EMBO/SourceData huggingface dataset:
Figure legend: "(I) Anti-γH2AX ChIP analysis at FRA3B, FRA16D and GAPDH genomic loci was performed in U2OS WT and PIF1-KO cells, or PIF1-KO cells expressing PIF1-WT, and E307Q and L319P mutants before and after APH treatment (0.4 μM, 24 hr). Enrichment of γH2AX at FRA3B, FRA16D and GAPDH loci was calculated using ChIP value in WT cells as 1 for normalization. Data information: Error bars represent the standard deviation (SD) of at least three independent experiments. Signiﬁcance of the differences was assayed by Two-tailed non-paired parameters were applied in Student's t-test. The P value is indicated as *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001 and n.s. (not significant) P&gt;0.05. "
NCBI gene IDs:
"FRA16D: 2463
GAPDH: 2597
FRA3B: 107325936
PIF1: 80119"
Figure legend: "(B) Expression of CH25H in heathy donors and COVID-19 patients. The box plot shows the expression of CH25H in macrophages of bronchoalveolar lavage fluids from three healthy donors, three moderate COVID-19 patients and six severe COVID-19 patients by scRNA-seq analysis (Liao et al., 2020)."
NCBI gene IDs:
"CH25H: 9023"
Figure legend: "25HC inhibits membrane fusion mediated by SARS-CoV-2 S (F) 293FT or Vero cells were treated with EtOH or 25HC (5 µM) for 16h prior to transfection with pLVX plasmids encoding SARS-CoV-2 S (F) in the absence of EtOH or 25HC. At 24h post-transfection, syncytium formation was visualized by fluorescence microscopy. White arrows indicate syncytia. Quantification of membrane fusion was performed by calculating the percentages of nuclei involved in syncytia formation from all nuclei in GFP positive cells."
NCBI gene IDs:
"S: 43740568"
Figure legend: "25HC inhibits membrane fusion mediated by , SARS-CoV S (G, left), and MERS-CoV S (G, right). 293FT or Vero cells were treated with EtOH or 25HC (5 µM) for 16h prior to transfection with pLVX plasmids encoding , SARS-CoV S (G, left), and MERS-CoV S (G, right) in the absence of EtOH or 25HC. At 24h post-transfection, syncytium formation was visualized by fluorescence microscopy. Scale bar, 50 μm. White arrows indicate syncytia. Quantification of membrane fusion was performed by calculating the percentages of nuclei involved in syncytia formation from all nuclei in GFP positive cells."
NCBI gene IDs:
"S: 1489668
S: 14254594"
Figure legend: "A) Immunoblot and immunofluorescence staining of BCL7A (red) in eNPCs isolated from Bcl7awt/wt (wt) and Bcl7ako/ko (ko) embryos (E13.5). Nestin (green) was used as NPC marker, whereas DAPI (blue) was used to stain nuclei."
NCBI gene IDs:
"Bcl7a: 77045"
Figure legend: "B) Immunoblot and immunofluorescence staining of BCL7A in smNPCs. Two different BCL7A knockout clones (KO1 and KO2) were used along with the parental (P) cell line."
NCBI gene IDs:
"BCL7A: 605"
Figure legend: "E-G) BCL7A KO and wt smNPCs were used for (F) nuclear isolation followed by density sedimentation Top panels show representative immunoblots for selected SWI/SNF/BAF complex subunits and respective densitometries are shown below (n=3 biological replicates)."
NCBI gene IDs:
"BCL7A: 605"
Figure legend: "BCL7A KO and wt smNPCs were used for differential salt extraction. Top panels show representative immunoblots for selected SWI/SNF/BAF complex subunits and respective densitometries are shown below (n=3 biological replicates)."
NCBI gene IDs:
"BCL7A: 605"
Figure legend: "H-I) Heatmaps of SMARCA4/BRG1 and H3K27me3 ChIP-seq in wt and BCL7A KO eNPCs. J) Average density plots for SMARCA4/BRG1 occupancy around the TSS in wt and BCL7A KO eNPCs."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "K-L) Heatmaps of SMARCA4/BRG1 and H3K27me3 ChIP-seq in parental and BCL7A KO smNPCs. M) Average density plots for SMARCA4/BRG1 occupancy around the TSS in parental and BCL7A KO smNPCs."
