EMBO/SourceData huggingface dataset:
Figure legend: "(ii) HEK 293T cells were transfected with empty vector or Flag-FMRP, and lysates were subjected to GTP-agarose pull-down as in (i). E. HEK 293T cells were transfected with either siRNAs targeting fmr1 or scrambled control and were subjected to m7GTP-agarose pull-downs as in (C)"
NCBI gene IDs:
"Flag: 
fmr1: 2332
FMRP: 2332"
Figure legend: "Primary VSMCs (left panel), A10 (middle panel), and HEK 293T cells (right panel) were transfected with siRNAs targeting ctnnb1 (β-catenin) or scrambled RNA. After 36 hr, the cells were pulsed with 0.5 µM puromycin for 15 min and then harvested. The puromycin incorporated peptides were detected by Western blot analysis with puromycin antibody. β-catenin blots indicated efficacy of siRNA and actin was used as a loading control. The average puromycin/actin ratio (n=3) is shown in the graphs to the right of each cell type and the error bars indicate standard deviation. A one-way ANOVA and Tukey post-hoc test was performed, with p-values indicated above the error bars"
NCBI gene IDs:
"β-catenin: 
ctnnb1: 12387"
Figure legend: "A10 cells were transfected with Flag-FMRP then treated with either cycloheximide or its solvent (DMSO) for 4 hr prior to fixation. β-catenin (green), Flag (FMRP, red) were visualized by immunofluorescence. Nucleus (blue) was identified by DNA staining with Hoechst 33342. Arrows indicate a loss of β-catenin signal from the perinuclear region that was seen in the control following cycloheximide treatment"
NCBI gene IDs:
"Flag: 
FMRP: 2332"
Figure legend: "A10 cells were transfected with Flag-FMRP as above and then pre-treated with rapamycin or solvent (DMSO) for 1 hr in serum-free media. Serum was added for 2 hr before the cells were harvested and subjected to coIP analysis using β-catenin antibody. Non-programmed rabbit IgG was used as a control. Existence of Flag-FMRP in the immunocomplex was detected by Flag antibody and β-catenin by GFP antibody"
NCBI gene IDs:
"Flag: 
FMRP: 2332"
Figure legend: "A10 cells were transfected with Flag-FMRP followed by rapamycin treatment similar to (D). Cells were fixed and stained for β-catenin (green), Flag (FMRP, red), and nucleus (blue). A loss of β-catenin signal from the perinuclear region that was seen in the control is indicated by the arrows."
NCBI gene IDs:
"Flag: 
FMRP: 2332"
Figure legend: "Fluorescence analyses of GFP-ATG5 or ATG16L1-GFP stably expressed in ATG5-/- or ATG16L1-/-. Cells were amino acid starved for 2 hr prior to fixation and imaging of the GFP fluorescence. Scale bar: 10 μm."
NCBI gene IDs:
"ATG16L1: 77040
ATG5: 11793"
Figure legend: "Assessment of ATG16L1 levels in the cytosolic (C) and membrane (M) fractions in lysates of the indicated cell lines using western blot analyses and antibodies against ATG16L1. ATG16L1-/- and ATG5-/- stably expressed ATG16L1-GFP while ATG3-/- stably expressed Flag-S-ATG16L1. Antibodies against α-tubulin and integrin β1 were used as controls for fractionation. Exogenous (exo) ATG16L1 was detected using antibodies against ATG16L1."
NCBI gene IDs:
"ATG16L1: 77040
ATG3: 67841
ATG5: 11793"
Figure legend: "Lack of WIPI2 expression is confirmed by western blot analyses in wild type MEFs (WIPI2+/+) and WIPI2-/- cells."
NCBI gene IDs:
"WIPI2: 74781"
Figure legend: "Immunofluorescence analyses of ATG16L1-/- and WIPI2-/- stably expressing Flag-S-ATG16L1. Cells were amino acid starved (AA starve) for 2 hr in the presence or absence of 3'MA (and additional pretreatment for 30 min) followed by fixation and immuno-staining using antibodies against Flag tag to detect ATG16L1. Scale bar: 9 μm."
