EMBO/SourceData huggingface dataset:
Figure legend: "(E) Images of body plan maintenance in non-injured planarians that were injected with gfp-RNAi, exoc3-RNAi or exoc3-RNAi in combination with PA/PC injection Number ratios in the photographs indicate the total number of animals exhibiting the represented phenotype."
NCBI gene IDs:
"exoc3: 
gfp: "
Figure legend: "(F) RT-qPCR analysis of marker genes of early stem cell differentiation (prog-1 and prog-2) and late stem cell differentiation (Smed-odc1) in planarians exposed to the indicated treatment regiments on day-38 of the experiment as indicated in panel-B [n=3 biological replicates; log-transformed data were normally distributed (P&gt;0.05 as per Shapiro-Wilk test) and analyzed by one-way ANOVA and Dunnett's multiple comparison test]."
NCBI gene IDs:
"prog-1: 
prog-2: 
odc1: "
Figure legend: "B.  qRT-PCR expression  analysis of lncMN2 isoforms (left panel) and embedded miRNAs (right panel) in mESC  and EBs  differentiated for 6 days (EB6). Data, that are expressed as mean (error bars represent SD), were normalized over Atp50 mRNA (left) and snoRNA U25  (right) levels and reported as RNA fold over the control (mESC), set as 1. N=3 biological replicates. Data information: histogram Histogram dots represent single fields replicates. *P ≤ 0.05, **P ≤ 0.01, ***P ≤ 0.001, n.s.&gt; 0.05 (two-tailed, unpaired Student's t-test)."
NCBI gene IDs:
"lncMN2: 100043213
Atp50: 28080
snoRNA U25: 115489078"
Figure legend: "C. qRT-PCR expression  analysis of  lncMN2-202/203/204 isoforms (left panel), miR-325-3p (middle panel) and miR-384-5p (right panel) in WT, KO1 and KO2 EB6. Data information: histogram Histogram dots represent single fields replicates. *P ≤ 0.05, **P ≤ 0.01, ***P ≤ 0.001, n.s.&gt; 0.05 (two-tailed, unpaired Student's t-test)."
NCBI gene IDs:
"lncMN2: 100043213
miR-325-3p: 723929
miR-384-5p: 723861"
Figure legend: "E. Left: representative immunofluorescence  of the MN  marker Isl1 (red signals) in cells maintained in vitro for 14 days after EB6 dissociation (DIV14). DAPI counterstaining  in blue. Scale bar=100 mm.. Right: box plot shows the distribution of Isl1+ nuclei  with respect to the total  cell number marked with DAPI staining  in WT and in lncMN2   KO mutants (clone 1 and clone 2). Data are expressed as mean and error bars represent SD. The central band represents median and the whiskers represent the distribution that goes from the minimum value to the lower quartile and from the upper quartile to the maximum value. N=3 biological replicates and 10 fields were analyzed for each replicate. Scale bar=100 mm. Data information: *P ≤ 0.05, **P ≤ 0.01, ***P ≤ 0.001, n.s.&gt; 0.05 (two-tailed, unpaired Student's t-test)."
NCBI gene IDs:
"lncMN2: 100043213"
Figure legend: "B. qRT-PCR expression  analysis of  lncMN2-203 isoform, lncMN2-202/204,  miR-325-3p  and  miR-384-5p  embedded miRNAs in WT, ∆SP1 and ∆SP2 EB6. Data, that are expressed as mean (error bars represent SD), are normalized over Atp5o mRNA levels (for lncRNA isoform quantification) or over snoRNA U25  levels (for miRNA quantification) and are reported as RNA fold over the control (mESC), set as 1. N=3 biological replicates. Data are expressed as mean and error bars represent SD. Data information: histogram dots represent single fields replicates. *P ≤ 0.05, **P ≤ 0.01, ***P ≤ 0.001, n.s.&gt; 0.05 (two-tailed, unpaired Student's t-test)."
