EMBO/SourceData huggingface dataset:
Figure legend: "(C A549 cells were infected with S. pneumoniae R6 WT or ΔcbpC for 2 h and fixed and stained with DAPI and an anti-Atg14 Representative epifluorescence images are shown. Scale bars, 10 µm. The percentages of perinuclear-localizing Atg14 containing cells were quantified."
NCBI gene IDs:
"cbpC: "
Figure legend: "A549 cells were infected with S. pneumoniae R6 WT or ΔcbpC for 2 h and fixed and stained with DAPI and -GM130 antibody. Representative epifluorescence images are shown. Scale bars, 10 µm. The percentages of intact Golgi apparatus-containing cells were quantified."
NCBI gene IDs:
"cbpC: "
Figure legend: "G S. pneumoniae (Sp) invasion-permissive A549 cells (marked with GFP) and Sp invasion-non-permissive (pIgR knocked down) A549 cells were co-cultured at a 1:3 ratio. Atg14-disappearance experiments were conducted, and representative epifluorescence images are shown. Scale bars, 10 µm. The lines show each cell shape and the arrows show invasion-permissive A549 cells marked with GFP. H The percentages of perinuclear-localizing Atg14 containing cells in (G) were quantified."
NCBI gene IDs:
"pIgR: 5284"
Figure legend: "I Lysates from 293T cells transiently expressing GFP-CbpC or GFP, and HA-Atg14 were subjected to SDS-PAGE and analyzed by immunoblotting using antibodies against HA or GFP."
NCBI gene IDs:
"CbpC: 
GFP: "
Figure legend: "J Lysates from 293T cells transiently expressing GFP-CbpCT4 or GFP were immunoprecipitated using GST-GFP-Nanobody. Additionally, beads were mixed with lysates from 293T cells transiently expressing p62-3Myc and HA-Atg14, and bound proteins were analyzed by immunoblotting."
NCBI gene IDs:
"CbpC: 
GFP: "
Figure legend: "K A549 cells treated with the indicated siRNAs were infected with S. pneumoniae R6 WT or ΔcbpF for the indicated durations. The cells were fixed and stained with DAPI and an anti-Atg14 antibody, and percentages of perinuclear-localizing Atg14 containing cells were quantified."
NCBI gene IDs:
"cbpF: "
Figure legend: "L Lysates from MEFs stably expressing GFP-CbpCT4 or GFP in the presence or absence of rapamycin or chloroquine were subjected to SDS-PAGE and immunoblotted using antibodies against LC3 or p62."
NCBI gene IDs:
"CbpC: 
GFP: "
Figure legend: "M Quantification of NanoBRET signals in 293A cells transiently expressing HaloTag-Stx17 and Nanoluc-Atg14 in the presence or absence of GFP-CbpC or GFP."
NCBI gene IDs:
"CbpC: 
GFP: "
Figure legend: "B GST-pulldown assays performed using GST-CbpFR6 or GST and lysates from 293T cells expressing GFP-Atg14 derivatives or GFP. The bound proteins were analyzed by immunoblotting using an anti-GFP antibody."
NCBI gene IDs:
"GFP: 
Atg14: 22863"
Figure legend: "D, E GST-pulldown assays using GST-CbpFR6 derivatives and lysates from 293T cells expressing GFP-Atg14 CCD or GFP. The bound proteins were analyzed by immunoblotting using an anti-GFP antibody. Each GST-CbpFR6 derivative-bound bead was confirmed by Coomassie brilliant blue (CBB) staining."
NCBI gene IDs:
"GFP: 
Atg14: 22863"
Figure legend: "H GST-pulldown assays performed using GST-CbpFR6 mutants or GST and lysates from 293T cells expressing GFP-Atg14 CCD or GFP. The bound proteins were analyzed by immunoblotting using an anti-GFP antibody. Each GST-CbpFR6 mutant-bound bead was confirmed by CBB staining."
NCBI gene IDs:
"GFP: 
Atg14: 22863"
Figure legend: "I Lysates of 293T cells transiently expressing GFP-CbpCT4 mutants or GFP were subjected to SDS-PAGE and analyzed by immunoblotting using antibodies against LC3, GFP, or actin."