NCBI gene IDs:
"ATG16L1: 77040
WIPI2: 74781"
Figure legend: "U2OS cells expressing Flag-ATG16L1∆2 or Flag-ATG16L1∆2∆182-205 were treated as in (B) and stained using antibodies against Flag tag (to detect ATG16L1, green) and FIP200 (red). Scale bar: 10 μm."
NCBI gene IDs:
"Flag: 
ATG16L1: 77040"
Figure legend: "Protein-protein interaction assay in 293T cells transiently transfected with the indicated Flag-S-tagged ATG16L1 constructs. S tag pull down was performed and protein complexes were analysed by immunoblotting using the indicated antibodies."
NCBI gene IDs:
"Flag: 
ATG16L1: 77040"
Figure legend: "Homodimerisation assay in 293T cells transiently transfected with ATG16L1-GFP and the indicated Flag-S-tagged ATG16L1 constructs. S tag pull down was performed and protein complexes were analysed by immunoblotting using the indicated antibodies."
NCBI gene IDs:
"Flag: 
GFP: 
ATG16L1: 77040"
Figure legend: "Flag-ATG16L1WT or Flag-ATG16L1∆182-205 were stably expressed in ATG5-/- cells and analysed by immunofluorescence using antibodies against Flag tag to detect ATG16L1. Scale bar: 9 μm."
NCBI gene IDs:
"Flag: 
ATG16L1: 77040
ATG5: 11793"
Figure legend: "Microscopy-based protein-liposome binding assay as in (B). ATG16L1WT- and ATG16L1LD-GFP immobilised on beads were incubated with rhodamine-labelled, PI3P-positive liposome preparations. Scale bar: 50 μm. Right panel shows quantification of liposome binding relative to ATG16L1WT from 3 independent experiments including SEM values."
NCBI gene IDs:
"GFP: 
ATG16L1: 77040"
Figure legend: "Protein-protein interaction assay in 293T cells transiently transfected with the indicated S-tagged ATG16L1 constructs. S tag pull down was performed and protein complexes were analysed by immunoblotting using the indicated antibodies."
NCBI gene IDs:
"ATG16L1: 77040"
Figure legend: "by immunoblotting using the indicated antibodies. Dimerisation assay in 293T cells transiently transfected with ATG16L1-GFP and the indicated S-tagged ATG16L1 constructs and analysed"
NCBI gene IDs:
"GFP: 
ATG16L1: 77040"
Figure legend: "ATG16L1-/- stably expressing the indicated Flag-S-ATG16L1 constructs were amino acid starved for 2 hr prior to immunofluorescence analyses using antibodies against Flag tag (green) and ATG5 (red). Scale bar: 9 μm. Right panels show quantifications of average number of Flag- and ATG5-positive dots per cell."
NCBI gene IDs:
"Flag: 
ATG16L1: 77040"
Figure legend: "ATG16L1-/- stably expressing the indicated Flag-S-ATG16L1 constructs were amino acid starved for 2 hr prior to immunofluorescence analyses using antibodies against S tag (to detect ATG16L1, red) and WIPI2 (green). Scale bar: 9 μm. Lower panel shows quantification of average number of WIPI2 positive dots per cell."
NCBI gene IDs:
"Flag: 
ATG16L1: 77040"
Figure legend: "Average intensities of individual Flag-ATG16L1 dots in (A). Underlying grey circles represent individual data points. Dots were quantified (n=1225 for ATG16L1WT; n=334 for ATG16L1LD)."
NCBI gene IDs:
"ATG16L1: 77040"
Figure legend: "WIPI2-/- cells reconstituted with the indicated Flag-S-ATG16L1 constructs were amino acid starved for 2 hr prior to immunofluorescence analyses using antibodies against Flag tag (green) and FIP200 (red). Scale bar: 9 μm. Lower panel shows quantification of average number of Flag positive dots per puncta-positive cell."