NCBI gene IDs:
"lncMN2-202: 100043213
lncMN2-203: 100043213
Atp5o: 28080
snoRNA U25: 115489078
miR-325-3p: 723929
miR-384-5p: 723861
SP1: 20683
SP2: 78912"
Figure legend: "C. Cytofluorimetric  analysis of cells from dissociated EB6. The right diagram reports the cell distribution (percentage of the peak) according to GFP  levels, from WT (gray line), ∆SP1 (purple line) and ∆SP2 (blue line) EB6. In the histogram aside, the percentage of GFP+ cells in WT, ∆SP1  and ∆SP2 is reported. Data are expressed as mean and error bars represent SD. N=3 biological replicates. Data are expressed as mean and error bars represent SD. Data information: histogram dots represent single fields replicates. *P ≤ 0.05, **P ≤ 0.01, ***P ≤ 0.001, n.s.&gt; 0.05 (two-tailed, unpaired Student's t-test)."
NCBI gene IDs:
"SP1: 20683
SP2: 78912"
Figure legend: "Percent colocalization of vDNA foci detected by click chemistry to PML at 3 dpi in SCG neurons with HSV-1EdC infected with ICP0-null mutant HSV-1, n212, or a rescued HSV-1 virus, n212R, in P6 SCG neurons treated with IFNα for 18 hours prior to infection or for 18hours at 3 days prior to infection. Each point represents the percentage of 20 vDNA foci that colocalized to PML from 3 biological replicates."
NCBI gene IDs:
"ICP0: 2703389"
Figure legend: "Number of Us11-GFP expressing neurons at 3 days post-LY294002-induced reactivation in P6 SCG neuronal cultures transduced with shRNA targeting PML for 3 days prior to infection with HSV-1 in the presence or absence of IFNα (150 IU/ml). n=9 biological replicates."
NCBI gene IDs:
"PML: 18854"
Figure legend: "Number of Us11-GFP expressing neurons at 3 days post-LY294002-induced reactivation in P6 SCG neuronal cultures transduced with shRNA targeting PML at 1 day post-infection with HSV-1 in the presence or absence of IFNα (150 IU/ml). n=9 biological replicates. Statistical comparisons were made using a Mann-Whitney test (ns not significant, * P&lt;0.05)."
NCBI gene IDs:
"PML: 18854"
Figure legend: "(A) Sanger sequence trace showing homozygosity for the c.469C&gt;T mutation, predicting a stop codon in exon 6 of GRK2 (arrow)."
NCBI gene IDs:
"GRK2: 156"
Figure legend: "(D) Expression of GRK2 as measured by RT-PCR in three replicates each of control and R05-365A fibroblasts, demonstrating absence of GRK2 transcript in ATD cells. GAPDH served as a positive control."
NCBI gene IDs:
"GAPDH: 2597
GRK2: 156"
Figure legend: "(B) Picrosirius red staining of the femoral growth plates of a control and the ATD R05-365A fetus. The control growth plate shows normal architecture with clearly distinguishable reserve (R), proliferating (P) and hypertrophic (H) zones. A profound disruption of growth plate architecture is obvious in the GRK2-/- growth plate, which shows irregularly-shaped reserve zone chondrocytes, a lack of discernable proliferating chondrocytes and a significantly under-developed hypertrophic zone. Scale bars, 100 μm."
NCBI gene IDs:
"GRK2: 156"
Figure legend: "(E) Alcian blue staining of the chicken limb bud micromasses treated with GRK2 inhibitor CMPD101. Note the gradual inhibition of the cartilage nodules with increasing concentration of CMPD101, quantified below. Mean ± SEM. Mann-Whitney U test; number of micromasses is indicated. A representative experiment of four (pH 2.5) and three (pH 1.0) is shown. Scale bar, 100 μm. (F) Alcian blue staining of the micromasses generated from Grk2+/+ and Grk2-/- NIH3T3 cells. Note the mildly weaker staining by alcian blue pH 2.5 and the nearly absent sulfation stained by alcian blue pH 1.0 in the Grk2-/- micromasses. Central band, median. Box, 1st-3rd quartile. Whiskers, 10%-90% percentile. Mann-Whitney U test; number of micromasses is indicated. Scale bar, 1 mm. "
NCBI gene IDs:
"Grk2: 110355"
Figure legend: "(A,B) Defective GLI3 processing in GRK2-/- fibroblasts. Cells were serum-starved to induce cilia before treatment with the Hh pathway activator SAG (Smoothened agonist), and the whole cell lysates were immunoblotted for GLI3. Note the SAG-mediated downregulation of both full-length (FL) and repressor (R) GLI3 in control fibroblasts, demonstrating normal processing. There was no effect of SAG on GLI3 processing in GRK2-/- cells. A representative experiment of four is shown. (B) Quantitation of the GLI3FL to GLI3R ratio using densitometry. Mean ± SEM. Mann-Whitney U test; number of biological replicates is indicated."
