EMBO/SourceData huggingface dataset:
Figure legend: "A B16F10 melanoma cells with either mTRF2 overexpression or knockdown were inoculated into the backs of immunocompetent mice. The percentages of intratumoral CD11bHi GR1Hi MDSCs (n = 10 mice), CD25+ Foxp3+ regulatory T cells (Tregs), or CD25+ Foxp3− activated T cells (n = 5 mice per group) among CD45+ cells were analyzed by fluorescence-activated cell sorting (FACS) and represented as box plots Data information: data are presented by Box plots Min to Max showing all points with median. *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001 and ****p &lt; 0.0001; Mann-Whitney test."
NCBI gene IDs:
"TRF2: 21750"
Figure legend: "TRF2-overexpressing or -knockdown BJcl2 cells were inoculated into the backs of immunodeficient mice in the presence of Matrigel. Five days later, the percentage of immune cells infiltrating the Matrigel plugs of CD11bHi GR1Hi MDSCs (C) were determined by FACS (n = 5 mice per group)."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "TRF2-overexpressing or -knockdown BJcl2 cells were inoculated into the backs of immunodeficient mice in the presence of Matrigel. Five days later , the intranuclear staining of pSTAT3 (D) were determined by FACS (n = 5 mice per group)."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "TRF2-overexpressing or -knockdown BJcl2 cells were inoculated into the backs of immunodeficient mice in the presence of Matrigel. Five days later, CD3− NKp46+ and IFN-γ+ among CD3− NKp46+ NK cells (E) were determined by FACS (n = 5 mice per group)."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "Linear correlation plot of the percentage of IFN- γ + NK cells, the mean of fluorescence intensity (MFI) of pSTAT3 for MDSCs, and the expression of TRF2 (r2= 0,5177; Pearson's correlation, p = 0.003) (F) Data information: data are presented by Box plots Min to Max showing all points with median. *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001 and ****p &lt; 0.0001; Mann-Whitney test. Pearson correlation and p values are indicated."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "the mRNA expression level in the matrigel plugs of arg1, pSTAT3 MFI and TRF2 expression (r2= 0,7077; Pearson's correlation, p &lt; 0.0001) (G); the mRNA expression level in the matrigel plugs of tgfβ, pSTAT3 MFI and TRF2 expression (r2= 0,3669; Pearson's correlation, p = 0.0046) (H) and the mRNA expression level in the matrigel plugs of il-10, pSTAT3 MFI and TRF2 expression (r2= 0,7418; Pearson's correlation, p &lt; 0.0001) (I). Data information: data are presented by Box plots Min to Max showing all points with median. *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001 and ****p &lt; 0.0001; Mann-Whitney test. Pearson correlation and p values are indicated."
NCBI gene IDs:
"arg1: 11846
il-10: 16153
TRF2: 7014
tgfβ: 21803"
Figure legend: "B16F10 melanoma cells with or without mTRF2 overexpression were inoculated into the backs of immunocompetent mice and treated with anti-GR1 antibody or isotypic control (200µg/IP). The tumor volume was determined every 2 days using hemi-ellipsoid formula (B). Tumor volume are presented in mm3 along the time in days. All experiments are performed with n = 8 mice per group; *p &lt; 0.05, **p &lt; 0.01, and ***p &lt; 0.001; Mann-Whitney test."
NCBI gene IDs:
"TRF2: 21750"
Figure legend: "B16F10 melanoma cells with or without mTRF2 overexpression were inoculated into the backs of immunocompetent mice and treated with anti-GR1 antibody or isotypic control (200µg/IP). On day 19 of the tumor growth experiment, the percentages of GFP+ cells infiltrating the lungs were determined by FACS and presented as the number of GFP+ cells/mg lung tissue (C). Data information: data are presented by Box plots Min to Max showing all points with median corresponding to the percentages of each cell population among CD45+ cells or the indicated parent population or the number of lung nodules. All experiments are performed with n = 8 mice per group; *p &lt; 0.05, **p &lt; 0.01, and ***p &lt; 0.001; Mann-Whitney test."
