EMBO/SourceData huggingface dataset:
Figure legend: "(C) Peptides with the sequence YGGYQASQGSDDDWDDEWDDSSTVADEPGAL (SNX18 WT) or with the first (SNX18 W154S), the second (SNX18 W158S), or both (SNX18 W154S/W158S) W mutated to S were spotted on membranes that were incubated with GST, GST-LC3B, or GST-GABARAP. Binding was analyzed as in B."
NCBI gene IDs:
"SNX18: 112574"
Figure legend: "(E) HeLa GFP-LC3 cells were transfected with myc-SNX18 W154S/W158S mutant, starved for 2 h, immunostained against myc, and analyzed by confocal imaging. Bar, 10 µm. (F) Indicated myc-SNX18 constructs were transfected into HEK GFP-LC3 cells, and the number of GFP-LC3 spots per cell was quantified. The graph shows mean ± SEM (error bars), n = 3. *, P &lt; 0.05."
NCBI gene IDs:
"SNX18: 112574"
Figure legend: "Recycling endosomes provide membranes for SNX18-mediated GFP-LC3 membrane trafficking and remodeling. (A) HeLa cells were starved or not starved for 2 h before fixation and immunostaining against endogenous SNX18, Rab11, and TfR. (B) Cells were transfected to express flag-Atg16L1, starved, and immunostained against Rab11 or TfR and flag. (C) Cells were starved and immunostained against TfR, Atg16L1, and SNX18. (D) Cells were transfected with control or SNX18 siRNA, starved, and immunostained against SNX18 and Rab11. Inset panels show enlarged views of the boxed regions. (E) Cells were transfected with control or Rab11 a+b siRNA, starved, and immunostained against SNX18 and Atg16L1. Cells were imaged by confocal microscopy. Bars, 5 µm."
NCBI gene IDs:
"Rab11: 8766
SNX18: 112574"
Figure legend: "(B and C) RNAi against SH3PX1 (GFP-positive clones) decreases formation of LTR punctae in response to 4 h of starvation in 20% sucrose (B) and inhibits formation of mCherry-Atg8a-positive autophagosomes in response to 2 h starvation (C). Genotypes: (B and D) hs-flp; UAS-dicer/+; Act&gt;CD2&gt;GAL4 UAS-GFPnls/UAS-SH3PX1 RNAi; (C and E) hs-flp; UAS-dicer/+; r4:mCherry-Atg8a Act&gt;CD2&gt;GAL4 UAS-GFPnls/UAS-SH3PX1 RNAi;"
NCBI gene IDs:
"SH3PX1: 39136"
Figure legend: "(D and E) RNAi against SH3PX1 inhibits formation of LTR (D) and mCherry-Atg8a-positive structures (E) at early stages of developmental autophagy in fat bodies of 110-h-old larvae. Genotypes: (B and D) hs-flp; UAS-dicer/+; Act&gt;CD2&gt;GAL4 UAS-GFPnls/UAS-SH3PX1 RNAi; (C and E) hs-flp; UAS-dicer/+; r4:mCherry-Atg8a Act&gt;CD2&gt;GAL4 UAS-GFPnls/UAS-SH3PX1 RNAi;"
NCBI gene IDs:
"SH3PX1: 39136"
Figure legend: "(F) There was no change in mCherry-Atg8a in SH3PX1 mutant clones (GFP negative, outlined) in well-fed larvae. Genotypes: (F and G) hs-flp; Cg-GAL4 UAS-mChAtg8a/+; FRT80B UAS-2XeGFP/FRT80B SH3PX1HK62b."