NCBI gene IDs:
"Flag: 
ATG16L1: 77040
WIPI2: 74781"
Figure legend: "ATG16L1-/- cells were reconstituted with ATG16L1WT- or ATG16L1LD-expression constructs and autophagy assessed during treatment with various stimuli followed by immunoblotting using the indicated antibodies. Cells were amino acid starved (AA starved) to induce mTORC1-dependent autophagy in the presence or absence of BafA1 for 2 hr prior to lysis."
NCBI gene IDs:
"ATG16L1: 77040"
Figure legend: "ATG16L1-/- cells were reconstituted with ATG16L1WT- or ATG16L1LD-expression constructs and autophagy assessed during treatment with various stimuli followed by immunoblotting using the indicated antibodies. Mitophagy was induced by CCCP (10 μM) treatment for 6 hr prior to lysis."
NCBI gene IDs:
"ATG16L1: 77040"
Figure legend: "ATG16L1-/- cells were reconstituted with ATG16L1WT- or ATG16L1LD-expression constructs and autophagy assessed during treatment with various stimuli followed by immunoblotting using the indicated antibodies. Glucose starvation (Glu starved) for 20 hr was used to induce mTORC1-independent autophagy. BafA1 was added to all conditions 2 hr prior to lysis."
NCBI gene IDs:
"ATG16L1: 77040"
Figure legend: "ATG16L1-/- cells were reconstituted with ATG16L1WT- or ATG16L1LD-expression constructs and autophagy assessed during treatment with various stimuli followed by immunoblotting using the indicated antibodies. LC3-associated phagocytosis (LAP)-like LC3 lipidation was induced by treating cells with CCCP (100 μM) for 2 hr prior to lysis. Right panel shows quantification of LC3-II/LC3-I ratio."
NCBI gene IDs:
"ATG16L1: 77040"
Figure legend: "ATG16L1-/- cells were reconstituted with ATG16L1WT- or ATG16L1LD-expression constructs and autophagy assessed during treatment with various stimuli followed by immunoblotting using the indicated antibodies. LAP-like LC3 lipidation induced by monensin or ammonium chloride (NH4Cl) for 2 hr prior to lysis."
NCBI gene IDs:
"ATG16L1: 77040"
Figure legend: "ATG16L1-/- cells were reconstituted with ATG16L1WT- or ATG16L1LE-expression constructs and autophagy assessed during amino acid starvation (AA starve) followed by immunoblotting or immunofluorescence analyses. Immunofluorescence analyses of amino acid starved cells (2 hr) using antibodies against WIPI2 (red) or ATG16L1 (green). Scale bar: 9 μm. Cells as in (A) with the addition of 3'MA (and pretreatment with the drug for 30 min). Scale bar: 9 μm."
NCBI gene IDs:
"ATG16L1: 77040"
Figure legend: "WIPI2-/- cells reconstituted with the indicated ATG16L1 constructs were amino acid starved for 2 hr. BafA1 treatment was included in all conditions for 2 hr prior to lysis. Cell lysates were analysed by immunoblotting using the indicated antibodies. Quantification of LC3-II/LC3-I ratio of three independent experiments is shown on the right panel."
NCBI gene IDs:
"ATG16L1: 77040
WIPI2: 74781"
Figure legend: "Ferroptosis assay in ATG16L1-/- cells stably expressing ATG16L1WT, ATG16L1LD or ATG16L1LE. Cells were cultured in amino acid free media (AA starve) in the presence of 10% FBS or 10% dialysed FBS (diFBS) for 24 hr. Quantification of percentage of PI-positive cells from at least three independent experiments is shown."
NCBI gene IDs:
"ATG16L1: 77040"
Figure legend: "(B) Charged  tRNA levels in mock-injected and AnsB-overexpressing embryos at 6 hpf. Total and charged tRNAs were measured by  qRT-PCR coupled to the OXOPAP assay. The relative charged tRNA level in mock-injected  embryos were set to one. Data information bar charts show the average of three independent biological replicates. Error bars show SD. Individual data points are shown as dots. P-values were calculated using two-sided Student's t-test."