NCBI gene IDs:
"GFP: 
TRF2: 21750"
Figure legend: "B16F10 melanoma cells with or without mTRF2 overexpression were inoculated into tail vein of immunocompetent mice and treated with anti-GR1 antibody or isotypic control (200µg/IP) every 3 days. On day 21, lung metastasis was analyzed by hematoxylin and eosin (H&amp;E) staining F), scale bars = 500µM. Data information: data are presented by Box plots Min to Max showing all points with median corresponding to the percentages of each cell population among CD45+ cells or the indicated parent population or the number of lung nodules. All experiments are performed with n = 8 mice per group; *p &lt; 0.05, **p &lt; 0.01, and ***p &lt; 0.001; Mann-Whitney test."
NCBI gene IDs:
"TRF2: 21750"
Figure legend: "BJcl2 cells with or without hTRF2 overexpression were inoculated into the backs of immunodeficient Nude mice and treated with anti-GR1 antibody or isotypic control (200µg/IP) and NK cells recruitment, degranulation and MDSC infiltration were monitored by FACS Density plot of CD11bHi GR1Hi MDSC staining in control or anti-GR1-treated Matrigel plugs (K)."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "BJcl2 cells with or without hTRF2 overexpression were inoculated into the backs of immunodeficient Nude mice and treated with anti-GR1 antibody or isotypic control (200µg/IP) and NK cells recruitment, degranulation and MDSC infiltration were monitored by FACS Box plots of the percentages of infiltrating or activated NK cells (CD107a or CD69) (L) Data information: data are presented by Box plots Min to Max showing all points with median corresponding to the percentages of each cell population among CD45+ cells or the indicated parent population or the number of lung nodules. All experiments are performed with n = 8 mice per group; *p &lt; 0.05, **p &lt; 0.01, and ***p &lt; 0.001; Mann-Whitney test."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "BJcl2 cells with or without hTRF2 overexpression were inoculated into the backs of immunodeficient Nude mice and treated with anti-GR1 antibody or isotypic control (200µg/IP) and NK cells recruitment, degranulation and MDSC infiltration were monitored by FACS Box plots of the percentages of CD11bHi GR1Hi MDSC or NKp46+ NK cells (M) infiltrating the Matrigel plugs assay among the CD45+ cells. Data information: data are presented by Box plots Min to Max showing all points with median corresponding to the percentages of each cell population among CD45+ cells or the indicated parent population or the number of lung nodules. All experiments are performed with n = 8 mice per group; *p &lt; 0.05, **p &lt; 0.01, and ***p &lt; 0.001; Mann-Whitney test."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "Analysis of STAT3 phosphorylation by MSC2 cells after 18 hours' co-culture with BJcl2 overexpressing or compromised for TRF2 Histograms of the pSTAT3 mean fluorescence intensity (MFI) (B)."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "+/- inhibitors: anti-mouse IL-6 or JAK1/2 inhibitor (Ruxolitinib) in (E)."
NCBI gene IDs:
"JAK1: 16451"
Figure legend: "TRF2-overexpressing or -knockdown BJcl2 cells were co-cultured with MSC2 cells for 18h +/- mouse IL6 blocking antibody or Ruxolitinib. After FACS sorting, MSC2 cells were co-cultured for 18h with primed and purified NK cells before a 4h challenge with YAK-1. NK cell degranulation and IFN-γ production were analyzed by FACS (G). Data information: Panels show all points with mean ± SEM corresponding to the percentages of each cell population among NK cells (G) (n = 3 independent experiments; *p &lt; 0.05, **p &lt; 0.01, and ***p &lt; 0.001; Student's t-test)."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "TRF2-overexpressing or -knockdown BJcl2 cells were co-cultured with MSC2 cells for 18h +/- mouse IL6 blocking antibody or Ruxolitinib. Alternatively, a 4h challenge with NIH3T3 cells was performed and the ability of NK cells to kill NIH3T3 cells were determined by colorimetric analysis (AlamarBlue) (H). Data information: Panels show all points with mean ± SEM corresponding to the percentage of specific target lysis (H) (n = 3 independent experiments; *p &lt; 0.05, **p &lt; 0.01, and ***p &lt; 0.001; Student's t-test)."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "Gene expression analysis by quantitative polymerase chain reaction (qPCR) of TRF2 target genes following TRF2 overexpression or knockdown. Data information: data represent n = 3 independent experiments with mean ± SEM"