NCBI gene IDs:
"GRK2: 156"
Figure legend: "(C) Defective SAG response in GRK2-/- fibroblasts. Cells were treated with SAG for 24 hours. Transcript levels of GLI3 targets GLI1 and PTCH1 were determined by qRT-PCR; GAPDH was used for normalization. Note the SAG-mediated induction of GLI1 and PTCH1 expression in controls but not in GRK2-/- cells. Mean ± SEM. Mann-Whitney U test; number of biological replicates is indicated."
NCBI gene IDs:
"GAPDH: 2597
GLI1: 2735
GLI3: 2737
GRK2: 156
PTCH1: 5727"
Figure legend: "(D) Under-phosphorylation of Smoothened (SMO) in GRK2-/- fibroblasts. Lysates of SMO-transfected cells were resolved by the phospho(p)-shift PAGE and immunoblotted for SMO. The portion of pSMO analyzed by densitometry is shown. GRK2 add-back demonstrates a rescue of the pSMO in GRK2-/- fibroblasts. Mean ± SEM. Mann-Whitney U test; number of biological replicates is indicated."
NCBI gene IDs:
"GRK2: 156
SMO: 6608"
Figure legend: "Defective SMO accumulation in cilia of GRK2-/- fibroblasts. Cells were treated with SAG and immunostained for SMO, ARL13B and pericentrin. Note the failure in SMO accumulation in cilia of GRK2-/- cells (arrow). Scale bar, 2 µm (E)."
NCBI gene IDs:
"GRK2: 156"
Figure legend: "Defective SMO accumulation in cilia of GRK2-/- fibroblasts. The percentage of SMO-positive cilia was calculated and plotted. Mean ± SEM. Welch´s t-test; number of biological experiments and the total numbers of analyzed cilia are indicated (F)."
NCBI gene IDs:
"GRK2: 156"
Figure legend: "Defective SMO accumulation in cilia of GRK2-/- fibroblasts. The intensity of ciliary SMO was analyzed and plotted. Central band, median. Box, 1st-3rd quartile. Whiskers, 10%-90% percentile. Mann-Whitney U test; number of biological experiments and the total numbers of analyzed cilia are indicated (G)."
NCBI gene IDs:
"GRK2: 156"
Figure legend: "Defective SMO cilia accumulation in chondrocytes with downregulated GRK2. (E) Doxycycline (DOX)-inducible GRK2 downregulation in control human R00-082 chondrocytes, tested by western blot, normalized to actin and plotted below. Mean ± SEM. Welch´s t-test; number of biological experiments is indicated. shScr, scramble shRNA."
NCBI gene IDs:
"GRK2: 156"
Figure legend: "(F) Cells pre-treated with DOX for three days were serum starved, SAG treated, stained and analyzed as in (A,B), and the intensity of ciliary SMO was analyzed and plotted. Note the impaired SMO translocation to cilia caused by GRK2 loss. Central band, median. Box, 1st-3rd quartile. Whiskers, 10%-90% percentile. Mann-Whitney U test; number of biological experiments and the total numbers of analyzed cilia are indicated. Scale bar, 1 µm."
NCBI gene IDs:
"GRK2: 156"
Figure legend: "(A) Control and GRK2-/- fibroblasts were transfected with the TOPflash Firefly (F) luciferase vector together with a control Renilla (R) luciferase vector, and the effect of Wnt3A on TOPflash transcriptional activation was determined by dual-luciferase assay. Note the impaired response to Wnt3A in GRK2-/- cells. Mean ± SEM. Welch´s t-test; number of biological experiments is indicated."