NCBI gene IDs:
"SH3PX1: 39136"
Figure legend: "(G) Decreased formation of mCherry-Atg8a-positive autophagosomes in SH3PX1 mutant clones (GFP negative, outlined) in fat bodies from larvae starved in 20% sucrose for 3 h. Bars, 20 µm. (H) The graph shows quantification of total mCherry-Atg8a spot intensity per cell for WT and SH3PX1 mutant cells. The graph shows mean ± SEM (error bars); ***, P &lt; 0.001. Genotypes: (F and G) hs-flp; Cg-GAL4 UAS-mChAtg8a/+; FRT80B"
NCBI gene IDs:
"SH3PX1: 39136"
Figure legend: "(D) Inhibition of PI3K by overexpression of a dominant-negative version (the p60 subunit alone) is sufficient to induce formation of large micron-scale Hpo sensor punctae, while activation of Akt by overexpression of a myristylated form of the protein is sufficient to reduce formation of the small apical Hpo sensor punctae that are normally observed in control animals."
NCBI gene IDs:
"Akt: 41957
p60: 33203"
Figure legend: "(A) Expanded (Ex; endogenously tagged with YFP) localises to the apical domain of columnar follicle cells at stages 9/10 of oogenesis. (B) The Hpo dimerization sensor localises in a similar pattern to Ex."
NCBI gene IDs:
"Ex: 33218"
Figure legend: "(G) Moderate overexpression of untagged Kib is sufficient to induce formation of large micron-scale HpoKD-Venus condensates that primarily localise apically. DAPI marks nuclei (blue). (H) Overexpression of Kib-GFP with the Gal4/UAS system is sufficient to induce formation of large micron-scale cytoplasmic condensates."
NCBI gene IDs:
"Gal4: 855828
Kib: 41783"
Figure legend: "(A) Expression of KIB-GFP, KIB∆C-GFP or KIB∆M+C-GFP in human HEK293T cells and co-staining for pLATS. DAPI marks nuclei in blue."
NCBI gene IDs:
"GFP: 
KIB: 23286"
Figure legend: "A. Differentially expressed proteins in PtenStat3pc-/- vs. Ptenpc-/- proteomic samples. Colors indicate adj.p-value and log2-FC. (Black = Log2-FC ≤ 1 &amp; adj. p-value ≥ 0.05, orange = Log2-FC &gt; 1 &amp; adj. p-value ≥ 0.05, red = Log2-FC &gt; 1 &amp; adj. p-value &lt; 0.05). FC = fold change."
NCBI gene IDs:
"Pten: 19211
Stat3: 20848"
Figure legend: "B. STAT3 immunohistochemistry- staining of wild type, Ptenpc-/-, PtenStat3pc-/- mouse prostates. Scale bar = 100µm."
NCBI gene IDs:
"Pten: 19211
Stat3: 20848"
Figure legend: "E. Metabolite concentrations in nmol/µg of 5 metabolites in WT, Ptenpc-/- and PtenStat3pc-/- prostates. Box-plot shows median, 1st and 3rd quartiles, and whiskers extend to ± 1.5 interquartile range. Jitter represents biological replicates. ANOVA tests and Tukey multiple comparisons were applied. Red = PtenStat3pc-/- (n = 3), blue = Ptenpc-/- (n = 5), grey = wild type (WT, n=5), q = adj. p.-value, n.s. = not significant."
NCBI gene IDs:
"Pten: 19211
Stat3: 20848"
Figure legend: "B. Western blot of STAT3, PDK4 and β-TUBULIN proteins in 22Rv1 cells with or without knockdown of STAT3. Ctrl = scrambled control, shSTAT3 = short hairpin knockdown of STAT3."
NCBI gene IDs:
"STAT3: 6774"
Figure legend: "C. ChIP assay from IL-6 stimulated or non-stimulated 22Rv1 cells with or without knockdown of STAT3 was immunoprecipitated with a STAT3 specific antibody (blue shades) and IgG antibody as negative control (orange shades) followed by qPCR with a promoter- specific primer pair for the PDK4 gene. Bars represent mean ± SD from 2 technical replicates. Precipitated DNA is presented as % of input. One representative experiment is shown. Result of qPCR using primer pair 2 is shown. Ctrl = scrambled control, shSTAT3 = short hairpin knockdown of STAT3, +IL-6 = IL-6 stimulated."