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "D Specific qPCR for HS3SH4, GPC6, and VCAN ITSs after ChIP using an anti-H3K27ac antibody in TRF2-overexpressing or -knockdown BJcl2 cells. Data represent fold enrichment of the H3K27ac level compared with the total H3 level. Data information: data represent n = 3 independent experiments with mean ± SEM"
NCBI gene IDs:
"GPC6: 10082
HS3SH4: 9951
TRF2: 7014
VCAN: 1462"
Figure legend: "Histograms of the pSTAT3 mean fluorescence intensity (MFI) of MSC2 cells when TRF2 was overexpressed and the target gene knocked down (G) Data information MFI of n=3 independent experiment is normalized to controls and represented as fold change of MFI (n = 3 independent experiments; *p &lt; 0.05 and **p &lt; 0.01; Student's t-test)."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "Histograms of the pSTAT3 mean fluorescence intensity (MFI) of MSC2 cells when both TRF2 and its target gene were knocked down (H). Data information: MFI of n=3 independent experiment is normalized to controls and represented as fold change of MFI (n = 3 independent experiments; *p &lt; 0.05 and **p &lt; 0.01; Student's t-test)."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "I Histograms of tumor weights on day 19 after implantation of subcutaneous xenografts containing BJcl2 cells overexpressing or knocked down for HS3ST4 or GPC6 Data information: data are represented as mean +/- SEM (n = 8 mice per group; *p &lt; 0.05, and **p &lt; 0.01; Mann-Whitney test)."
NCBI gene IDs:
"GPC6: 10082
HS3ST4: 9951"
Figure legend: "C AFM images showing the Modulus heatmap (stiffness) in GFP-expressing or TRF2-overexpressing cancer cells. At each of the 128x128 force curve points, corresponding to an area of 10 μm2, the AFM software automatically displays the Sneddon modulus analysis while scanning the sample. The color bar on the left of the images shows a qualitative representation of the elastic map."
NCBI gene IDs:
"GFP: 
TRF2: 7014"
Figure legend: "D Analysis of pSTAT3 levels in MDSCs after co-culture with GFP-expressing or TRF2-overexpressing cancer cells treated with or without sodium chlorate (NaClO3). Data information: In (D), data represents mean of n = 3 independent experiments +/- SEM (***p &lt; 0.001; Student's t-test)."
NCBI gene IDs:
"GFP: 
TRF2: 7014"
Figure legend: "A Kaplan-Meier curves for overall survival of chemotherapy-treated patients according to the TRF2 expression level Data information: the optimal cut-off is determined on KMplot. The p value (log Rank test), the Hazard Ratio and number of patients are indicated."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "Immunocompetent mice were subcutaneously engrafted with B16F10 cells with or without TRF2 overexpression and treated with three intraperitoneal injections of 50 mg/kg 5-FU. The tumor volume was determined every 2 days using a caliper, and growth curves over time (C) Data information: , data represent mean values +/- SEM (n = 8 mice per group; *p &lt; 0.05 and **p &lt; 0.01; Mann-Whitney test)."
NCBI gene IDs:
"TRF2: 21750"
Figure legend: "Immunocompetent mice were subcutaneously engrafted with B16F10 cells with or without TRF2 overexpression and treated with three intraperitoneal injections of 50 mg/kg 5-FU. tumor volume were determined on day 19 and represented using Box plots Min to Max showing all points with median (D). Data information: (D), data are represented by Box plots Min to Max showing all points with median (n = 8 mice per group; *p &lt; 0.05 and **p &lt; 0.01; Mann-Whitney test)"
NCBI gene IDs:
"TRF2: 21750"
Figure legend: "Immunocompetent mice were subcutaneously engrafted with B16F10 cells with or without TRF2 overexpression and treated with three intraperitoneal injections of 50 mg/kg 5-FU. Overall survival was also determined (E)."
NCBI gene IDs:
"TRF2: 21750"
Figure legend: "A Kaplan-Meier curves for overall survival of patients at all stages of cancers (breast, gastric, ovarian, and lung cancer) depending on TRF2 expression level. Data information: For all panels, the optimal cut-off is determined on KMplot. The p value (log Rank test), the Hazard Ratio and number of patients are indicated."