NCBI gene IDs:
"AnsB: 947454"
Figure legend: "(G) qRT-PCR analysis of hCMV uORF2  reporter mRNA levels in MZznf598 embryos at 6 hpf relative to 2 hpf. (H)  qRT-PCR  analysis of hCMV uORF2  reporter mRNA levels in wild-type  embryos, MZznf598 embryos and MZznf598 embryos injected with a mRNA encoding Myc-tagged full-length (full) or RING domain deleted (∆RING)  Znf598. mRNA levels at 6 hpf relative to 2 hpf are shown. Data information: bar charts show the average of three independent biological replicates. Error bars show SD. Individual data points are shown as dots. P-values were calculated using two-sided Student's t-test."
NCBI gene IDs:
"Myc: 
znf598: 407728
Znf598: 407728"
Figure legend: "(J) Results of PACE in MZznf598 zebrafish embryos. Black circles show the relative stability of the reporter mRNAs (averages of two biological replicates) in MZznf598 embryos. Gray circles show the relative stability of reporter mRNAs in wild-type embryos The stability of a codon-tag reporter with a UGA  stop codon was set to one. Error bars represent maximum and minimum data points. The relative effect of each codon on mRNA stability in wild-type embryos is shown as a color gradient from red (destabilizing) to blue (stabilizing)."
NCBI gene IDs:
"znf598: 407728"
Figure legend: "(B) Results of the tandem  ORF assay  with Lys AAG×8 and  Lys AAA×8 sequences. (C) Results of the  tandem ORF assay with  Gly×8 and Pro×8 sequences. (D) Results of the tandem  ORF assay  with Asn AAC and Asn AAU  codon tags. (E) Results of the tandem  ORF assay using EGFP ORFs with different codon optimalities. Data information: normalized Fluc activity with no insert was set to one. All experiments were repeated three times, and the average Fluc activity is shown as bar charts. Error bars show SD. Individual data points are shown as dots. P-values were calculated using two-sided Student's t-test."
NCBI gene IDs:
"EGFP: 
Fluc: "
Figure legend: "(C) SFB  tagged PAF1, SFB-LEO1, SFB-CTR9, SFB-CDC73, SFB-RTF1, SFB-WDR61   along with Myc SHP-1  or Myc PTPN7  were transfected in 293T  cells and interaction  of  SHP-1 with PAF complex components was detected by immunoblotting  with Myc  antibody after S protein beads pulldown  in presence of TurboNuclease."
NCBI gene IDs:
"Myc: 
SHP-1: 5777
PTPN7: 5778"
Figure legend: "(D) SFB  empty vector, SFB SHP-1 or SFB PTPN7  was co-transfected with Myc  tagged H2B  in 293T  cells. The interaction  of H2B  with  SHP-1 was detected through immunoblotting  using Myc  antibody after  pull down  with streptavidin sepharose  beads."
NCBI gene IDs:
"Myc: 
H2B: 440689///3017///8349///8340///128312///8347///8345///8970///85236///3018///8348///255626///8342///8341
SHP-1: 5777
PTPN7: 5778"
Figure legend: "(A) Nuclear  extracts of WT and SHP-1  knockout cells (derived from two independent guide RNAs) were made and the levels of H2BUb  were detected."
NCBI gene IDs:
"SHP-1: 5777"
Figure legend: "(B) Wild type (WT) 293T  cells along with SHP-1 KO cells transfected with either Myc  vector, Myc SHP-1 ∆SH2 or Myc SHP-1 NLS mutant were lysed.  H2BUb levels were determined using specific antibody."
NCBI gene IDs:
"Myc: 
SHP-1: 5777"
Figure legend: "(C) WT and SHP-1 KO 293T  cells transfected with Myc  vector, Myc SHP-1 or Myc SHP-1  C/S (C453S) mutant were lysed. H2BUb levels were determined using specific antibody."