NCBI gene IDs:
"PDK4: 5166
STAT3: 6774"
Figure legend: "D. Correlation of STAT3, c-MYC and HIF-1α with PDK1-4, PDC- genes (PDHA1, PDHB, PDHX, DLAT, DLD) and TCA/OXPHOS genes (CS, IDH2, IDH3A, SDHB, SDHC, ATP5A1, NDUFS1) in MSKCC PCa (GSE21032). Dot colors represent Pearson correlation (1 = red, -1 = blue), dot sizes represent adj. p-values ≤ 0.05. Only significant correlations are shown. P-values were adjusted with Benjamini-Hochberg method."
NCBI gene IDs:
"ATP5A1: 498
CS: 1431
DLAT: 1737
DLD: 1738
HIF-1α: 3091
IDH2: 3418
IDH3A: 3419
c-MYC: 4609
NDUFS1: 4719
PDHA1: 5160
PDHB: 5162
PDHX: 8050
PDK1: 5163
SDHB: 6390
SDHC: 6391
STAT3: 6774"
Figure legend: "Overview of the hippocampus of an AAV-APPsα injected cDKO mouse. HA-tag staining (red) reveals APPsα expression within the CA1, CA3 and DG of the hippocampus. Magnification shows the boxed CA1 region. Scale bars: 500 μm (left), 100 µm (right). DG: Dentate Gyrus, CA: Cornus Ammonis."
NCBI gene IDs:
"APPsα: 11820"
Figure legend: "Western blot analysis of APP expression in hippocampus of LM control (N=5) and cDKO mice (N=5) injected with AAV-Venus or AAV-APPsα. Age of mice: 5-6 months."
NCBI gene IDs:
"Venus: 
APPsα: 11820"
Figure legend: "LTP was induced at hippocampal CA3-CA1 synapses after 20 min baseline recordings (arrowhead, TBS). cDKO mice expressing Venus (red) exhibited significant lower induction and maintenance of LTP (128.12 ± 3.41%) compared to Venus injected LM controls (white, 156.69 ± 4.75%, ###p&lt;0.001). AAV mediated expression of APPsα (green) restored potentiation after start of baseline recording and resulted in an LTP curve comparable to that of LM controls. The LTP induction rate is shown as percentage % of mean baseline slope. Data points were averaged over 6 time points."
NCBI gene IDs:
"Venus: 
APPsα: 11820"
Figure legend: "The deficit of PPF in Venus injected cDKO mice at the 10 ms (#p&lt;0.05) and 20 ms (#p&lt;0.05) ISI was restored by expression of APPsα. n=number of slices. N=number of animals."
NCBI gene IDs:
"Venus: 
APPsα: 11820"
Figure legend: "The spine density deficit of Venus injected cDKOs mice (11% in basal and 18% in midapical dendrites) is rescued by APPsα to LM control levels. Images are maximum projections of deconvolved z-stacks. Scale bar: 5 µm. Spine density was normalized to LM control levels. n=number of neurons (from 5 animals per condition)."
NCBI gene IDs:
"Venus: 
APPsα: 11820"
Figure legend: "Compared to LM controls AAV-Venus injected cDKO mice show a significantly reduced basal (##p&lt;0.01, C) and apical (##p&lt;0.01, E) dendritic length and reduced branching in basal (##p&lt;0.01, D) and apical (##p&lt;0.01, F) dendrites. AAV-APPsα injection did neither affect basal (nsp&gt;0.05, C) nor apical (nsp&gt;0.05, E) total dendritic length. However, the total number of basal nodes differed significantly compared to AAV-Venus injected cDKO mice (*p&lt;0.05, D)."