NCBI gene IDs:
"BCL7A: 605"
Figure legend: "A) Immunoblots of spontaneously differentiated wt and BCL7A KO eNPCs. Samples were collected at the indicated differentiation time points. Respective densitometries are shown on the right (n=6-7 biological replicates)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "B) Sholl analysis of β-III tubulin-positive immature wt and BCL7A KO neurons following 7 days of spontaneous eNPC differentiation (n=4 biological replicates, each experiment with 10-15 cells per condition)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "C) Immunofluorescence staining (central panel) and quantification (right panel) of β-III tubulin- and GFAP-positive cells as well as RT-PCR analysis (right panels) of spontaneously differentiated iPSC-derived parental and BCL7A KO smNPCs (n=3-7 biological replicates)."
NCBI gene IDs:
"BCL7A: 605"
Figure legend: "D) Immunofluorescence staining of BCL7A expression in hippocampal sections from adult control and Bcl7afl/fl; Nestin-Cretg/wt mice."
NCBI gene IDs:
"BCL7A: 77045
Cre: 2777477
Nestin: 25491"
Figure legend: "E) EdU experiments in adult mice. Animals were injected with EdU twice daily for three days and sacrificed 21 days thereafter. Images show immunofluorescence stainings for EdU (green), doublecortin (DCX, white), and S100β (red) in hippocampal brain sections from Bcl7awt/wt; Nestin-Cretgt/wt (as control) and Bcl7afl/fl; Nestin-Cretg/wt mice. Representative EdU+ DCX+ (yellow triangles) or EdU+ S100β+ (yellow asterisk) double-labelled cells are indicated in the insets. Scale bar= 50 μm and 20 μm (for insets)."
NCBI gene IDs:
"Bcl7a: 77045
Cre: 2777477
Nestin: 25491"
Figure legend: "F) Quantification of EdU+ (right panel), EdU+ DCX+ (middle panel) and EdU+ S100β+ (left panel) cells within the hippocampal dentate gyrus (DG) of adult control (n=4) and Bcl7afl/fl; Nestin-Cretg/wt (n=5) animals."
NCBI gene IDs:
"Bcl7a: 77045
Cre: 2777477
Nestin: 25491"
Figure legend: "G) Immunofluorescence staining for DCX+ cells within the DG region of adult Bcl7afl/fl; Nestin-Crewt/wt (as control) and Bcl7afl/fl; Nestin-Cretg/wt animals. Confocal imaging analysis shows a lower number, misalignment and reduced neuritic complexity of DCX+ labelled cells in BCL7A KO mice compared to controls. Yellow arrows indicate misaligned DCX+ cells."
NCBI gene IDs:
"Bcl7a: 77045
BCL7A: 77045
Cre: 2777477
Nestin: 25491"
Figure legend: "H) Immunofluorescence staining of BCL7A (red) of hippocampal sections from Bcl7afl/fl; Baf53b-Crewt/wt (as control) and Bcl7afl/fl; Baf53b-Cretg/wt mice."
NCBI gene IDs:
"Baf53b: 83766
Bcl7a: 77045
Cre: 2777477"
Figure legend: "I) Immunofluorescence staining of BCL7A (red) and DCX (green) in hippocampal sections of control and Bcl7afl/fl; Baf53b-Cretg/wt mice. Yellow arrow indicates dividing cells, whereas yellow asterisks mark differentiating immature neurons."
NCBI gene IDs:
"Baf53b: 83766
Bcl7a: 77045
Cre: 2777477"
Figure legend: "J) Immunofluorescence staining for DCX (white) within the DG region of adult control and Bcl7afl/fl; Baf53b-Cretg/wt mice. Representative images show no obvious difference in number, morphology or alignment of DCX+ labelled cells. Quantification of DCX+ labelled cells in control and Bcl7afl/fl; Baf53b-Cretg/wt mice is shown on the right (n=3 per genotype)."
NCBI gene IDs:
"Baf53b: 83766
Bcl7a: 77045
Cre: 2777477"
Figure legend: "B-C) Representative Ca2+ measurements in (B) wt vs BCL7A KO cortical neurons (CN, 10 days in vitro) and in (C) smNPC-derived parental and BCL7A KO neurons. Ca2+ changes were detected using Fluo-4 and upon treatment with (B) 50 μM glutamate (final concentration) and (C) 100 μM glutamate (final concentration). Upper right panels report Ca2+ peaks (F) relative to baseline (F0). In B, wt: n=18 cells; ko: n=23 cells (n=2 independent experiments). In C, P: n=27 cells; KO1: n=20 cells; KO2: n=19 cells (n=2 independent experiments)."