NCBI gene IDs:
"CbpC: 
GFP: "
Figure legend: "J Confocal microscopy images of HeLa cells transiently expressing the indicated GFP-CbpCT4 mutants. Scale bars, 10 µm."
NCBI gene IDs:
"CbpC: 
GFP: "
Figure legend: "B Lysates from 293T cells transiently expressing p62-3Myc and GFP-CbpCT4 variants were immunoprecipitated using a GST-GFP-Nanobody fusion protein. Bound proteins were analyzed by immunoblotting."
NCBI gene IDs:
"CbpC: 
GFP: 
Myc: 
p62: 8878"
Figure legend: "E Lysates from 293T cells transiently expressing p62-3Myc and GFP-CbpCT4 variants were immunoprecipitated using the GST-GFP-Nanobody protein. Bound proteins were analyzed by immunoblotting."
NCBI gene IDs:
"CbpC: 
GFP: 
Myc: 
p62: 8878"
Figure legend: "G Lysates of 293T cells transiently expressing GFP-CbpCT4 and p62-3Myc variants were immunoprecipitated with the GST-GFP-Nanobody protein. Bound proteins were analyzed by immunoblotting using the indicated antibodies."
NCBI gene IDs:
"CbpC: 
GFP: 
Myc: 
p62: 8878"
Figure legend: "D GST-pulldown assays using the indicated GST-fusion proteins or GST and lysates from 293T cells expressing GFP-Atg14 CCD or GFP. Bound proteins were analyzed by immunoblotting using an anti-GFP antibody."
NCBI gene IDs:
"GST: 
Atg14: 22863"
Figure legend: "E Lysates from 293T cells expressing GFP-fusion proteins or GFP were subjected to SDS-PAGE and analyzed by immunoblotting using antibodies against LC3, GFP, or actin."
NCBI gene IDs:
"GFP: "
Figure legend: "H, I GST-pulldown assays using the indicated GST-fused proteins or GST and lysates from 293T expressing GFP-Atg14 CCD or GFP. Bound proteins were analyzed by immunoblotting using an anti-GFP antibody."
NCBI gene IDs:
"GFP: 
Atg14: 22863"
Figure legend: "C. Frontal cortices of A53T α-syn heterozygous transgenic mice and control mice at the age of 9 months (old) or 2 months (young) were lysed and Western blot was performed with the indicated antibodies (n=3). *** P &lt; 0.001 compared to WT, unpaired t-test."
NCBI gene IDs:
"α-syn: 6622"
Figure legend: "FcγRIIB KD SH-SY5Y cells were treated with 1 μM α-syn fibrils for 30 min. The cells were lysed and Western blot was performed with the indicated antibodies. Images are representative of three independent experiments (n=3). *** P &lt; 0.001, ** P &lt; 0.01, * P &lt; 0.05 compared to PBS, one-way ANOVA."
NCBI gene IDs:
"FcγRIIB: 2213"
Figure legend: "SHP-1 KD SH-SY5Y cells were treated with 1 μM α-syn fibrils for 30 min. The cells were lysed and Western blot was performed with the indicated antibodies. Images are representative of three independent experiments (n=3). *** P &lt; 0.001, ** P &lt; 0.01, * P &lt; 0.05 compared to PBS, one-way ANOVA."
NCBI gene IDs:
"SHP-1: 5777"
Figure legend: "SHP-2 KD SH-SY5Y cells were treated with 1 μM α-syn fibrils for 30 min. The cells were lysed and Western blot was performed with the indicated antibodies. Images are representative of three independent experiments (n=3). *** P &lt; 0.001, ** P &lt; 0.01, * P &lt; 0.05 compared to PBS, one-way ANOVA."
NCBI gene IDs:
"SHP-2: 27240"
Figure legend: "SH-SY5Y cells were cocultured with differentiated A53T α-syn-EGFP OE SH-SY5Y cells in the presence of 5 μM saracatinib (sara) or 10 μM SKI-1 for 12 h. The cells in the lower chamber were fixed and immunostained with anti-EGFP antibody. The intensity was analyzed. Values were derived from four independent experiments (n=4). *** P &lt; 0.001 against PBS, one-way ANOVA."