NCBI gene IDs:
"Venus: 
APPsα: 11820"
Figure legend: "Sholl analysis of basal dendritic length reveals a significant group effect (repeated measures ANOVA: genotype F(2, 29)=5.038, p&lt;0.05) and a significant distance effect (repeated measures ANOVA: genotype F(5, 145)=250.2, p&lt;0.0001). Due to a significant interaction effect (repeated measures ANOVA: genotype F(10, 145)=4.466, p&lt;0.0001), a post-hoc Sidak's multiple comparison test was performed to further evaluate effects between groups at distinct distances from soma. Compared to Venus injection, AAV-APPsα injection of cDKO significantly increased basal dendritic length at 60 µm (*p&lt;0.05). H Sholl analysis of apical dendritic length reveals an overall significant group effect (repeated measures ANOVA: genotype F(2, 37)=4.776, p&lt;0.05) and a significant distance effect (repeated measures ANOVA: genotype F(18, 666)=47.54, p&lt;0.0001). Due to a significant interaction effect (repeated measures ANOVA: genotype F(36, 666)=1.640, p&lt;0.05), a post-hoc Sidak's multiple comparison test was performed to further evaluate effects between groups at distinct distances from soma. AAV-APPsα expression increased midapical dendritic length at 300 µm (**p&lt;0.01) and 330 µm (**p&lt;0.01) distance from soma compared to AAV-Venus injected cDKO mice."
NCBI gene IDs:
"Venus: 
APPsα: 11820"
Figure legend: "During acquisition learning and after platform reversal to the opposite quadrant, AAV-Venus injected cDKOs (red circles) show considerably longer escape latency compared to AAV-Venus injected LM controls (white circles). AAV-APPsα injected cDKO mice (green circles) show an overall intermediate performance (genotype F(2, 46)=6.361, p=0.0036) and that differs significantly at day 5 of reversal learning compared to AAV-Venus injected cDKO mice (genotype x day F(8,184)=5.266, p&lt;0.0001; **p&lt;0.01)."
NCBI gene IDs:
"Venus: 
APPsα: 11820"
Figure legend: "Measurements of swim path length confirms the training performance deficit of cDKO mice compared to LM controls. During the reversal phase, the performance of AAV-APPsα injected cDKOs is significantly improved at day 5 (genotype F(2,46)=16.70, p&lt;0.0001, genotype x day F(8,184)=5.788, p&lt;0.0001; *p&lt;0.05, p&lt;0.01)."
NCBI gene IDs:
"APPsα: 11820"
Figure legend: "In the probe trial, AAV-Venus injected cDKOs (red) spend significantly less time in the target zone compared to AAV-Venus (###p&lt;0.001) injected LM control animals (white) and failed to prefer it significantly over control zones in adjacent quadrants. Note that expression of APPsα (green) largely rescues the deficits of cDKOs. N=22 (LM controls: AAV-Venus), N=18 (cDKOs: AAV-Venus), N=18 (cDKOs: AAV-APPsα). Data represent mean ± SEM. Dashed lines: chance level. Data were analyzed using a mixed ANOVA model with conditions (LM control: AAV-Venus, cDKO: AAV-Venus and cDKO: AAV-APPsα) as between subject factor. Within subject factors were added to explore the dependence of genotype effects on day and place. Significant interactions and main effects were further explored by pairwise FDR-corrected two-tailed Student's t-tests. # indicates significant differences between LM control and cDKO injected with AVV-Venus, * between cDKO injected with AAV-Venus or APPsα, ● between LM control injected with Venus and cDKO injected with AAV-APPsα nsp&gt;0.05, */#/●p&lt;0.05, **/##/●●p&lt;0.01, ***/###/●●●p&lt;0.001."
NCBI gene IDs:
"Venus: 
APPsα: 11820"
Figure legend: "Overview of the hippocampus of a AAV-APPsβ (HA-tag, red) injected cDKO mouse. APPsβ is expressed in CA1, CA3 and DG. Scale bar: 500 μm. DG: dentate gyrus, CA: Cornus Ammonis."
