EMBO/SourceData huggingface dataset:
Figure legend: "D-I. DPOAE  thresholds (D, E), ABR  thresholds (F, G), and ABR P1 amplitudes at 32 kHz (H, I) of 2-month old (D, F, H) or 6-month old (E, G, I)  CgndelG mice. Control Cgn+/+ mice  (circle), n = 3 mice  (2-month, female  = 1, male  = 2) or 15 mice  (6-month, female  = 4, male  = 11); CgndelG/+ mice  (triangle), n = 8 mice  (2-month, female  = 4, male  = 4) or 20 mice  (6-month, female  = 9, male = 11); CgndelG/delG mice  (square), n = 7 mice  (2-month, female  = 4, male  = 3) or 16 mice  (6-month, female  = 6, male  = 10). Cgn+/+ vs CgndelG/delG, * (red); Cgn+/+ vs CgndelG/+, * (green). Data information: Data are presented as mean ± SEM; two-way ANOVA was used * P &lt; 0.05, ** P &lt; 0.01, *** P &lt; 0.001 and **** P &lt; 0.0001."
NCBI gene IDs:
"Cgn: 57530"
Figure legend: "J. Whole mount immunofluorescence  of the organ of Corti  from 7-month old CgndelG mice. White arrows indicate lost OHCs  by F-actin  labeling (Phalloidin)."
NCBI gene IDs:
"Cgn: 57530"
Figure legend: "K. Percentage of OHC  loss in 7-month old CgndelG mice  (n = 3-8 biological replicates from 3 cochleae). Data information: Data are presented as mean ± SEM; two-way ANOVA was used * P &lt; 0.05, ** P &lt; 0.01, *** P &lt; 0.001 and **** P &lt; 0.0001."
NCBI gene IDs:
"Cgn: 57530"
Figure legend: "F. Percentage of OHC  loss in noise exposed CgndelG mice  (n = 5-9 cochleae). Data information: Data are presented as mean ± SEM; one-way ANOVA was used in (F). ** P &lt; 0.01, *** P &lt; 0.001 and **** P &lt; 0.0001."
NCBI gene IDs:
"Cgn: 57530"
Figure legend: "Whole mount immunofluorescence   with LMO7  antibody on 2-month old CgndelG mice  at 32 kHz cochlear  region"
NCBI gene IDs:
"Cgn: 57530"
Figure legend: "Whole mount immunofluorescence  with Spectrin β II  antibody on 2-month old CgndelG mice  at 32 kHz cochlear  region"
NCBI gene IDs:
"Cgn: 57530"
Figure legend: "A. Low-magnification SEM  images of hair bundles   from 2-month old Cgn+/+ and CgndelG/delG mice. B. High-magnification SEM  images of IHC hair bundles  from 2-month old Cgn+/+ and CgndelG/delG mice. C. High-magnification SEM  images of OHC hair bundles   from 2-month old Cgn+/+ and CgndelG/delG mice. Shown are hair bundles of the second-row OHCs  (OHC2)."
NCBI gene IDs:
"Cgn: 57530"
Figure legend: "(B) Total lysates from  HEK293T transfected with Flag-OFD1  were  IP with anti-myosin VI antibodies (1295 and 1296) and an unrelated rabbit antibody (anti-GST, as control). IB was performed with anti-Flag and anti-myosin VI  antibodies. (C) Total lysates from  HEK293T transfected with Flag-OFD1 or Flag (as control) were  IP with anti-Flag antibody-conjugated beads. IB  was performed with anti-Flag and anti-myosin VI  antibodies."
NCBI gene IDs:
"Flag: 
OFD1: 8481"
Figure legend: "(D) Selected sections deriving from  TEM  analysis of A549 wild-type versus myosin VI  KO cells. The cells were immunogold-labelled with anti-myosin VI antibody. The centrioles in the images are indicated with white dashed circles. Scale bar, 200 nm. Top: representation of the estimated  localisation of myosin VI at the  centrioles."
NCBI gene IDs:
"myosin VI: 4646"
Figure legend: "(F)  GST pulldown assay using myosin VI tail (835-1295) construct (or GST alone as control) and lysates from HEK293T cells transfected with the indicated Flag-OFD1 constructs (or Flag alone, as control). IB was performed with anti-Flag antibody. Ponceau staining  as indicated."
NCBI gene IDs:
"Flag: 
OFD1: 8481"
Figure legend: "D) Quantification of OFD1 intensity at the mother  or  daughter   centrioles. Results are expressed as fold change with respect to mock average intensity. Bars represent mean ± SD. Mother centrioles: Mock, n=148 cells; MyoVI KD, n=199 cells, from four independent experiments.  Daughter centrioles: Mock, n=101 cells; MyoVI  KD, n=148 cells, from three independent experiments. **** P&lt;0,0001 by Mann-Whitney test."