NCBI gene IDs:
"BCL7A: 77045
BCL7A: 605"
Figure legend: "E) RT-PCR analysis of FOS expression upon glutamate (100 μM for 10 min) stimulation in smNPC-derived parental and BCL7A KO neurons (n=5-6 biological replicates)."
NCBI gene IDs:
"BCL7A: 605
FOS: 2353"
Figure legend: "F) Immunofluorescence staining of cFos in the dentate gyrus of adult Bcl7afl/fl; Baf53b-Cretg/wt (ko) mice and control (ctr) littermates. Mice were either kept in standard housing conditions (upper images; ctr: n=3 mice; ko: n=3 mice) or exposed to an enriched environment (lower images; ctr: n=3 mice; ko: n=4 mice). Quantification of cFos+ cells are shown below."
NCBI gene IDs:
"Baf53b: 83766
Bcl7a: 77045
Cre: 2777477"
Figure legend: "G-K) Behavioral characterization of Bcl7afl/fl; Nestin-Cretg/wt (ko) mice compared to control (ctr) littermates. Animals were tested for their locomotor activity and coordination in (H) the open field (ctr: n=13 mice; ko: n=11 mice) and (I) RotaRod test (ctr: n=12 mice; ko: n=7 mice). Cognitive function was assessed in (J) the Y-maze spontaneous alternation task (ctr: n=13 mice; ko: n=11 mice) and (K) fear conditioning paradigm (ctr: n=11 mice; ko: n=10 mice). The percentage of spontaneous alternations and freezing were used as measures for working and long-term memory function, respectively."
NCBI gene IDs:
"Bcl7a: 77045
Cre: 2777477
Nestin: 25491"
Figure legend: "L-Q) Behavioral characterization of adult Bcl7afl/fl; Baf53b-Cretg/wt (nKO) mice compared to control (nKO) littermates. Locomotor activity and coordination were assessed in (M) the open field (ctr: n=14 mice; nKO: n=12 mice) and (N) RotaRod paradigm (ctr: n=16 mice; nKO: n=12 mice). Cognitive function was tested in (O) the Y-maze (ctr: n=11 mice; nKO: n=11 mice) and (P-Q) Barnes maze test (ctr: n=11 mice; nKO: n=11 mice). The percentage of spontaneous alternations and freezing were used as measures for working and long-term memory function, respectively. Representative heatmaps of Barnes maze test are reported on the right. The time spent in target (T) and non-target quadrants during the probe trial are shown on the right."
NCBI gene IDs:
"Baf53b: 83766
Bcl7a: 77045
Cre: 2777477"
Figure legend: "A) Heatmap of significantly dysregulated genes in BCL7A KO compared to wt eNPCs."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "F) Immunoblots of spontaneously differentiated wt and BCL7A KO eNPCs in presence of 1 μM DAPT or 3 μM CHIR99021."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "G) Immunofluorescence staining of eNPCs undergoing spontaneous differentiation for 7 days. BCL7A KO eNPCs were incubated for 72 h (24 h in proliferation plus 48 h in differentiation medium) with DMSO, 1 μM DAPT, 3 μM CHIR99021 or a combination of 1 μM DAPT + 3 μM CHIR99021. Quantification of the β-III tubulin-positive or GFAP-positive cells is shown on the right (n=3-6 technical replicates from 3 independent experiments)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "I) mRNA expression levels of TUBB3 and GFAP at 15 and 25 days of spontaneously differentiating BCL7A KO compared parental smNPCs. BCL7A KO smNPCs were treated with DAPT, CHIR99021, DAPT + CHIR99021 or DMSO (as control= ctr) during the initial 7 days of spontaneous differentiation (n=3-7 biological replicates)."
NCBI gene IDs:
"BCL7A: 605
GFAP: 2670
TUBB3: 10381"
Figure legend: "J) Immunoblots for non-phospho (active) β-catenin and TCF4/TCF7L2 in proliferating and 48 h-differentiated wt and BCL7A KO eNPCs. Respective densitometries are shown on the right (n=5-8 biological replicates per condition)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "G) Proximity ligation assay (PLA) for the OXPHOS subunits NDUFB8 and MTCO1 in adult hippocampal sections from Bcl7afl/fl; Baf53b-Cretg/wt (ko; n=4) and control littermates (ctr; n=4). Sections were co-stained with TOM20 and NeuN to label mitochondria and neurons, respectively. The total number of PLA dots was normalized to the mitochondrial area (panel on the lower right)."