NCBI gene IDs:
"EGFP: 
α-syn: 6622"
Figure legend: "NT, c-src KD #1 and #2 SH-SY5Y cells were cocultured with differentiated A53T α-syn-EGFP OE SH-SY5Y cells for 12 h, and then fixed and immunostained with anti-EGFP antibody. Values were derived from four independent experiments (n=4). *** P &lt; 0.001 compared to NT cells, one-way ANOVA"
NCBI gene IDs:
"EGFP: 
α-syn: 6622
c-src: 6714"
Figure legend: ", D. primary cortical neurons were cocultured with differentiated A53T α-syn-EGFP OE SH-SY5Y cells in the presence of 5 μM saracatinib (sara) or 10 μM SKI-1 for 12 h. The cells in the lower chamber were fixed and immunostained with anti-EGFP antibody. The intensity was analyzed. Values were derived from four independent experiments (n=4). *** P &lt; 0.001 against PBS, one-way ANOVA."
NCBI gene IDs:
"EGFP: 
α-syn: 6622"
Figure legend: ", E. primary cortical neurons downregulating c-src were cocultured with differentiated A53T α-syn-EGFP OE SH-SY5Y cells for 12 h, and then fixed and immunostained with anti-EGFP antibody. Values were derived from four independent experiments (n=4). *** P &lt; 0.001 compared to NT cells one-way ANOVA unpaired t-test"
NCBI gene IDs:
"EGFP: 
α-syn: 6622
c-src: 83805"
Figure legend: "SH-SY5Y cells were transfected with plasmids of WT c-src, Y529F c-src (kinase active), or K297M c-src (kinase dead) tagged with EGFP. After 1 day, the cells were cocultured with differentiated α-syn OE SH-SY5Y cells for 12 h and then fixed and immunostained with anti-α-syn antibody. The intensity was analyzed. Values were derived from three independent experiments (n=3). *** P &lt; 0.001, * P &lt; 0.05 compared to mock positive cells, one-way ANOVA."
NCBI gene IDs:
"EGFP: 
α-syn: 6622
c-src: 20779"
Figure legend: "G. FcγRIIB KD SH-SY5Y cells were transfected with plasmids of WT c-src, Y529F c-src (kinase active), or K297M c-src (kinase dead) tagged with EGFP. After 1 day, the cells were cocultured with differentiated α-syn OE SH-SY5Y cells for 12 h and then fixed and immunostained with anti-α-syn antibody. The intensity was analyzed. Values were derived from three independent experiments (n=3). *** P &lt; 0.001, * P &lt; 0.05 compared to mock positive cells, one-way ANOVA."
NCBI gene IDs:
"EGFP: 
FcγRIIB: 2213
α-syn: 6622
c-src: 20779"
Figure legend: "B. A53T α-syn-EGFP and A53T α-syn-mCherry OE SH-SY5Y cells were cocultured in the presence of 5 μM saracatinib (sara) or 10 μM SKI-1, respectively, with 50 μM RA for 5 days."
NCBI gene IDs:
"EGFP: 
mCherry: 
α-syn: 6622"
Figure legend: "C. NT or c-src KD #1 or #2 /A53T α-syn-EGFP and A53T α-syn-mCherry OE SH-SY5Y cells were cocultured with 50 μM RA for 5 days. The samples were observed under confocal microscopy, and the number of cells containing double fluorescence labeled puncta were analyzed. Values were derived from five independent experiments (n=5). *** P &lt; 0.001 compared to PBS or NT cells, one-way ANOVA."
NCBI gene IDs:
"EGFP: 
mCherry: 
α-syn: 6622
c-src: 6714"
Figure legend: "A. Differentiated A53T α-syn-EGFP OE SH-SY5Y cells were incubated with 5 μM saracatinib (sara) or 10 μM SKI-1 for 12 h."
NCBI gene IDs:
"EGFP: 
α-syn: 6622"
Figure legend: "B. Differentiated NT, c-src KD #1 or c-src KD#2/A53T α-syn-EGFP OE SH-SY5Y cells were cultured 12 h. Levels of α-syn in culture media were then measured using ELISA. Values were derived from three independent experiments (n=3). *** P &lt; 0.001, ** P &lt; 0.01 compared to control, one-way ANOVA."