NCBI gene IDs:
"MyoVI: 4646"
Figure legend: "(F-G)  IF analysis of Cep164 signal. hTERT-RPE1 cells were transfected with siRNA against myosin VI and/or OFD1. Four days after transfection, cells were treated with nocodazole (1 hour, 6 μg/ml) and immunostained with anti-OFD1, anti-centrin1 and anti-Cep164  antibodies. (F) Representative images. Scale bar, 1 μm. (G) Quantification of Cep164 intensity at the  mother   centrioles. Results are expressed as fold change with respect to mock average intensity. Bars represent mean ±SD. Mock, n=147 cells; OFD1 KD, n=146 cells; MyoVI  KD, n=150 cells;  MyoVI + OFD1 KD, n=151 cells, from four independent experiments. ** P&lt;0,005; **** P&lt;0,0001 by Kruskal-Wallis test."
NCBI gene IDs:
"myosin VI: 4646
MyoVI: 4646
OFD1: 8481"
Figure legend: "(A)  Growth  curve of hTERT-RPE1 cells transfected with myosin VI  siRNA. A representative plot of three independent experiments is shown. (B)  Growth curve of BJ-hTERT  cells transfected with myosin VI  siRNA. A representative plot of two independent experiments is shown."
NCBI gene IDs:
"myosin VI: 4646"
Figure legend: "(G) Representative bright field  images of cells treated with the indicated  p53 and  myosin VI siRNAs. Scale bar, 200 μm."
NCBI gene IDs:
"myosin VI: 4646
p53: 7157"
Figure legend: "(A)  Super-resolution  analysis  of OFD1 localisation at the  centrioles. hTERT-RPE1 cells were transfected with siRNA against  myosin VI, immunostained with anti-OFD1 and anti-acetylated tubulin antibodies and visualised using structured illumination microscopy (SIM). Representative images are shown, scale bar, 500 nm. A scheme of the estimated  localisation of OFD1 in the two conditions is depicted on the right side."
NCBI gene IDs:
"myosin VI: 4646"
Figure legend: "(C)  dSTORM super-resolution analysis of the distal appendage markers  FBF1 and  ODF2 in control and  myosin VI-depleted cells. To emphasise the symmetry of the structures, the signals from all nine   appendages   were averaged (bottom). Representative images are shown; scale bar, 200 nm."
NCBI gene IDs:
"myosin VI: 4646"
Figure legend: "FRAP  analysis of centriole-associated  GFP-OFD1.  hTERT-RPE  cells stably expressing GFP-OFD1 and centrin1-dTomato were transfected with siRNA against  myosin VI. After four days, cells were treated with nocodazole (1 hour, 6 μg/ml) and subjected to live-cell imaging. (E) A representative graph of one out of three experiments. For each  time point, the fraction of recovery of GFP-OFD1 is shown. Results are expressed as means with 95% confidence interval. n=12 cells (Mock), n=13 cells (MyoVI KD). (F) Quantification of the half-time  of fluorescence recovery (t1/2,) and of the mobile fraction of GFP-OFD1. Results are expressed as mean ±SD. n=41 cells (Mock), n=31 cells (MyoVI  KD), from three independent experiments. ns, not significant; *** P&lt;0,0005 by Unpaired T-test."
NCBI gene IDs:
"dTomato: 
GFP: 
centrin1: 1068
myosin VI: 4646
MyoVI: 4646
OFD1: 8481"
Figure legend: "(B)  IF analysis of PCM1 signal. hTERT-RPE1  cells were transfected with siRNA against  myosin VI  and immunostained  with anti-PCM1 and anti-Cep135 antibodies. Upper panel, representative images, scale bar, 2 μm. Lower panel, quantification of PCM1  intensity. Results are expressed as fold change with respect to mock average intensity. Bars represent mean ±SD. Mock, n=96 cell; MyoVI KD, n=98cells, from two independent experiments. **** P&lt;0,0001 by Mann-Whitney test. (C)  IF analysis of  PCM1 signal. hTERT-RPE1 cells were treated with Nutlin-3 for 24 hours and immunostained  with anti-PCM1 and anti-Cep135 antibodies. Panels as in B. Mock, n=96 cells; Nutlin-3, n=100 cells, from two independent experiments. **** P&lt;0,0001 by Mann-Whitney test. (D)  IF  analysis of PCM1 signal. hTERT-RPE1 p53 KO cells were transfected with siRNA against  myosin VI and immunostained with anti-PCM1 and anti-Cep164  antibodies. Panels as in B. Quantification of PCM1 intensity refers to a 3 μm circle around the mother centriole, identified with anti-Cep164 staining. Mock, n=128 cells; MyoVI KD, n=114 cells from three independent experiments. ns, not significant by Mann-Whitney test."
NCBI gene IDs:
"myosin VI: 4646
MyoVI: 4646
p53: 7157"
Figure legend: "(B)  IF  analysis of  OFD1 signal at the centriolar satellites  upon   serum starvation. hTERT-RPE1 p53  KO cells were transfected with siRNA against myosin VI. After four days, cells were fixed (growing) or  serum starved for 24 hours (SS). Cells were immunostained  with anti-OFD1  and anti-PCM1 antibodies. The intensity of OFD1  signal in the area covered by PCM1  was quantified and normalised against the intensity of PCM1 staining in the same area. Left, representative images, scale bar, 2 μm. Right, results are expressed as fold change with respect to mock average intensity. Bars represent mean ±SD. Mock_growing, n=150 cells; Mock_SS, n=149 cells; MyoVI  KD_growing, n=149 cells;  MyoVI  KD_SS, n=150 cells, from three independent experiments. ns, not significant; * P&lt;0,05; **** P&lt;0,0001 by Kruskal-Wallis test."