NCBI gene IDs:
"HA: 
APPsβ: 11820"
Figure legend: "Western blot analysis of HA-APPsα and HA-APPsβ in hippocampi of injected mice (boxed upper panel), probed with an HA-tag specific antibody (lower band, arrowhead; *unspecific signal). Homogenates of AAV injected hippocampi were subjected to ultracentrifigation to detect soluble APPsα and APPsβ (UC supernatant; boxed lower panel). The APP C-terminal antibody Y188 was used to confirm the separation of soluble APPsα from membrane bound full-length APP that is detected in total lysates of AAV-Venus injected littermate controls. Hippocampi of APP-/- mice served as a negative control for antibody specificity."
NCBI gene IDs:
"HA: 
Venus: 
APP: 11820
APPsα: 11820
APPsβ: 11820"
Figure legend: "Quantification of HA-APPsα and HA-APPsβ expression in total hippocampal homogenates and of soluble HA-APPs after UC normalized to β-tubulin. Note the comparable expression in AAV-APPsα and AAV-APPsβ injected mice. Age: 5-6 months. N=Number of animals. Data represent mean ± SEM. Data were analyzed by unpaired two-tailed Student's t test. nsp&gt;0.05."
NCBI gene IDs:
"APPsα: 11820
APPsβ: 11820"
Figure legend: "Activity dependent synaptic plasticity was investigated in cDKO after injection of AAV-Venus (red) or APPsβ (blue). F, G AAV-mediated overexpression of APPsß (n=23 slices, blue symbols) failed to rescue the LTP defect of cDKO mice (n=24 slices, red symbols). G TBS induced strengthening of fEPSPs resulted in similar potentiation levels for the last 5 minutes of recording (t75-80). The LTP induction rate is shown as percentage % of mean baseline slope. Data points were averaged over 6 time points. H PPF paradigm yielded no significant differences between viral vector injected cDKO mice. Age: 5-6 months. n=number of recorded slices. N=number of animals. Data represent mean ± SEM. Data were analyzed unpaired two-tailed Students t-test."
NCBI gene IDs:
"Venus: 
APPsß: 11820
APPsβ: 11820"
Figure legend: "Representative images of Golgi stained midapical and basal dendritic segments of LM control and cDKO animals injected with AAV-Venus or AAV-APPsβ."
NCBI gene IDs:
"Venus: 
APPsβ: 11820"
Figure legend: "The significant spine density deficit of AAV-Venus injected cDKO mice (red bar) in basal (J) and apical dendrites (K) was comparable and not significantly different (nsp&gt;0.05) from that of AAV-APPsβ injected cDKO mice (blue bar). White bar: AVV-Venus injected LM controls. Images are maximum projections of z-stacks. Scale bar: 5 µm. Spine density is normalized to LM control levels. Age: 5-6 months; n=number of neurons (from 5 animals per condition). Data represent mean ± SEM. Data were analyzed by one-way ANOVA followed by Bonferroni´s post-hoc test. *p&lt;0.05, **p&lt;0.01, ***p&lt;0.001, ****p&lt;0.0001 ."
NCBI gene IDs:
"Venus: 
APPsβ: 11820"
Figure legend: "Nicotine- and acetylcholine-induced whole-cell current traces of α7-nAChRs expressed in Xenopus oocytes recorded in the absence or presence of CTα16 or CTα16scr, respectively. Note specific robust potentiation of nicotine- and acetylcholine-induced currents by CTα16, but no direct activation of α7-nAChRs by either peptide in the absence of agonist (not shown). Bars indicate application of EC50 agonist concentrations and of the peptide indicated (green: CTα16: grey: CTα16scr). Quantification of potentiation shows that CTα16 enhances nicotine- and acetylcholine-induced currents to a similar extend whereas CTα16scr had no effect."