NCBI gene IDs:
"EGFP: 
α-syn: 6622
c-src: 6714"
Figure legend: "D. SH-SY5Y cells in the lower chamber were cocultured with differentiated NT, c-src KD #1 or c-src KD #2/ A53T α-syn-EGFP OE SH-SY5Y cells for 12 h. The cells in the lower chamber were immunostained with anti-EGFP antibody. The intensity was analyzed. Values were derived from five independent experiments (n=5). *** P &lt; 0.001 compared to NT cells, one-way ANOVA."
NCBI gene IDs:
"EGFP: 
α-syn: 6622
c-src: 6714"
Figure legend: "E. Differentiated A53T α-syn-EGFP OE SH-SY5Y cells were incubated with 5 μM saracatinib (sara) or 10 μM SKI-1 in the presence of DMSO or 50 μM bafilomycin A1 (BafA) for 12 h."
NCBI gene IDs:
"EGFP: 
α-syn: 6622"
Figure legend: "Differentiated NT and c-src KD/A53T α-syn-EGFP OE SH-SY5Y cells were incubated with 50 μM BafA for 12 h. Western blot was performed. Data are representative of three independent experiments (n=3). *** P &lt; 0.001, ** P &lt; 0.01, * P &lt; 0.05, one-way ANOVA."
NCBI gene IDs:
"EGFP: 
α-syn: 6622
c-src: 6714"
Figure legend: "G. NT and c-src KD primary neurons were incubated with 50 μM BafA for 12 h. Western blot was performed. Data are representative of three independent experiments (n=3). *** P &lt; 0.001, ** P &lt; 0.01, * P &lt; 0.05, one-way ANOVA."
NCBI gene IDs:
"c-src: 83805"
Figure legend: "H. SH-SY5Y cells were cocultured with differentiated A53T α-syn-EGFP OE SH-SY5Y cells in the presence of DMSO or 50 μM BafA for 12 h. The cells were immunostained with anti-EGFP antibody. The intensity was analyzed. Values were derived from three independent experiments (n=3). ** P &lt; 0.01, one-way ANOVA."
NCBI gene IDs:
"EGFP: 
α-syn: 6622"
Figure legend: "B. NT, c-src KD #1 or c-src KD #2 SH-SY5Y cells were incubated with 1 μM α-syn fibrils for 30 min and these cells were further incubated with 50 nM BODIPY FL C5-LacCer and 2.5 μg/ml rhodamine-conjugated transferrin for 20 min. The cells were fixed and observed under confocal microscopy. The intensity was analyzed. Values were derived from five independent experiments (n=5). *** P&lt; 0.001 compared to control, one-way ANOVA."
NCBI gene IDs:
"c-src: 6714"
Figure legend: "G. Endogenous MITOL enhances the K48-polyubiquitin chains of Parkin. WT or MITOL KO HeLa cells stably expressing HA-Parkin were treated with CCCP (10 µM) for indicated time. MG132 (30 μM) was added 3 h after CCCP treatment. Lysates of cells were fractionated into cytosolic, mitochondrial and ER fractions, and then subjected to an IP-IB assay with the indicated antibodies. K48-polyubiquitin chains were immunoblotted with K48-specific ubiquitin antibody."
NCBI gene IDs:
"MITOL: 54708"
Figure legend: "E. MITOL regulates mitophagy. MITOL WT HeLa cells, MITOL KO HeLa cells and KO HeLa cells transfected with MITOL WT plasmids 0.5µg (+) and 5µg (++) stably expressing HA‐Parkin and mt‐Keima were treated with CCCP (10µM) for 8h. Then, mKeima was measured at 488 (pH 7) and 561 (pH 4) nm lasers using Flow Cytometer. Percentages of mitophagy were calculated from 30,000 cells in each independent experiment. Data represent the mean ± SD of three independent experiments. For statistical analysis, a one-way ANOVA with Tukey post-test was performed, **P &lt; 0.01."