NCBI gene IDs:
"TRF2: 7014"
Figure legend: "The overall survival of gastric cancer patients (all stages) was analyzed depending on TRF2 and its targets genes expression level (HS3ST4, GPC6 and VCAN collectively named the HSPG genes) Data information: For all panels, the optimal cut-off is determined on KMplot. The p value (log Rank test), the Hazard Ratio and number of patients are indicated."
NCBI gene IDs:
"GPC6: 10082
HS3ST4: 9951
TRF2: 7014
VCAN: 1462"
Figure legend: "F Overall survival of gastric cancer patients (all stages) analyzed depending on TRF2, HSPG genes (HS3ST4, GPC6 and VCAN) and MDSC level (Lo or Hi). Data information: For all panels, the optimal cut-off is determined on KMplot. The p value (log Rank test), the Hazard Ratio and number of patients are indicated."
NCBI gene IDs:
"GPC6: 10082
HS3ST4: 9951
VCAN: 1462"
Figure legend: "TLR9-deficient mice were analysed 10 weeks after TAC (e, f). e, Scale bars, 0.2 s and 5 mm. f, Echocardiographic parameters (n = 6-10 per group). Data are mean ± s.e.m. *P  0.05 versus all other groups."
NCBI gene IDs:
"TLR9: 81897"
Figure legend: "(C) CRIP1  mRNA expression  in the TCGA-LIHC  dataset. (D) mRNA levels of CRIP1  in the GSE36376 dataset from the GEO database. Data information: Data represent the mean ± SD of at least three independent experiments. *P &lt; 0.05, **P &lt; 0.01, and ***P &lt; 0.001. Differences were tested using a two-tailed, unpaired Student's t-test"
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(B) Tumor sphere formation assay in CRIP1-overexpressing Huh7  and Hep3B  cells. The data are shown as the relative fold change spheres  compared with the vector group (right). Scale bar: 50 μm. Data information: Data represent the mean ± SD at least three independent experiments. *P &lt; 0.05, **P &lt; 0.01 and ***P &lt; 0.001. Differences were tested using an unpaired 2-tailed Student's t-test (B,"
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(C)  Western blot  analysis of HCC  cancer  stem cell  markers in CRIP1-overexpressing Huh7  and Hep3B  cells."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(H) Tumor sphere formation assay in CRIP1-knockdown MHCC-97H and HepG2  cells. The data are shown as the relative fold change spheres  compared with the siCtrl group (right). Scale bar: 50 μm. Data information: Data represent the mean ± SD at least three independent experiments. *P &lt; 0.05, **P &lt; 0.01 and ***P &lt; 0.001. Differences were tested using an unpaired 2-tailed Student's t-test H,"
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(I) Western blot analysis of HCC  cancer stem cell markers in CRIP1-knockdown MHCC-97H and HepG2  cells."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(A) Western blot  analysis of BBOX1  protein levels in CRIP1-overexpressing Huh7  and Hep3B  cells. (B) Western blot analysis of BBOX1  protein levels in CRIP1  knockdown MHCC-97H and HepG2  cells."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(D) Western blot  analysis of BBOX1  in CRIP1-overexpressing Huh7  cells treated with CHX  (100 μg/ml) for the indicated durations (lfte). The graph shows quantification of relative BBOX1  levels (right). Data information: Data represent the mean ± SD of at least three independent experiments. *P &lt; 0.05 and **P &lt; 0.01. Differences were tested using an unpaired 2-tailed Student's t-test D)."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(E) Western blot  analysis of BBOX1  protein levels in CRIP1-overexpressing Huh7  and Hep3B  cells treated with MG132  (10 μM) for 10 h. D)."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(F) Co-immunoprecipitation and immunoblot  analyses of BBOX1 ubiquitination in CRIP1-overexpressing Huh7  and Hep3B  cells."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(G) Co-immunoprecipitation  and immunoblot  analyses of BBOX1 ubiquitination  in CRIP1-overexpressing Huh7  and Hep3B  cells transfected with STUB1  siRNAs."
NCBI gene IDs:
"CRIP1: 1396
STUB1: 10273"
Figure legend: "(J) Co-immunoprecipitation and immunoblot  analyses of the interaction  between STUB1  and BBOX1  and BBOX1 ubiquitination  in Huh7  cells transfected with STUB1-Myc  and CRIP1  siRNAs."