NCBI gene IDs:
"α7-nAChRs: 25302"
Figure legend: "B. Control or GOLPH3-KD HeLa cells expressing luminal SI-GFP or the chimeras of sucrose-isomaltase containing the N-terminal cytosolic tails of LCS, Gb3S, GM3S and GD3S were fixed and labelled for surface localized GFP (red). Scale bar, 20 μm."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "F. GOLPH3-KD or OE HeLa cells were processed for ShTxB (upper panels) or ChTxB (lower panels) staining followed by flow cytometry analysis. Flow cytometry distributions and the relative scatter plots reporting the percentage of positive cells are shown for each condition."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "A. HeLa cells mock-treated or GOLPH3-KD were transiently transfected with LCS_GFP_RUSH (for simplicity, referred in the text as LCS-GR) and subjected to the synchronisation protocol described in Materials and Methods. Cells were then subjected to IF at each indicated time point: LCS-GR (green), cis Golgi marker GM130 (red), and TGN marker TGN46 (blue). Representative individual Golgi mini-stacks are shown. Scale bar, 1 µm. LCS-GR intra-Golgi trafficking in mock or GOLPH3-KD conditions it has been quantified (right graph) by computational coalescence of line scans, and was performed by normalized line scan analysis (normalisation of the distances was performed considering the GM130 peak as 0, and the TGN46 peak as 1). The n indicated in the graph refers to the number of Golgi stacks analysed in each condition."
NCBI gene IDs:
"GFP: 
LCS: 9334
GOLPH3: 64083"
Figure legend: "B. Mock and GOLPH3-KD HeLa cells co-expressing LCS-GR and VSV-G were subjected to the co-synchronisation protocol described in Materials and Methods. Cells were then subjected to IF: LCS-GR or VSV-G (green), GM130 (blue), and TGN46 (red). Representative individual Golgi mini-stacks are shown. Scale bar, 1 µm. C. Quantification of the experiment in (B) was performed by normalized line scan analysis (normalisation of the distances was performed considering the GM130 peak as 0, and the TGN46 peak as 1); n indicated in the graph refers to the number of Golgi stacks analysed in each condition, individual data points and means ± SEM are shown, ***p &lt; 0.001 (Student's t test); ns, not significant. D "
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "D. HeLa cells were transfected with LCS-GR, subjected to the synchronisation protocol (see Materials and Methods), fixed and processed for cryoimmunolabeling with an anti-GFP antibody (15 nm gold particles) and anti-GM130 antibody (10 nm gold particles, black arrowheads) peri-Golgi vesicles containing LCS-GR are marked by red arrowheads. Scale bar, 150 nm."
NCBI gene IDs:
"LCS: 9334"
Figure legend: "G. HeLa cells expressing LCS-GR mock or GOLPH3-KD were treated and stained as in D. Black arrowheads indicate GM130; peri-Golgi vesicles containing LCS-GR are marked by red arrowheads. LCS-GR in the TGN is marked by blue arrowheads. Scale bar, 150 nm."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "H. Quantification of LCS-GR distribution (linear density, LD) across the stack and in peri-Golgi vesicles (data are means ± SEM, number of Golgi stacks is n=17 at 20 min for the CTRL, n=13 at 20 min for the GOLPH3 KD; *p &lt;0.05, **p &lt; 0.01; ***p &lt;0.001 [Student's t-test])."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "A. PHFs GOLPH3 OE (left), or KD (right), were fixed and processed for IF: Endogenous LCS (green), GOLPH3 (red), TGN46 or DAPI (blue). Dashed lines indicate cells overexpressing or interfered for GOLPH3. Scale bar, 20 µm. Quantification of the amount of endogenous LCS (right graph) at the Golgi; data are means ± SEM derived from two biological replicates, n=42 in CTRL, n=49 in GOLPH3 KD and n=27 in GOLPH3 OE; ***p &lt;0.001 [Student's t-test])."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "B. GOLPH3-OE HeLa cells were fixed and processed for IF: Endogenous LCS (green), GOLPH3 (red), and TGN46 (blue). Dashed lines indicate cells overexpressing GOLPH3. Scale bar, 20 µm. Quantification of the amount of endogenous LCS (right graph) at the Golgi (data are means ± SEM derived from two biological replicates, n=21 in CTRL, n=11 in GOLPH3 OE; ***p &lt;0.001 [Student's t-test])."