NCBI gene IDs:
"MITOL: 54708"
Figure legend: "C. Endogenous MITOL translocates to the ER in later phase of mitophagy. EGFP-MITOL knock in HeLa cells were transfected with HA-Parkin and treated with DMSO or CCCP (10 µM) as indicated times. Cells were fixed, permeabilized and subjected to immunofluorescence analysis with the indicated antibodies. Colocalization was quantified by Manders's coefficient. Means ± SEM of more than 10 cells obtained from three independent experiments. For statistical analysis, a one-way ANOVA with Tukey's multiple comparisons test were performed, ****P &lt; 0.0001. Scale bar represents 1 μm."
NCBI gene IDs:
"HA: 
MITOL: 54708
Parkin: 5071"
Figure legend: "E. ER-localized MITOL is transported from the mitochondria, and is not newly synthesized protein. HeLa cells stably expressing HA-Parkin were co-transfected with vectors for MITOL-KikGR and FLAG-FKBP38. After ultraviolet light (365 nm) exposure to the whole plate, cells were incubated with or without CCCP (10 µM) for indicated time, and monitored for red and green KikGR fluorescence. Scale bar, 10 μm. Higher magnification images of the boxed regions are shown in the small panel. Right panel is schematic experimental model for KikGR in this study."
NCBI gene IDs:
"HA: 
MITOL: 54708
Parkin: 5071"
Figure legend: "C. Phosphorylated Parkin accumulates in the ER fraction in the absence of MITOL. WT or MITOL KO HeLa cells stably expressing HA-Parkin were treated with DMSO or CCCP (10 µM) for 48 h. Lysates of cells were fractionated into cytosolic, mitochondrial and ER fractions, and then subjected to an IB assay with the indicated antibodies. Phospho-Ser65-Parkin is detected by using specific antibody. Right panels are the quantification of IB about Phospho-Ser65-Parkin protein levels of the ER fraction. The data represent the mean ± SD for three independent experiments. For statistical analysis, a one-way ANOVA with Tukey post-test was performed, **P &lt; 0.01."
NCBI gene IDs:
"HA: 
MITOL: 54708"
Figure legend: "D. Parkin is detected at the ER in the absence of MITOL. HeLa cells were transfected with vectors for KikGR-Parkin. After ultraviolet light (365 nm) exposure to the whole plate, cells were incubated with or without CCCP (10 µM) for indicated time, and monitored for red and green KikGR fluorescence. Scale bar, 10 μm. Higher magnification images of the boxed regions are shown in the small panel."
NCBI gene IDs:
"KikGR: 
MITOL: 54708
Parkin: 5071"
Figure legend: "D. MITOL KO increases degradation of ER targeting FKBP38. HeLa cells stably expressing HA-Parkin were transfected with mitochondrial targeting FLAG-FKBP38 (FKBP38ActA) and ER targeting FLAG-FKBP38 (FKBP38IYFFT), and treated with DMSO or CCCP (10 µM) for 24 h. Lysates of cells were subjected to an IB assay with FLAG antibodies for organelle targeting FKBP38 or indicated antibodies. Another cell lysates were subsequently separated on a Phos-tag gel, followed by IB with anti-Parkin antibodies (Phos-tag)."
NCBI gene IDs:
"HA: 
MITOL: 54708
Parkin: 5071"
Figure legend: "E-G. MITOL partly prevents CCCP-induced cell death by reducing Parkin-mediated degradation of FKBP38. WT or MITOL KO HeLa cells stably expressing HA-Parkin and HeLa cells were transfected with the indicated vectors, and treated with DMSO or CCCP (10 µM) for 24 h. Cells were stained with propidium iodide (PI) for counting the percentage of dead cells using fluorescence microscopy. Data represent the mean ± SD of five independent experiments (>100 individual cells were counted). For statistical analysis, a one-way ANOVA with Tukey post-test was performed, **P &lt; 0.01. KR, FKBP38 K271/273R."