NCBI gene IDs:
"Myc: 
CRIP1: 1396
STUB1: 10273"
Figure legend: "(B) Co-immunoprecipitation and immunoblot  analyses of BBOX1 ubiquitination  in STUB1-overexpressing Huh7  and Hep3B cells transfected with BBOX1-WT or BBOX1  K240R mutant."
NCBI gene IDs:
"BBOX1: 8424
STUB1: 10273"
Figure legend: "(C) Western blot  analysis of BBOX1-WT or K240R mutant protein expression in Huh7  and Hep3B  cells transfected with increasing amounts of STUB1."
NCBI gene IDs:
"STUB1: 10273"
Figure legend: "tumor sphere formation ability and quantification of spheres (E), in STUB1-overexpressing Huh7  and Hep3B  cells transfected with BBOX1-WT or BBOX1  K240R mutant. Scale bar: 50 μm. Data information: Data represent the mean ± SD of at least three independent experiments. **P &lt; 0.01 and ***P &lt; 0.001. Differences were tested using an unpaired 2-tailed Student's t-test"
NCBI gene IDs:
"BBOX1: 8424
STUB1: 10273"
Figure legend: "protein levels  of HCC  cancer stem cell markers (G) in STUB1-overexpressing Huh7  and Hep3B cells transfected with BBOX1-WT or BBOX1  K240R mutant."
NCBI gene IDs:
"BBOX1: 8424
STUB1: 10273"
Figure legend: "Representative images of  tumor sphere formation and quantification of spheres (C) in CRIP1-overexpressing Huh7  cells with or without iCRT3  (50 μM) for 24 h. Scale bar: 50 μm. Data information: Data represent the mean ± SD of at least three independent experiments. **P &lt;0.01 and ***P &lt; 0.001. Differences were tested using an unpaired 2-tailed Student's t-test"
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(E) Western blot  analysis of HCC  cancer stem cell  markers in CRIP1-overexpressing Huh7  cells with or without iCRT3  (50 μM) for 24 h."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(F) Coimmunoprecipitation and immunoblot  analyses of β-catenin acetylation in CRIP1  knockdown MHCC-97H cells treated with mildronate  (5 mM) for 24 h."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(G) Western blot analysis of cytoplasmic  and nuclear  fractions of  β-catenin in CRIP1  knockdown MHCC-97H cells treated with mildronate  (5 mM) for 24h."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "(I)  Co-immunoprecipitation and immunoblot  analyses of β-catenin ubiquitination  in CRIP1  knockdown MHCC-97H cells treated with mildronate  (5 mM) and EX527  (20 μM) for 24 h."
NCBI gene IDs:
"CRIP1: 1396"
Figure legend: "D. Western blot analysis of NIH3T3 cells that had been transfected with a pRK5-RAGC-HA-GST expression plasmid or control vector and treated with EVs or PBS for 48 h, and then labeled with Puro."
NCBI gene IDs:
"GST: 
HA: 
RAGC: 64121"
Figure legend: "C. Dual luciferase assay of the psiCHECK reporters containing the 3'UTR of RRAGC that was wild-type, with all three miR-105 sites mutated, or with the miR-204 site mutated. NIH3T3 cells were co-transfected with the reporter and indicated miRNA mimic (n=3 biological replicates for each group)."
NCBI gene IDs:
"miR-105: 406898///406897
miR-204: 406987
RRAGC: 64121"
Figure legend: "A,B. A breast cancer tissue array was analyzed for correlations among RagC, miR-105, and miR-204 in tumor stroma by IHC/ISH-determined scores. Representative IHC and ISH images (A) and correlations determined by Kendall's tau correlation tests (N=24 independent tumors; Kendall's tau and two-sided P value as indicated) (B) are shown. Bar=200 μm."
NCBI gene IDs:
"miR-105: 406897///406898
miR-204: 406987"
Figure legend: "C,D. Xenograft mammary tumors formed from MCFDCIS cells overexpressing miR-105 or empty vector were collected from NSG mice for RagC IHC (n=5 tumors for each group). The relative intensity of RagC stain in tumor stroma was quantified by ImageJ. Bar=50 μm. In (D), data are presented as mean ± SD. *P&lt;0.05 (Student's t-test)."