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "C. GOLPH3 OE or KD HeLa cells expressing LCS-HA were fixed and processed for IF: HA (green). Asterisks indicate GOLPH3 OE cells. Scale bar, 20 µm."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "D. Assessment of LCS-GR synchronized transport in GOLPH3 OE or KD HeLa cells. Micrographs show cells at the indicated trafficking time points. Scale bar, 20 µm."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "G. GOLPH3 OE or KD HeLa cells expressing LCS-HA were treated with bafilomycin A1 (BafA1, 10 nM) for 16 hr, fixed, and processed for IF labelling: LCS (green), LAMP1 (red), and DAPI (blue). Arrowheads indicate LCS and LAMP1 co-localisation. Scale bar, 20 µm."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "I. GOLPH3 OE or KD HeLa cells expressing the indicated HA-tagged glycoenzymes were fixed and processed for IF. Asterisks indicate GOLPH3 OE cells. Scale bar, 20 µm."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "J. Number of glycoenzymes-HA positive spots per cell in GOLPH3-KD cells (left panel) and percentage of cells with glycoenzymes-HA in the ER in GOLPH3-OE cells (right panel) are plotted (n is indicated in the graph; data are means ± SEM; ***p &lt;0.001 [Student's t-test])."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "A. Effects of GOLPH3 KD or OE on glycosphingolipid synthetic flux as assessed by [3H]-sphingosine pulse (2 hr) and chase (indicated times), lipid extraction and HPTLC separation and radioactive counting (data are means ± SD of at least 3 independent experiments; *p &lt;0.05, **p &lt;0.01, ***p &lt;0.001 [Student's t-test])."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "B. Effects of GOLPH3 KD or OE on sphingolipid levels as assessed by LC/MS of HeLa cells (top) and PHFs (middle). Effects of LCS KD or OE on sphingolipid levels as assessed by LC/MS of HeLa cells (bottom) (data are means ± SD of at least 3 independent experiments; *p &lt;0.05, **p &lt;0.01, ***p &lt;0.001 [Student's t-test]). Targeted lipidomics data from this study are available at Metabolomics Workbench database with the following IDs: ST001673 for HeLa cells, and ST001672 for PHFs."
NCBI gene IDs:
"LCS: 9334
GOLPH3: 64083"
Figure legend: "C. Effects of GOLPH3 KD or OE on Gb3 as assessed by MALDI-MS after lipid extraction. Profiles are representative of 3 independent experiments. Untargeted lipidomics data from this study are available at Metabolomics Workbench database with the following ID: ST001674."
NCBI gene IDs:
"GOLPH3: 64083"
Figure legend: "E. Effects of GOLPH3 KD or OE on ceramide levels as assessed by LC/MS of HeLa cells (top) and PHFs (middle). Effects of LCS KD or OE on ceramide levels as assessed by LC/MS of HeLa cells (bottom). The dotted black box highlights the effects on C16:0 Cer (data are means ± SD of at least 3 independent experiments; *p &lt;0.05, **p &lt;0.01, ***p &lt;0.001 [Student's t-test]). Targeted lipidomics data from this study are available at Metabolomics Workbench database with the following IDs: ST001673 for HeLa cells, and ST001672 for PHFs."
NCBI gene IDs:
"LCS: 9334
GOLPH3: 64083"
Figure legend: "A. Cell lysates from HeLa cells KD or OE for either GOLPH3 or LCS were processed for SDS-PAGE and Western blotting with antibodies aimed at evaluating the activation status of the mTOR pathway. Data are representative of at least 3 independent experiments."
NCBI gene IDs:
"LCS: 9334
GOLPH3: 64083"
Figure legend: "B. Clonogenic assay of HeLa cells in adherence. 250 HeLa cells KD for either GOLPH3 or LCS were allowed to form colonies for 10 days. Afterward, colonies were fixed and stained as detailed in Materials and Methods. The graph on right reports the number of colonies per well in each indicated condition (data are means ± SEM of 3 independent experiments; *p &lt;0.05, **p &lt;0.01 [Student's t-test])."
NCBI gene IDs:
"LCS: 9334
GOLPH3: 64083"