NCBI gene IDs:
"luciferase: 
GRK2: 156"
Figure legend: "C) Low phosphorylation (p) of Wnt3A co-receptor LRP6 as determined by western blot with pS1490- and pT1572-LRP6 specific antibodies, reduced LRP6 and DVL2 expression, and increased steady state phosphorylation of DVL2. (C) Densitometry of western blot results demonstrating decreased levels of LRP6 in GRK2-/- cells, lower response of GRK2-/- cells to Wnt3A by LRP6 phosphorylation at S1490, and tendency towards the similar defect at T1572. Densitometry also showed less of total DVL2 levels, and increased steady state pDVL2 in GRK2-/- cells. Mean ± SEM. Mann-Whitney U test; number of biological experiments is indicated."
NCBI gene IDs:
"GRK2: 156"
Figure legend: "(D) Loss of interaction between Frizzled 4 (FZD4) and ß-Arrestin 2 (ARRB2) in GRK2-/- fibroblasts. Proximity ligation assay (PLA) between expressed FZD4-GFP and ARRB2-Flag showed significantly reduced proximity events between the two proteins in GRK2-/- cells. White dashed lines outline the transfected cells. Central band, median. Box, 1st-3rd quartile. Whiskers, 10%-90% percentile. Mann-Whitney U test; number of biological experiments and the total numbers of analyzed cells are indicated. Scale bar, 10 µm."
NCBI gene IDs:
"ARRB2: 409
FZD4: 8322
GRK2: 156"
Figure legend: "(A) Control (+/+) and Grk2-/- NIH3T3 cells were transfected with the TOPflash Firefly (F) luciferase vector together with a control Renilla (R) luciferase vector, treated with Wnt3A (100 ng/ml) for 24 hours and subjected to dual-luciferase assay. Note the impaired response to Wnt3A in Grk2-/- cells. Mean ± SEM. Mann-Whitney U test; number of biological experiments is indicated."
NCBI gene IDs:
"luciferase: 
Grk2: 110355"
Figure legend: "(B) Control (+/+) and Grk2-/- NIH3T3 cells were treated with 40 ng/ml Wnt3A for 1 hour. Note the lower LRP6 expression and inhibited Wnt3A-induced LRP6 phosphorylation in the Grk2-/- NIH3T3 cells. Mean ± SEM. Welch´s t-test; number of biological experiments is indicated."
NCBI gene IDs:
"Grk2: 110355"
Figure legend: "Loss of interaction between Frizzled 4 (FZD4) and ß-Arrestin 2 (ARRB2) in Grk2-/- NIH3T3 cells. (E) Proximity ligation assay (PLA) between expressed FZD4-GFP and ARRB2-Flag showed significantly reduced proximity events between the two proteins in Grk2-/- cells. White dashed lines outline the transfected cells. Central band, median. Box, 1st-3rd quartile. Whiskers, 10%-90% percentile. Mann-Whitney U test; number of biological experiments and the total numbers of analyzed cells are indicated. Scale bars, 10 µm."
NCBI gene IDs:
"Flag: 
GFP: 
ARRB2: 409
FZD4: 8322
Grk2: 110355"
Figure legend: "Loss of interaction between Frizzled 4 (FZD4) and ß-Arrestin 2 (ARRB2) in Grk2-/- NIH3T3 cells. (F) GRK2 addback rescued the interaction. White dashed lines outline the transfected cells. Central band, median. Box, 1st-3rd quartile. Whiskers, 10%-90% percentile. Mann-Whitney U test; number of biological experiments and the total numbers of analyzed cells are indicated. Scale bars, 10 µm."
NCBI gene IDs:
"Grk2: 110355
GRK2: 110355"
Figure legend: "C. Analysis of TRAPPC2 (green), TRAPPC8 (blue) and TRAPPC9 (orange) localization at SGs upon TRAPPC2, TRAPPC4 TRAPPC8 and TRAPPC9 depletion. Mean ± s.e.m. n&gt;100. *p&lt;0.05; ns: not significant, One-way ANOVA with Dunnett's multiple comparison test."