NCBI gene IDs:
"Myc: 
SHP-1: 5777"
Figure legend: "(D) H2B  WT along with the indicated Y/F and Y/D mutants were transfected into 293T  cells. Histone extract was prepared from cells transfected with each construct and subjected to western blotting  with anti-H2B  and anti-H2BUb  antibodies."
NCBI gene IDs:
"H2B: 440689///3017///8349///8340///128312///8347///8345///8970///85236///3018///8348///255626///8342///8341"
Figure legend: "(D) 293T  cells were transfected with vector, Myc  tagged  SHP-1  WT or C/S mutant. The phosphorylation  status of endogenous H2B  was detected by immunoblotting  with pY121-H2B  antibody."
NCBI gene IDs:
"Myc: 
SHP-1: 5777"
Figure legend: "(E) Nuclear  extracts of 293T  WT and SHP-1 KO cells were made and the levels of H2B phosphorylation  were detected using pY121-H2B  antibody."
NCBI gene IDs:
"SHP-1: 5777"
Figure legend: "(F) Wild type (WT) along with SHP-1 KO 293T  cells transfected with either Myc  vector, Myc SHP-1 or Myc SHP-1 C/S mutant were lysed. Levels of pY121-H2B  and H2BUb were determined using specific antibodies."
NCBI gene IDs:
"Myc: 
SHP-1: 5777"
Figure legend: "MCF7  cells were transduced with (H) CTR9  shRNA along with control shRNA. Post 72 h, cells were collected and lysed to isolate soluble  and nuclear  fractions. Levels of phosphorylated  and ubiquitinated H2B  were detected by immunoblotting  with indicated specific antibodies."
NCBI gene IDs:
"CTR9: 9646"
Figure legend: "MCF7  cells were transduced with (I) Paf1  shRNA, along with control shRNA. Post 72 h, cells were collected and lysed to isolate soluble  and nuclear  fractions. Levels of phosphorylated  and ubiquitinated H2B  were detected by immunoblotting  with indicated specific antibodies."
NCBI gene IDs:
"Paf1: 54623"
Figure legend: "MCF7  cells were transduced with (J) RTF1  shRNA along with control shRNA. Post 72 h, cells were collected and lysed to isolate soluble  and nuclear  fractions. Levels of phosphorylated  and ubiquitinated H2B  were detected by immunoblotting  with indicated specific antibodies."
NCBI gene IDs:
"RTF1: 23168"
Figure legend: "(A) Cell lysates derived from 293T  cells transfected with empty vector, SFB-tagged H2B, H2B  Y121F or H2B  Y121D constructs were pulled down with S-protein agarose  beads. RNF20 interaction with H2B   was detected by immunoblotting  with specific antibody."
NCBI gene IDs:
"SFB: 
H2B: 440689///3017///8349///8340///128312///8347///8345///8970///85236///3018///8348///255626///8342///8341"
Figure legend: "(B) HEK293T  cells were co-transfected with the SFB-tagged H2B, H2B  Y121F or H2B  Y121D constructs along with Myc-tagged UBE2A. Cell lysates were pulled down with S-protein beads, and interaction  was detected by immunoblotting  with Myc  antibody."
NCBI gene IDs:
"Myc: 
SFB: 
H2B: 440689///3017///8349///8340///128312///8347///8345///8970///85236///3018///8348///255626///8342///8341
UBE2A: 7319"
Figure legend: "(E) WT 293T  cells along with  SHP-1 KO were co-transfected with SFB  vector or SFB H2B  along with Myc UbE2A. Cell lysates were pulldown  using S-protein  beads, and interaction  of UBE2A  with H2B  was determined by Western blotting with the indicated antibodies."
NCBI gene IDs:
"Myc: 
SFB: 
H2B: 440689///3017///8349///8340///128312///8347///8345///8970///85236///3018///8348///255626///8342///8341
SHP-1: 5777
UbE2A: 7319"
Figure legend: "(F) HEK293T  cells were transfected with SFB  vector or SFB H2B  along with Myc UBE2A.Cells were treated with SHP-1  inhibitor TPI  (50nm) for 1hr after 24hrs of transfection. Cells lysates were subjected to pull-down  with S-protein beads, and western blotting was performed using specific antibodies."