NCBI gene IDs:
"Baf53b: 83766
Bcl7a: 77045
Cre: 2777477"
Figure legend: "A) OCR measurements in wt and BCL7A KO eNPCs treated with 3 μM of CHIR99021 or DMSO (as control, ctr) for 24 h. The average maximal respiration upon FCCP treatment is shown on the right (n= 5-7 biological replicates)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "B) OCR measurements in wt and BCL7A KO eNPCs following 48h of spontaneous differentiation. BCL7A KO eNPCs were treated for 72 h (24 h in proliferation plus 48 h in differentiation medium) with CHIR99021 or DMSO. The average maximal respiration upon FCCP treatment is shown on the right (n= 4 biological replicates)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "C) Immunoblot analysis of differentiated BCL7A KO eNPCs exposed to 3 μM CHIR99021, in presence or absence of 20 nM rotenone (rot). Antibodies against β-III tubulin and actin were used."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "D) Immunofluorescence staining of spontaneously differentiated eNPCs. BCL7A KO eNPCs were treated for 72 h (i.e., 24 h in proliferation plus 48 h in differentiation medium) with 3 μM CHIR99021, in presence or absence of 20 nM rotenone. Scale bar= 50 μm. Statistics are shown on the right (n=3-6 technical replicates from 3 independent experiments)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "E) Sholl analysis of β-III tubulin-positive immature neurons following 7 days of spontaneous differentiation. BCL7A KO eNPCs were exposed to 3 μM CHIR99021, in presence or absence of 20 nM rotenone (n=3 biological replicates)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "F) Representative OCR measurements in BCL7A KO eNPCs treated with 5 and 10 μM of pioglitazone or DMSO (as control, ctr) for 24 h. The average maximal respiration upon FCCP treatment is shown on the right (n= 3 biological replicates)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "G) Immunofluorescence staining of spontaneously differentiated eNPCs. BCL7A KO eNPCs were treated for 72 h (i.e., 24 h in proliferation plus 48 h in differentiation medium) with 5 μM pioglitazone. The percentage of β-III-tubulin-positive cells is shown on the right (n=3-8 technical replicates from 2 independent experiments)."
NCBI gene IDs:
"BCL7A: 77045"
Figure legend: "B) Five-fold serial dilutions of strains of the indicated genotypes (wt cells and choppΔ cells harboring empty vectors or choppΔ cells expressing chimeric Psd and Pmt enzymes). Cells were grown on SD-HIS-LEU (-HL) medium (KennedyOFF) or SD-HL containing ethanolamine and choline (KennedyON)."
NCBI gene IDs:
"Pmt: 
Psd: 853080///855552"
Figure legend: "C) Thin layer chromatography (TLC) analysis of steady-state phospholipid profiles of cells of the indicated genotypes. Where Psd and/or Pmt are missing (-), choppΔ cells were grown in the presence of ethanolamine and/or choline. Bands corresponding to the phospholipids PA, PS, PE, PI and PC are indicated."
NCBI gene IDs:
"Pmt: 
Psd: 853080///855552"
Figure legend: "C) VPS13 is required in KennedyOFF conditions when chimeric enzymes are targeted to mitochondria or endosomes. Volcano plots show the fold change of number of transposon insertions per gene of libraries grown in KennedyOFF versus ON conditions. This comparison included all six libraries where the enzymes are targeted to endosomes and/or mitochondria (top left panel) or six libraries with enzymes targeted to other organelles (bottom left panel). Data-points for VPS13 are highlighted in red. Schematic illustrating Vps13-mediated lipid transport at endosomes and mitochondria contact sites (right panel)."
NCBI gene IDs:
"VPS13: 850619
Vps13: 850619"
Figure legend: "B) Requirement for mitochondrial lipid transport and biosynthesis genes in rewired libraries. Left panel, schematic depicting PE and cardiolipin (CL) synthesis in mitochondria. The inner mitochondrial putative lipid transporter Mdm31 is depicted in yellow. Grey arrows indicate the need for lipid transport from the ER or other organelles to mitochondria and transport between the MOM and MIM. Right panel, transposon numbers (normalized to wt libraries) for the indicated (set of) libraries for MDM31, PGS1, and CRD1."
NCBI gene IDs:
"CRD1: 851413
MDM31: 856601
Mdm31: 856601
PGS1: 850352"
Figure legend: "B. hTR and hTERT expression, normalized to  ACTB  mRNA and to SW39/TEL+. Data information: Data are presented as mean ± SD. Statistical analyses were performed with Student's two-tailed unpaired t-test with Welch's correction for normality of distribution unless specified otherwise. PTM, post-translational modification."