NCBI gene IDs:
"TRAPPC2: 6399
TRAPPC4: 51399
TRAPPC8: 22878
TRAPPC9: 83696"
Figure legend: "E. Analysis of TRAPPC2 localization at SGs upon CLIC1, CRYAB and ENO1 depletion. Mean ± s.e.m. n&gt;100. ****p&lt;0.0001; ns: not significant, One-way ANOVA with Dunnett's multiple comparison test."
NCBI gene IDs:
"CLIC1: 1192
CRYAB: 1410
ENO1: 2023"
Figure legend: "D. Representative images of TRAPPC2 localization in Sec23AB-KD and Sec24ABCD-KD cells treated with SA. Cells were fixed and visualized by fluorescence microscopy using anti-TRAPPC2 Ab, anti-G3BP Ab (to label SGs) and DAPI (blue). Data information: Scale bars, 10 µm."
NCBI gene IDs:
"Sec23A: 10484
Sec24A: 10802"
Figure legend: "F. Representative images of Sec24C localization at SGs (stained for G3BP) in TRAPPC3-KD and TRAPPC2-KD cells treated with SA. Depletion of the entire TRAPP complex (via TRAPPC3 depletion) or of only TRAPPC2 reduces Sec24C recruitment. Graph, quantification of Sec24C at SGs, calculated as in (E). Mean ± s.e.m., n = 40-60 cells per experiment, N = 3. ****p&lt; 0.0001, One-way ANOVA with Dunnett's multiple comparison test. Data information: Scale bars, 10 µm."
NCBI gene IDs:
"TRAPPC2: 6399
TRAPPC3: 27095"
Figure legend: "G. Representative images of Sec24C localization at SGs (stained for G3BP) in TRAPPC2-KO cells treated with SA. Data information: Scale bars, 10 µm."
NCBI gene IDs:
"TRAPPC2: 6399"
Figure legend: "B. Stabilizing TRAPP and COPII at the ERES prevents their relocalization to SGs. HeLa cells overexpressing GFP-Sar1H79G were treated with SA and immunostained for Sec24C, TRAPPC2, and eIF3, as indicated. Blue, DAPI. Graphs show quantification of Sec24C or TRAPPC2 at SGs in GFP-Sar1H79G-expressing cells. Data are the ratio between Sec24C or TRAPPC2 mean intensity in SG puncta and Sec24C or TRAPPC2 mean intensity at ERES, expressed as a percentage of the non-transfected (NT) cells. Mean ± s.e.m. n = 60-70, three independent experiments. ****p&lt;0.0001, Student's unpaired two-tailed t-test. Data information; Scale bars, 10 µm."
NCBI gene IDs:
"GFP: 
Sar1: "
Figure legend: "C. Effect of Sec31A depletion on TRAPPC2 recruitment to SGs. Cells were mock-treated or KD for Sec31, treated with SA, and then immunostained for TRAPPC2 and eIF3 as indicated. Graphs, quantification of TRAPPC2 at ERES and SGs after SA treatment. Mean ± s.e.m., one representative experiment; n=60-80. ** p&lt;0.001, ****p&lt;0.0001, Student's unpaired two-tailed t-test. Data information; Scale bars, 10 µm."
NCBI gene IDs:
"Sec31: 22872
Sec31A: 22872"
Figure legend: "D. Effect of Sec31A depletion on Sec24C recruitment to SGs. Cells were mock-treated or KD for Sec31 and then immunostained for Sec24C and cTAGE5 (to stain ERES, top panels) and for eIF3 (bottom panels). Insets show eIF3. Graphs, quantification of Sec24C at ERES and in SGs after SA treatment. n=80. ****p&lt;0.0001, Student's unpaired two-tailed t-test. Data information; Scale bars, 10 µm."
NCBI gene IDs:
"Sec31: 22872
Sec31A: 22872"
Figure legend: "E. Analysis of Sec24C recruitment to SGs in control and CDK1+2-KD HeLa cells. Different levels of CDK1+2 KD were achieved by transfecting cells with different amounts of siRNA for different times (2 nM 24 h; 5 nM 24 h; 5 nM 48 h; 20 nM 48 h) to give 50, 30, 20 and 10%, respectively, of the CDK1+2 levels in the control. CDK1+2 levels measured by qRT-PCR and Sec24C recruitment to SGs were evaluated from parallel cultures. Sec24C recruitment to SGs was performed by automated microscopy as described in (A) and is expressed as a percentage of mock (CTRL, set at 100%) ± s.d. N=8."