NCBI gene IDs:
"miR-105: 406897///406898"
Figure legend: "C. Binding assay using MBP fused Apc1-loop500 fragments and B56γ. Apc1-loop500 WT or its derivatives (∆11 or 3A) were incubated with the 35S-labelled Flag-B56γ in interphase extract (Inter) or anaphase extract (Ana) supplemented with CycB∆167 at 23˚C for 1 hr. The bound proteins were recovered by amylose beads, separated by SDS-PAGE and detected by autoradiography or coomassie brilliant blue (CBB) staining. The bar graph is quantification of bound B56γ. The intensities of MBP control were arbitrarily set to 1.0. Error bars, s.e.m. from three independent experiments."
NCBI gene IDs:
"Flag: "
Figure legend: "(E) In vivo analyses of the Atg12 and Atg5 mutants for studying the functional significance of the non‐covalent Atg12‐Atg5 interactions. Yeast cells with or without starvation were lysed and subjected to urea SDS-polyacrylamide gel electrophoresis (PAGE) followed by western blotting. Ape1, aminopeptidase I; mApe1, mature form of Ape1; PE, phosphatidylethanolamine; prApe1, preform of Ape1; WT, wild‐type."
NCBI gene IDs:
"Atg12: 852518
Atg5: 855954"
Figure legend: "(A) Co-localization of c-terminally GFP- or mCherry-tagged Apl5, Sec7 and Vps41 in a vam3 temperature sensitive (ts) background strain. Cells were grown over night at 23°C and where indicated shifted to 37°C for 3 h prior to imaging. White arrowheads indicate co-localization events. Scale bar, 5 µm. Scale bar in inset, 2 µm."
NCBI gene IDs:
"vam3: 856596"
Figure legend: "(D) Effect of clathrin deletion on the AP-3 pathway. GFP-tagged Nyv1 with a C-terminal Snc1 transmembrane domain (GNS) was localized relative to FM4-64 stained vacuoles in the indicated strains. Labeling of the cell surface by GFP indicates a defect in the AP-3 pathway (E) Quantification of AP-3 defect from (D). Linear intensity plots were laid over the cells, the AP-3 defect was calculated by dividing GFP-intensities on the vacuolar membrane by the sum of the intensity of vacuolar, and plasma membrane signal (n ≥ 30 cells). Bars show the mean vacuolar signal over total signal ± standard deviation."
NCBI gene IDs:
"clathrin: 852666"
Figure legend: "(A-H) Indicated strains were grown in YPG for expression of Vps41-GFP-Fis constructs. Two representative images are shown for each strain. Mitochondria (M) are highlighted in red and vesicular structures in teal (unlabeled for VPS41-GFP-Fis) or green (unlabeled for VPS41-GFP-Fis). Cell wall (CW), plasma membrane (PM), and vacuoles (V) are indicated. Scale bars, 250 nm."
NCBI gene IDs:
"GFP: 
Fis: 854745
VPS41: 851653"
Figure legend: "(C) Effect of different truncations and deletions on AP-3 targeting to mitochondria. Indicated strains were grown at 30°C in YPG and kept in logarithmic phase. Localization of Apl5 or Apl6 and Vps41 was analysed by fluorescence microscopy. First column shows DIC image of cells. Scale bar, 5 µm. Scale bar in inset, 2 µm. (D) Quantification of (C). (-) Control corresponds to Vps41(ΔPEST)-GFP-Fis1 Apl6-mCherry (CUY12558) and (+) corresponds to Vps41(S-D)-GFP-Fis1 Apl6-mCherry (CUY12560). Apl5- /Apl6-dots co-localizing with GFP signal were counted and plotted in percent of the total number of Apl5- /Apl6-dots (n ≥ 63). Bars show the mean percentage of co-localization ± standard deviation."
NCBI gene IDs:
"GFP: 
mCherry: 
Apl6: 853177
Fis1: 854745
Vps41: 851653"
Figure legend: "(C) Volcano plots of proteins in close proximity to Apl5-TurboID versus control cells, from a label-free proteomics analysis of streptavidin-biotin pulldowns. The logarithmic ratios of protein intensities are plotted against negative logarithmic P values of two tailed Student's t-test, equal variance, performed from n = 3 independent experiments. The red dashed line (significance, 0.05) separates specifically identified proteins (top right portion of plot) from background. Selected top hits are indicated with black dots,"
NCBI gene IDs:
"TurboID: 
Apl5: 855906"