NCBI gene IDs:
"ACTB: 60
TR: 7012
TERT: 7015"
Figure legend: "C. RNA Pol II binding  at hTR promoter in SI14/TEL+, SI24/ALT+ and 8G12/ALT+ cell lines, normalized to H3 ChIP. Control loci with, respectively, high or low transcriptional activity:  c-fos promoter and subtelomeric 4qHox locus (n=3). Statistical analyses were performed using one-way ANOVA with post-hoc Tukey's test for multiple comparisons. Data information: Data are presented as mean ± SD. Statistical analyses were performed with Student's two-tailed unpaired t-test with Welch's correction for normality of distribution unless specified otherwise. PTM,  post-translational modification."
NCBI gene IDs:
"4qHox: 
c-fos: 2353
TR: 7012"
Figure legend: "D. H3K9me3 and H3K27me3 (left) or  H3K4me3 and H3Ac (right) densities at hTR promoter in  SI14/TEL+ and SI24/ALT+, normalized to H3 (n=3). Control loci as in C. Data information: Data are presented as mean ± SD. Statistical analyses were performed with Student's two-tailed unpaired t-test with Welch's correction for normality of distribution unless specified otherwise. PTM, post-translational modification."
NCBI gene IDs:
"TR: 7012"
Figure legend: "E. NFYB binding at hTR promoter in SI14/TEL+, SI24/ALT+, SW39/TEL+ and  IMRB/ALT+ cells normalized to H3. Control loci with, respectively, high and low NFYB binding: hnRNPA1 promoter and subtelomeric 4qHox (n=3). Data information: Data are presented as mean ± SD. Statistical analyses were performed with Student's two-tailed unpaired t-test with Welch's correction for normality of distribution unless specified otherwise. PTM, post-translational modification. "
NCBI gene IDs:
"4qHox: 
hnRNPA1: 3178
TR: 7012"
Figure legend: "B. NHP2  mRNA expression levels, normalized to ACTB mRNA and to SI14/TEL+  cells (n=3). Data information: Data are presented as mean ± SD."
NCBI gene IDs:
"ACTB: 60
NHP2: 55651"
Figure legend: "D. hTR RNA and NHP2 mRNA expression, normalized to ACTB mRNA and to SI14/TEL+. Data information: Data are presented as mean ± SD."
NCBI gene IDs:
"ACTB: 60
NHP2: 55651
TR: 7012"
Figure legend: "E. Telomerase activity  measured with ddTRAP assay in  NHP2-overexpressing 8G12/ALT+cells, normalized to  NHP2-overexpressing SI14/TEL+. Data information: Data are presented as mean ± SD."
NCBI gene IDs:
"NHP2: 55651"
Figure legend: "F. (Top) Western blot for NHP2 overexpression in 8G12/ALT+ clonal cell lines. β-Actin served as loading control. SI14/TEL+ cells are shown as reference for NHP2 expression in hybrids. (Bottom) Western blot for  NHP2 overexpression in SI14/TEL+ and 8G12/ALT+ cells compared to empty vector control. β-Actin served as loading control. Data information: Data are presented as mean ± SD."
NCBI gene IDs:
"NHP2: 55651"
Figure legend: "G. hTR RNA, hTERT and NHP2 mRNA expression, normalized to ACTB mRNA and to SI14/TEL+ (n=3). Data information: Data are presented as mean ± SD."
NCBI gene IDs:
"ACTB: 60
NHP2: 55651
TR: 7012
TERT: 7015"
Figure legend: "H. RNA Pol II binding at hTR promoter, normalized to H3 ChIP (n=3). See Fig. 1C legend for control loci. Statistical analyses were performed using one-way ANOVA with post-hoc Tukey's test for multiple comparisons. Data information: Data are presented as mean ± SD."
NCBI gene IDs:
"TR: 7012"
Figure legend: "A. hTR RNA, hTERT and NHP2 mRNA expression, normalized to ACTB mRNA and to 143B/TEL+ cells, in a series of TEL+ and ALT+ human cell lines as indicated (n=3). Data information: Data are presented as mean ± SD. Statistical analyses were performed using one-way ANOVA with post-hoc Tukey's test for multiple comparisons."
NCBI gene IDs:
"ACTB: 60
NHP2: 55651
TR: 7012
TERT: 7015"
Figure legend: "A. hTR RNA expression, normalized to ACTB mRNA and to U2OS cells (n=3). Data information: Data are shown as mean ± SD, with the red line marking the mean value."