NCBI gene IDs:
"CDK1: 983"
Figure legend: "D. HeLa cells transfected with HA-hnRNPK were left untreated (Steady state) or treated with SA (300µM, 30 min) or SA+Dinaciclib (10 µM, 150 min) and then immunostained with anti-HA and anti-G3BP antibodies. Data information Scale bars, 10 µm."
NCBI gene IDs:
"HA: 
hnRNPK: 3190"
Figure legend: "E. TRAPPC2 interacts with hnRNPK. (Top) SDS-PAGE and Western blot analysis of endogenous hnRNPK after immunoprecipitation with an anti-TRAPPC2 Ab or IgG, and (bottom) after immunoprecipitation with an anti-HA Ab from cells transfected (+) or not (-) with hnRNPK-HA detected with the indicated antibodies."
NCBI gene IDs:
"HA: 
hnRNPK: 3190"
Figure legend: "F. Mock or hnRNPK KD cells treated with SA were immunostained for TRAPPC2 and eIF3. Data information: Scale bars, 10 µm."
NCBI gene IDs:
"hnRNPK: 3190"
Figure legend: "G. Mock or hnRNPK KD cells treated with SA were immunostained for Sec24C and G3BP. Data information: Scale bars, 10 µm."
NCBI gene IDs:
"hnRNPK: 3190"
Figure legend: "H. Graphs show quantification of TRAPPC2 and Sec24C redistribution to SGs in mock treated (CTRL) and hnRNPK KD cells. n&gt;100, N=3 mean ± s.d. ***p&lt;0.001.****p&lt;0.0001, Student's unpaired two-tailed t-test."
NCBI gene IDs:
"hnRNPK: 3190"
Figure legend: "A. SG area in mock, TRAPPC2 TRAPPC3, TRAPPC8, and TRAPPC9-depleted cells treated with SA. Data are shown in box-and-whisker plots: Box-plot central line, median; box limits, upper and lower quartiles; whiskers show the minimum to maximum. N=3. ***p&lt;0.001, ****p&lt;0.0001, One-way ANOVA with Dunnett's multiple comparison test."
NCBI gene IDs:
"TRAPPC2: 6399
TRAPPC3: 27095
TRAPPC8: 22878
TRAPPC9: 83696"
Figure legend: "Localization of Raptor (D) in mock, TRAPPC3-KD and TRAPPC2-KD HeLa cells treated with SA. G3BP was used to stain SGs. Scale bar, 10 µm. Each graph shows the quantification (mean intensity) of the respective protein in SG spots expressed as a percentage of the mock (TRL). Mean ± S.D. three independent replicates. *p&lt;0.02; **p&lt;0.009 in (D) , One-way ANOVA with Dunnett's multiple comparison test."
NCBI gene IDs:
"TRAPPC2: 6399
TRAPPC3: 27095"
Figure legend: "Localization of RACK1 (E) in mock, TRAPPC3-KD and TRAPPC2-KD HeLa cells treated with SA. G3BP was used to stain SGs. Scale bar, 10 µm. Each graph shows the quantification (mean intensity) of the respective protein in SG spots expressed as a percentage of the mock (TRL). Mean ± S.D. independent replicates. , *p&lt;0.05; ****p&lt;0.0001 in (E), One-way ANOVA with Dunnett's multiple comparison test."
NCBI gene IDs:
"TRAPPC2: 6399
TRAPPC3: 27095"
Figure legend: "K. Analysis of cell death in HeLa cells that were left untreated, treated with non-targeting siRNAs or siRNAs against TRAPPC2, and in two cell clones knocked out for TRAPPC2, with and without SA treatment. Mean ± s.d. of three independent replicates."