NCBI gene IDs:
"Myc: 
SFB: 
H2B: 440689///3017///8349///8340///128312///8347///8345///8970///85236///3018///8348///255626///8342///8341
UBE2A: 7319"
Figure legend: "(D) Nuclear  extracts of MCF-7  WT and SHP-1 knockout cells were made and the levels of RNA Polymerase II, RNA Polymerase II Ser2P and RNA Polymerase II  Ser5P were detected by immunoblotting  using specific antibodies."
NCBI gene IDs:
"SHP-1: 5777"
Figure legend: "(F) Nuclear  extracts of MCF-7 WT and SHP-1 knockout cells transfected with Myc  vector, H2B  Y121F or H2B  Y121D constructs were made and the levels of RNA Polymerase II, RNA Polymerase II  Ser2P, RNA Polymerase II  Ser5P and Lamin B1  were detected by immunoblotting  using specific antibodies."
NCBI gene IDs:
"Myc: 
H2B: 440689///3017///8349///8340///128312///8347///8345///8970///85236///3018///8348///255626///8342///8341
SHP-1: 5777"
Figure legend: "(G) Immunofluorescence  of WT or SHP-1  knockout MCF7  cells labelled with the  5-Ethynyl Uridine (EU) for 60 minutes to capture nascent RNA  synthesis. Scale bars 10μm. (H) The EU incorporation  in MCF-7  WT and SHP-1 KO cells was quantified in three independent experiments. Values presented as the mean ± SD, ***indicates p&lt;0.001 (One-way ANOVA)."
NCBI gene IDs:
"SHP-1: 5777"
Figure legend: "(C, D) MCF-7  WT cells along with SHP-1  KO cells transfected with either vector, H2B  Y121F or H2B  Y121D mutant were used for ChIP q-PCR  analysis of the H2BUb at indicated genes. The data shown is derived from two independent experiments. Error bars indicate the mean ± SD."
NCBI gene IDs:
"H2B: 440689///3017///8349///8340///128312///8347///8345///8970///85236///3018///8348///255626///8342///8341
SHP-1: 5777"
Figure legend: "(A) Lysates of WT and  SHP-1 knockout MCF7  cells were made and the levels of  LC3-I and II were detected by immunoblotting. (B) Levels of LC3 II were normalized against total  LC3 (LC3 I+LC3 II). The data shown is derived from three independent experiments. Error bars indicate the mean ± SD. *p value &lt; 0.05, Student's t-test."
NCBI gene IDs:
"SHP-1: 5777"
Figure legend: "(C) Representative super- resolution images of WT and  SHP-1 KO MCF7  cells immunostained  with LC3  antibody, (Scale bar: 5µm). (D) Quantification of LC3  puncta accumulation per cell done by using ImageJ was shown. Bars represents mean ± SD.(N=60) ***p value &lt; 0.001, Student's t-test."
NCBI gene IDs:
"SHP-1: 5777"
Figure legend: "(E) WT along with  SHP-1 KO MCF7  cells transfected with either Myc  vector, Myc SHP-1 or Myc SHP-1 NLS mutant were lysed. Levels of LC3  and actin  were determined using specific antibodies."
NCBI gene IDs:
"Myc: 
SHP-1: 5777"
Figure legend: "(F) WT and  SHP-1 knockout MCF7  cells transfected with the Myc  vector or Myc-tagged H2B, H2B  Y121F or H2B  Y121D constructs were immunostained  with endogenous p62  and Myc  antibody. Image acquisition was done using LSM 700, (Scale bar: 20µm). (G) Accumulation of p62  was quantified by counting p62  positive puncta per cell. (N= 25); values presented as the mean ± SD. ***p value &lt; 0.001 (One-way ANOVA)."