NCBI gene IDs:
"ACTB: 60
TR: 7012"
Figure legend: "B. Western blot for  NHP2 expression in the early passages of hTR-expressing  IMRB or U2OS  cells, with  β-Actin as loading control."
NCBI gene IDs:
"TR: 7012"
Figure legend: "C. Quantification of doubling time for U2OS, U2OS-hTR, IMRB and  IMRB-hTR cell lines (n=3). Statistical analyses were performed with Student's two-tailed unpaired t-test with Welch's correction for normality of distribution Data information: Data are shown as mean ± SD, with the red line marking the mean value."
NCBI gene IDs:
"TR: 7012"
Figure legend: "D. Western blot in U2OS and U2OS-hTR cells treated with or without Hydroxyurea (2 mM for 24 h), for the indicated proteins. β-Actin  and Vinculin served as loading controls."
NCBI gene IDs:
"TR: 7012"
Figure legend: "F. Quantification of  live cell numbers with trypan blue staining and manual counting, 72 h post-transfection with siLuc, sihTR#1 or sihTR#2, measured as the percentage of siLuc-treated cells (n=3). On the right, representative  images of U2OS cells treated with sihTR#1 for 72 h. Statistical analyses were performed using one-way ANOVA with post-hoc Tukey's test for multiple comparisons. Data information: Data are shown as mean ± SD, with the red line marking the mean value."
NCBI gene IDs:
"Luc: 249591
TR: 7012"
Figure legend: "G. Western blot analyses in the indicated cell lines cells transfected for 48 h with siLuc or sihTR, with the indicated antibodies. U2OS  cells treated with Hydroxyurea (2 mM for 24 h) were used as positive controls."
NCBI gene IDs:
"Luc: 249591
TR: 7012"
Figure legend: "C. Representative images for TIF quantification: co-localization  between 53BP1 (green) and telomeres (red FISH probe) in U2OS or IMRB cells with or without ectopic hTR overexpression. White arrows indicate TIF. Quantification of TIF is on the right. A total of 110-170 nuclei were scored from three independent experiments. Each dot represents the number of TIF per nucleus. Data information: All scale bars: 5 μm. Data are shown as mean ± SD. , C, the red line marks the mean value. Statistical analyses were performed with Student's two-tailed unpaired t-tests with Welch's correction for normality of distribution, unless specified otherwise."
NCBI gene IDs:
"TR: 7012"
Figure legend: "D. Representative images for TIF quantification, as in (A), in U2OS or U2OS-hTR cells, treated as indicated with DMSO or 5 μM ATRi or 5 μM ATMi for 20 h. White arrows indicate TIF. Data information: All scale bars: 5 μm. Data are shown as mean ± SD."
NCBI gene IDs:
"TR: 7012"
Figure legend: "H,I. C-circle analyses in the indicated cell lines 72 h after treatment with siPOLD3 or siLuc used as control for transfection. Quantifications are shown below (n=3). siSMARCAL1 was used as positive control for increased C-circle production in cells with defective fork reversal activity (Zhang et al, 2019b). Data information: All scale bars: 5 μm. Data are shown as mean ± SD. "
NCBI gene IDs:
"Luc: 249591
POLD3: 10714
SMARCAL1: 50485"
Figure legend: "C. Representative images for co-localization between EdU (green) and telomeres (red FISH probe) within PML bodies (cyan) in U2OS and U2OS-hTR cells. White arrows indicate  co-localization events. D, E. Quantification of images shown in (C).  Co-localization events between EdU foci and APBs were analyzed (D) and the percentage of APBs that are actively engaged in G2/M telomeric  synthesis was calculated (E). A total of at least 50 nuclei were scored from three independent experiments. Data information: All scale bars: 5 μm. Data are shown as mean ± SD, with the red line marking the mean value. Statistical analyses were performed with Student's two-tailed unpaired t-test with Welch's correction for normality of distribution. "
NCBI gene IDs:
"TR: 7012"
Figure legend: "D. Representative images for co-localization between RPA32 or p-RPA32S33 (green) and telomeres (red FISH probe), in the indicated cell lines treated with siLuc or sihnRNPA1 for 48 h. White arrows indicate co-localization events. Data information: All scale bars: 5 μm. Data are shown as mean ± SD, with the red line marking the mean value. Statistical analyses were performed with Student's two-tailed unpaired t-test with Welch's correction for normality of distribution unless specified otherwise."
NCBI gene IDs:
"hnRNPA1: 3178
Luc: 249591"