NCBI gene IDs:
"TRAPPC2: 6399"
Figure legend: "D. HeLa cells expressing VSV-G-UVR8 mEOS were left untreated or treated with SA alone or in combination with ISRIB (1 µM) (120 min ISRIB pre-treatment and 30 min SA+ISRIB) and then pulsed with blue light. Images were taken 10 min after the UV pulse and processed for staining with the indicated markers. E. Cells were treated with SA for 30 min, the SA was washed out (WO), and cells were left to recover for 120 min in the presence of cycloheximide, followed by a blue light pulse and processing for staining as described in (D). F. Quantification of VSV-G (mean intensity) in the Golgi area to the total VSV-G per cell under the conditions described in (D,E). Data are expressed as percentage of the control. Mean ± s.e.m. of three independent experiment. ****p&lt;0.0001; ns: not significant, One-way ANOVA with Dunnett's multiple comparison test. Data information: Scale bars, 10 µm."
NCBI gene IDs:
"VSV-G: 
UVR8: 836506"
Figure legend: "G. HeLa cells transfected or not with WT GFP-Rab1B were left untreated or treated with SA and stained for GM130 and G3BP to monitor SGs. Dashed white line, WT GFP-Rab1B transfected cells. Scale bar, 10 µm. The graph shows quantification of Golgi objects in the different conditions. NT: non-transfected. Mean ± s.e.m. of three independent experiments. ****p&lt;0.0001, Student's unpaired two-tailed t-test."
NCBI gene IDs:
"GFP: 
Rab1B: 81876"
Figure legend: "A, Distribution and classification of MAP4K3/GLK-positive cells in 20 ml BALFs  of all 12 individuals (A), Φ denotes macrophages; N denotes neutrophils; T denotes T cells; E denotes  epithelial cells."
NCBI gene IDs:
"GLK: 8491
MAP4K3: 8491"
Figure legend: "3 healthy controls (HC, #1 - #3), 3 mild  COVID-19 patients  (#1 - #3), and 6 severe COVID-19 patients  (#1 - #6) (B) from Cohort #1. Data were shown in UMAP. Single-cell  gene expression of MAP4K3  (GLK) in individual cells was shown in color scale."
NCBI gene IDs:
"GLK: 8491
MAP4K3: 8491"
Figure legend: "C, D The percentages of MAP4K3/GLK-positive KRT18+ epithelial  (C) or KRT18+ TPPP3+ ciliated epithelial cells  (D) in BALFs  from Cohort #1. Data information: In (C, D), *, P value &lt; 0.05 (ANOVA test); §, P value &lt; 0.05 (Dunnett's test)."
NCBI gene IDs:
"GLK: 8491
MAP4K3: 8491"
Figure legend: "E, F GLK  mRNA levels in KRT18+ epithelial  (E) or KRT18+ TPPP3+ ciliated epithelial cells  (F) of Cohort #1. n (cell number) = 3, 14, 33 for HC; n = 65, 43, 74 for mild COVID-19 patients; n = 164, 62, 10, 4, 74, 66 for severe COVID-19 patients  (E). n = 25, 43, 36 for HC; n = 209, 244, 141 for mild COVID-19 patients; n = 189, 223, 330, 792, 80, 243 for severe COVID-19 patients  (F). Data information: In (E, F), *, P value &lt; 0.05; **, P value &lt; 0.01; ***, P value &lt; 0.001; ****, P value &lt; 0.0001 (Kruskal-Wallis test)."
NCBI gene IDs:
"GLK: 8491"
Figure legend: "Real-time PCR  analysis of mouse GLK  mRNA levels in HCC827 lung epithelial cells infected with SARS-CoV-2 pseudovirus (B) The mRNA levels of GLK  were normalized to GAPDH  mRNA levels. n = 2 (technical replicates) per group. Data information: In (B data are presented as means. Data shown are representative results of three B, independent experiments."
NCBI gene IDs:
"GAPDH: 2597
GLK: 225028"
Figure legend: "Real-time PCR  analysis of mouse GLK  mRNA levels in HCC827 lung epithelial cells treated with the SARS-CoV-2 spike  protein (D). The mRNA levels of GLK  were normalized to GAPDH  mRNA levels. n = 2 (technical replicates) per group. Data information: In D), data are presented as means. Data shown are representative results of three D) independent experiments."
NCBI gene IDs:
"GAPDH: 2597
GLK: 225028"