot, mouse anti-Myc 9E10). B Quantification of myc-TDP-43 variants (Wt, 12D and 12A) in (S) versus (I) fractions extracted from TDP-43 Western blots  of 4 independent replicates ± SD, plotted as S/(S+I). *p &lt; 0.0332 by one way ANOVA with Dunnett´s multiple comparison test to Wt."
NCBI gene IDs:
"myc: 
TDP-43: 23435"
Figure legend: "D Primary  hippocampal neurons expressing  EGFP-TDP-43 Wt, 12D or 12A with additional NLS mutation. Bar, 80 µm. Right: Zoomed images of white squares (TDP-43   signal). Bar, 10 µm."
NCBI gene IDs:
"EGFP: 
TDP-43: 23435"
Figure legend: "E SG recruitment of  EGFP-TDP-43 NLS mutant variants (Wt, 12D, 12A) in primary hippocampal neurons. SG formation was induced by 1h heat shock at 42°C.  SGs  and TDP-43 were monitored by G3BP1 antibody staining and EGFP fluorescence, respectively. For clarity, signals were converted to grey values in the individual channels (first two columns). In the merge (third column), EGFP-TDP-43  shown in green, G3BP1 in red and nuclei (DAPI staining) in turquoise. Bar, 20 µm."
NCBI gene IDs:
"EGFP: 
TDP-43: 23435"
Figure legend: "A. Expression  levels of various GPI-APs in different clones of PIGG-KO HEK293 cells. Fluorescence intensities of NT5E  in PIGG-KO clones #4, #10, #17, #19 and wild type cells are 575, 910, 696, 530 and 1548 while those of EphrinA5 in clones #4, #17, #19 and wild type cells are 1431, 2080, 1868 and 3336, respectively. Data information: Each FACS  analysis was performed at least three times."
NCBI gene IDs:
"PIGG: 54872"
Figure legend: "B. Expression  levels of GPI-APs in PIGG-KO clone #19 cells stably transfected with PIGG  cDNA compared to levels in empty vector transfected cells. Fluorescence intensities  of NT5E  in PIGG  cDNA and in vector transfected cells are 1332 and 886, respectively. Data information: Each FACS  analysis was performed at least three times."
NCBI gene IDs:
"PIGG: 54872"
Figure legend: "A. Expression  levels of different GPI-APs in PIGG-KO HEK293  cells transiently co-transfected with PIGG  cDNA or empty vector. Vertical bars represent % of levels of GPI-APs expression in non-rescued PIGG-KO cells relative to those in PIGG  cDNA rescued PIGG-KO cells. Analysis was repeated 3 to 6 times and SD bars were shown."
NCBI gene IDs:
"PIGG: 54872"
Figure legend: "B. HA  tagged NTNG2  and FLAG tagged DAF  were transiently co-transfected together with PIGG  cDNA or empty vector to PIGG-KO cells and were analyzed by FACS. Fluorescence intensity levels of NTNG2  in PIGG-KO cells and in PIGG  rescued cells are 639 and 3426, while those of DAF  in PIGG-KO cells and in PIGG  rescued cells are 562 and 599, respectively. Each FACS  analysis was performed at least three times."
NCBI gene IDs:
"FLAG: 
HA: 
DAF: 1604
NTNG2: 84628
PIGG: 54872"
Figure legend: "A-C. PTEN  mRNA levels in LCM normal ovarian  surface epithelium   versus high-grade serous ovarian cancer  (HGSOC) epithelium  or normal  ovarian  stroma   versus ovarian cancer-associated stroma. Datasets; (A) GSE40595, (B) GSE38666, (C) Epithelium  only, GSE14407. Sample size (n) and p-values, (Mann-Whitney) annotated, whiskers Min-Max, line at median."
NCBI gene IDs:
"PTEN: 5728"
Figure legend: "F. Overall survival (% patients, months) of OC patients. Highest quartile (Q4) versus combination of quartiles 1-3 (Q1+2+3), PTEN  mRNA (TCGA, OV). Median survival  (40 and 44 months), sample size (n) and p-value, Log-rank test (Mantel-Cox) annotated. G.  Overall survival  (% patients, months) of OC patients. Highest quartile (Q4) versus combination of quartiles 1-3 (Q1+2+3), PTEN  protein. Reverse Phase Protein Array Data, TCGA OV. Median survival  (46 and 57 months), sample size (n) and p-value, Log-rank test (Mantel-Cox)."