NCBI gene IDs:
"HA: 
FKBP38: 23770
MITOL: 54708
Parkin: 5071"
Figure legend: "A. Mislocalization of Bcl-2 is observed in MITOL KO cells in mitophagy. WT or MITOL KO HeLa cells stably expressing HA-Parkin were transfected with FLAG-Bcl2 and treated with DMSO or CCCP (10 µM) for the indicated times. Cells were immunostained with indicated antibody. Scale bar, 1 μm."
NCBI gene IDs:
"HA: 
MITOL: 54708
Parkin: 5071"
Figure legend: "B. MITOL prevents caspase-dependent cell death in mitophagy. WT or MITOL KO HeLa cells stably expressing HA-Parkin and HeLa cells were treated with DMSO or CCCP (10 µM) with or without Z-VAD-FMK (10 μM) for 24 h. Cells were stained with propidium iodide (PI) for counting fluorescence microscopy of the percentage of dead cells. Data represent the mean ± SD of three independent experiments (&gt;100 individual cells were counted). For statistical analysis, a one-way ANOVA with Tukey post-test was performed, **P &lt; 0.01. C. Cell death in mitophagy caused by MITOL deficiency depends on calcium leak. WT and MITOL KO HeLa cells stably expressing HA-Parkin or HeLa cells were treated with DMSO or CCCP (10 µM) with or without BAPTA-AM (10 μM) for 24 h. Cells were stained with propidium iodide (PI) for counting fluorescence microscopy of the percentage of dead cells. Data represent the mean ± SD of three independent experiments (&gt;100 individual cells were counted). For statistical analysis, a one-way ANOVA with Tukey post-test was performed, **P &lt; 0.01. "
NCBI gene IDs:
"caspase: 
HA: 
MITOL: 54708
Parkin: 5071"
Figure legend: "(A, B) B-ALL progression measured as (A) absolute  number  or (B) percentage of OFP+ cells in  peripheral blood  of transplanted mice  (mean ± SD, each dot represents an individual mouse, CTRL = 6 mice, IFNγ   = 10  mice; **** p ≤ 0.001, Two-Way ANOVA; mice in blue and yellow (B) were also analyzed by single-cell RNA sequencing"
NCBI gene IDs:
"IFNγ: 15978"
Figure legend: "(A) Engraftment of  CD45.2  donor cells and lineage composition following transplantation of wild-type (WT) or IFNγ receptor 1  knock out (KO) HSPCs transduced with either the control Tie2.NGFR (CTRL) or Tie2.IFNγ (IFNγ) LV  (mean ± SD, each dot represents an individual mouse, WT CTRL = 7 mice, WT IFNγ = 7  mice, KO CTRL = 7  mice, KO  IFNγ = 7 mice)."
NCBI gene IDs:
"IFNγ: 15978
IFNγ receptor 1: 15979
NGFR: 18053
Tie2: 21687"
Figure legend: "(B, C) Violin plots show the distribution of IFNγ (B) and  MHC-II gene (C) signatures for each experimental condition, within each custom cell-type. Wilcox Rank Sum Test for IFNγ  signature, condition IFNγ d12 vs. CTR d12: B-ALL p= 2.68x10-19, B cells p=0.5, plasma cells p= 0.78; Wilcox Rank Sum Test for MHC-II  signature, condition  IFNγ d12 vs. CTRL d12: B-ALL p= 4.26x10-46, B cells p=1x10-9, plasma cells p= 0.32."
NCBI gene IDs:
"IFNγ: 15978"
Figure legend: "(F)  Expression of Mki67  transcripts in  B-ALL cells from CTRL d12 and IFNγ  d12 conditions, extracted from the scRNAseq   dataset (**** p ≤ 0.0001, Welch's test)."
NCBI gene IDs:
"IFNγ: 15978
Mki67: 17345"
Figure legend: "(I) Loss of  IFNγ  response over  time in B-ALL  cells from the IFNγ  group, potentially facilitated by reduced expression of  Ifngr1, Ifngr2, Jak1, Stat1 and  Irf1 (data extracted from the scRNAseq  dataset statistical analysis by Two-Way ANOVA)."