NCBI gene IDs:
"Myc: 
H2B: 440689///3017///8349///8340///128312///8347///8345///8970///85236///3018///8348///255626///8342///8341
SHP-1: 5777"
Figure legend: "(H) Representative super-resolution images of LC3  and LAMP2 immunostaining  in WT and  SHP-1 KO MCF7  cells. (Scale bar: 20 µm for merge &amp; 5 µm for Zoom). (I) LC3  puncta co-localizing  with LAMP2  per cell were quantified using ImageJ. (N=45); values presented as the mean ± SD. ***p value &lt; 0.001, Student's t-test."
NCBI gene IDs:
"SHP-1: 5777"
Figure legend: "Time course of pyruvate homo-exchange by the Mpc1/Mpc3 hetero-complex in liposomes (n=8) in comparison to empty liposomes (n=6) at a ΔpH of 1.6."
NCBI gene IDs:
"Mpc1: 852800
Mpc3: 853158"
Figure legend: "Time course of pyruvate homo-exchange by the Mpc1/Mpc3 hetero-complex in physiological pH (n=4) compared to empty liposomes (n=4)."
NCBI gene IDs:
"Mpc1: 852800
Mpc3: 853158"
Figure legend: "In the absence of a ΔpH, the time course of pyruvate homo-exchange was similar for the Mpc1/Mpc3 proteoliposomes and the empty liposomes (n=4)."
NCBI gene IDs:
"Mpc1: 852800
Mpc3: 853158"
Figure legend: "Time course of pyruvate homo-exchange in proteoliposomes at a ΔpH of 1.6 was compared for Mpc3 (n=4), the Mpc1/Mpc3 hetero-complex (n=6) and empty liposomes (n=4)."
NCBI gene IDs:
"Mpc1: 852800
Mpc3: 853158"
Figure legend: "Time course of pyruvate homo-exchange at a ΔpH of 1.6 was compared for Mpc1 (n=4), Mpc1/Mpc3 hetero-complex (n=4) and empty liposomes (n=4)."
NCBI gene IDs:
"Mpc1: 852800
Mpc3: 853158"
Figure legend: "LBPA intensity in a mixed population of cells expressing HRH3-GFP. After transfection with HRH3-GFP, uncloned stably expressing cells (C) were labelled with anti-LBPA antibodies and analysed by automated microscopy (C). Unbiased quantification (D) shows the inverse correlation between HRH3-GFP expression (high expressing cells in green) and the endosome integrated intensity of LBPA staining (high LBPA labelling in red). (n=2 independent experiments with 500,000 cells analysed automatically, error bars = SD)."
NCBI gene IDs:
"GFP: 
GFP.: 
HRH3: 11255"
Figure legend: "LBPA intensity in cells expressing or not HRH3-GFP. HeLa MZ cells stably expressing HRH3-GFP grown in 96-well plates were separately treated, with 4 different siRNAs that target HRH3 (siHRH3#1; siHRH3#2; siHRH3#3; siHRH3#4) or with control non-target (siNT) siRNA (E). HRH3-GFP was analysed by fluorescence microscopy in 4 rows of cells per condition; micrographs are stitched together in the montage. Panel F shows an example of cells treated with siHRH3#2 or siNT, and then labelled with DAPI and antibodies against LBPA. Cells treated as in (E) and labelled with DAPI and antibodies against LBPA as in (F), were analysed by automated microscopy and the integrated intensities of LBPA (left panel) and HRH3-GFP (right panel) signals are compared (G). (n=2 independent experiments with 192 images acquired and analysed automatically, error bars = SD)."
NCBI gene IDs:
"GFP: 
HRH3: 11255"
Figure legend: "Treatment of NPC fibroblasts and NPC null mice with thioperamide. Fibroblast lines obtained from patients with well-established heterozygote mutations in the NPC1 (GM17912 line: NPC1 P1007A / T1036M; GM17911 line: NPC1 I1061T / T1036M) or with a homozygote mutation in the NPC2 gene (GM17910 line: C93F / C93F) were treated or not for 72h with thioperamide 10µM, stained with filipin (cholesterol) and analysed by fluorescence automated microscopy."
NCBI gene IDs:
"NPC: 18145
NPC1: 4864
NPC2: 10577"