NCBI gene IDs:
"PTEN: 5728"
Figure legend: "H. Differential abundance (x, Log Ratio between conditions; y, -Log10 q-values) of Reverse Phase Protein Array data (TCGA, OV) in patient  grouped by PTEN  mRNA, High (Q4) vs Low (Q1). Significant, blue (-Log10 q-values &gt;1.3); AKT  signalling pathway, labelled. I. Differential abundance (x, Log Ratio between conditions; y, -Log10 q-values) of proteins in PTEN  High (Q4) vs PTEN  Low (Q1) protein samples. Reverse Phase Protein Array Data, TCGA OV. Significantly altered components in AKT  signalling pathway labelled (-Log10 q-value&gt; 1.3)."
NCBI gene IDs:
"PTEN: 5728"
Figure legend: "A. Confocal  images (single slice) of Trp53-/- or Trp53-/-;Pten-/- (1.15) spheroids  expressing mNeonGreen-tagged (mNG) biosensors for PI(4,5)P2  (PH-PLCδ1) or PIP3  (CYTH32G/GRP1). Magnified images from boxed regions, max projection of 8 (PH-PLCδ1) or 3 (CYTH32G/GRP1) z-slices, pseudocoloured in FIRE LUT. Arrowheads: red, cell-cell contact; yellow, nucleus; green, protrusion tip. Scale bar, 7μm. Representative of 8 (Trp53-/-) or 10 (Trp53-/-;Pten-/-) spheroids  imaged across n=2 independent experiments (PH-PLCδ1) and 22 (Trp53-/-) or 23 (Trp53-/-;Pten-/-) spheroids  imaged across n=4 independent experiments (CYTH32G/GRP1). B. Intensity profiles for PH-PLCδ1  and PH-CYTH3  from spheroids  shown in (A). Protrusions measured are annotated on images in upper panels, yellow lines. Arrowheads: red, protrusion tips."
NCBI gene IDs:
"Pten: 19211
Trp53: 22059"
Figure legend: "D. Western blotting  and quantitation for S6RP  pS235/236, S6RP, GAPDH  (sample integrity control) in Trp53-/-;Pten-/- 1.15 spheroids treated with DMSO  or inhibitors annotated in (B) for 2 days. Representative of n=3 independent lysate preparations. Data, mean ± SD of pS235/236:total S6RP  ratio, normalised to DMSO. P-values, unpaired, 2-tailed t tests, as annotated."
NCBI gene IDs:
"Pten: 19211
Trp53: 22059"
Figure legend: "Quantitation of ID8 Trp53-/-;Pten-/- spheroids  treated with PI3K isoform specific inhibitors: A66  (PI3Kα), AZD8186  (PI3Kβ), AS605240  (PI3Kγ) or CAL-101 (PI3Kδ), 6hr time  intervals over 72 hrs. (I) Frequency of Spherical  and Hyper-protrusive phenotypes. Heatmap (grayscale) - phenotype proportion (z-score) in control. Heatmap (blue-red) - log2 fold change from control. P-values, bubble size (Cochran-Mantel-Haenszel test with Bonferroni adjustment). Black dot, homogenous effect across independent experiments (Breslow-Day test, Bonferroni adjustment, non-significant). N=2 independent experiments, 3-5 technical replicates/experiment."
NCBI gene IDs:
"Pten: 19211
Trp53: 22059"
Figure legend: "K. Confocal  image of Trp53-/-;Pten-/- (1.15) spheroids stained  for PI3Kβ  (green),  F-actin (magenta) and Hoechst  (grey). Magnified images from boxed regions, pseudocoloured in inverted grayscale (F-actin) or FIRE LUT (PI3Kβ). Yellow or white/black arrowheads, enrichment of F-actin  or PI3Kβ  at protrusion tips  respectively. Scale bar, 5μm. Representative of n=5 spheroids."
NCBI gene IDs:
"Pten: 19211
Trp53: 22059"