NCBI gene IDs:
"IFNγ: 15978
Ifngr1: 15979
Ifngr2: 15980
Irf1: 16362
Jak1: 16451
Stat1: 20846"
Figure legend: "Combination gene therapy  with IFNα, TNFα  and IFNγ, expressed from the Tie2 vector platform. CTRL (Tie2.NGFR), 2 independent experiments, n = 9  mice; IFNα, 1 experiment, n = 2 mice; IFNα/IFNγ, 1 experiment, n= 4 mice;  IFNα/TNFα, 1 experiment, n = 3 mice; IFNγ/TNFα, 2 independent experiments, n = 19  mice. (C) Percentage of MHC II+ macrophages  identified by  F4/80 expression in the spleen (mean ± SD, each dot represents an individual mouse; *p = 0.0484, **p = 0.0049, ordinary One-Way ANOVA). (D) Percentage of  CD8+ T lymphocytes within CD45  positive and OFP negative  splenic  cells (mean ± SD, each dot represents an individual mouse; *p = 0.0356, ordinary One-Way ANOVA). ( "
NCBI gene IDs:
"IFNα: 111654
IFNγ: 15978
NGFR: 18053
Tie2: 21687
TNFα: 21926"
Figure legend: "Combination of IFNγ gene therapy with immuno-oncology drugs. CTRL (Tie2.NGFR) + antibody isotype, n = 6 mice; CTRL +  αCTLA4 antibody, n= 5 mice; CTRL +  αLAG3  antibody, n = 5 mice; CTRL + 1-Methyltryptophan  (1-MT), n = 5  mice; IFNγ (Tie2.IFNγ) + antibody isotype, n = 7 mice; IFNγ  + αCTLA4 antibody, n = 7 mice; IFNγ + αLAG3 antibody, n = 7 mice; IFNγ +1-MT, n = 5 mice. (F) Percentage of MHC II+ macrophages identified by  F4/80 expression in the spleen (mean ± SD, each dot represents an individual mouse; **p ≤ 0.01, ***p ≤ 0.001, **** p ≤ 0.0001 as compared to CTRL isotype, ordinary One-Way ANOVA). (G) Percentage of CD8+ T lymphocytes within OFP  negative  BM cells (mean ± SD, each dot represents an individual mouse). S "
NCBI gene IDs:
"IFNγ: 15978
NGFR: 18053
Tie2: 21687"
Figure legend: "H, I Bar graphs showing relative Rankl and Wnt4 transcript levels normalized to 36B4 expression in C57Bl6-derived mammary organoids treated for 6 hours with R5020 (H) or LNG (I) and either 10 μM or 100 μM enzalutamide, n=3 independent experiments."
NCBI gene IDs:
"36B4: 11837
Rankl: 21943
Wnt4: 22417"
Figure legend: "E Representative micrographs showing co-IF with anti-KI67 (red), and anti-hECAD (green) of xenografted milk ducts after 21 days treatment with vehicle or LNG. Scale bar, 50 μm. F Violin plot showing the percentage of KI67 and hECAD double+ cells of total hECAD+ cells, dots represent individual sectors counted in 3 different glands, control (n=30) or LNG (n=28), median (red), statistical significance was assessed by non-parametric Mann-Whitney test. G Bar plot showing relative transcript levels of MKI67 in xenografted glands from control (n=6) and LNG-treated (n=3) mice, Student's t-test. "
NCBI gene IDs:
"MKI67: 4288"
Figure legend: "D Graph showing in vivo growth of HBECs from a 20-year-old patient transduced with either sh scramble or shAR and treated with LNG. Points show means of radiance in individual glands ± SEM; n= 8-10 per treatment. Wilcoxon matched-pairs test."
NCBI gene IDs:
"AR: 367"
Figure legend: "E Representative micrographs showing co-IF with anti-GFP (red), and anti-AR (green) antibodies on histological sections from glands xenografted with HBECs transduced either with sh scramble or shAR-expressing lentivirus. Scale bar, 50 μm. F Violin plot showing the percentage of AR- and GFP-double+ cells of total GFP+ cells in sh scramble (n=6) and shAR (n=12) conditions, dots represent individual sectors counted, median (red). Statistical significance was assessed by fitting a generalized linear mixed model with gamma distributions using CTRL as reference. Red line shows median. "
NCBI gene IDs:
"AR: 367"