NCBI gene IDs:
"myosin VI: 4646
MyoVI: 4646
p53: 7157"
Figure legend: "(C) IB  analysis of OFD1 after  serum starvation in control and myosin VI-depleted cells.  hTERT-RPE1 p53 KO cells were transfected with siRNA against myosin VI. After four days, cells were  serum starved   for 24 hours (SS). Lysates were analysed by IB  with anti-OFD1, anti-myosin VI, anti-p62, and anti-LC3 antibodies. Anti-GAPDH was used as loading control. The amount of  OFD1 protein was normalised against  GAPDH signal and is expressed as percentage of OFD1  levels in cells grown in  serum-starved  conditions compared to cells grown in media containing  serum. Bars represent mean ±SD. n=5 independent experiments. * P&lt;0,05 by Kruskal-Wallis test."
NCBI gene IDs:
"myosin VI: 4646
p53: 7157"
Figure legend: "(D) IF analysis of primary cilium  upon  serum starvation. hTERT-RPE1 p53  KO cells were transfected with siRNA against  myosin VI. After four days, cells were fixed (growing) or serum starved    for 24 hours (SS). Cells were immunostained with anti-acetylated tubulin (to identify the  cilia), anti-Cep135 (to identify the centrioles) and  DAPI. Left, representative images, scale bar, 2 μm. Right, results are expressed as fold change with respect to mock average intensity. Bars represent mean ±SD. n=3 independent experiments. 100-200 cells/condition were counted for each experiment. ***P &lt; 0.001 by two-way ANOVA test."
NCBI gene IDs:
"myosin VI: 4646
p53: 7157"
Figure legend: "B, C MCF-7  cells expressing GFP-INPP4B  or GFP-vector were cultured in growth media or EBSS  for the indicated times, then lysed and immunblotted  with LC3B   antibodies and GAPDH  antibodies as a loading control (B). Data represent the relative LC3B-II levels normalized to GAPDH, and expressed relative to growth media-treated GFP-vector cells which were assigned an arbitrary value of 1 (n=3 experiments) (C). Data information: Data is presented as mean ± SD. p values determined by one-way ANOVA with Tukey post hoc test in C,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "D, E MCF-7  cells expressing NT, INPP4B  #1 or INPP4B  #2 shRNA were cultured in  growth media  or EBSS  for the indicated times, then lysed and immunblotted  with LC3B  antibodies and GAPDH  antibodies as a loading control (D). Data represent the relative  LC3B-II levels normalized to GAPDH, and expressed relative to  growth media-treated NT shRNA cells which were assigned an arbitrary value of 1 (n=3 experiments) (E). Data information: Data is presented as mean ± SD. p values determined by one-way ANOVA in E."
NCBI gene IDs:
"INPP4B: 8821"
Figure legend: "F, G MCF-7  cells expressing GFP-INPP4B  or GFP-vector were cultured in growth media or EBSS  for 4 hours, then fixed and immunostained  with p62  antibodies, and co-stained  with DAPI  and phalloidin  (F). Data represent the number of p62+ puncta relative to cell area (µm2) (n=3 experiments, &gt;50 cells/experiment) (G). Data information: Data is presented as mean ± SD. The insets at the lower right of each image are higher power regions of the boxed areas. Scale bar is 10 µm in F p values determined by one-way ANOVA with Tukey post hoc test in G,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "H, I MCF-7 cells expressing GFP-INPP4B  or GFP-vector were treated with 100 nM bafilomycin A1  or DMSO  as a vehicle control for 4 hours, then lysed and immunblotted  with LC3B  antibodies and GAPDH  antibodies as a loading control (H). Data represent the relative  LC3B-II  levels normalized to GAPDH, and expressed relative to DMSO-treated GFP-vector cells which were assigned an arbitrary value of 1 (I) (n=3 experiments). Data information: Data is presented as mean ± SD. p values determined by one-way ANOVA with Tukey post hoc test in , I,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "J, K MCF-7 cells expressing GFP-INPP4B  or GFP-vector were treated with 100 nM bafilomycin A1 or DMSO  as a vehicle control for 4 hours, then fixed and immunostained  with p62  antibodies, and co-stained with DAPI  and phalloidin  (J). Data represent the number of p62+ puncta relative to cell area (µm2) (n=3 experiments, &gt;50 cells/experiment) (K). Data information: Data is presented as mean ± SD. The insets at the lower right of each image are higher power regions of the boxed areas. Scale bar is 10 µm in J. p values determined by one-way ANOVA with Tukey post hoc test in K,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "L, M MCF-7 cells expressing GFP-INPP4B  or GFP-vector were treated with 2 µM BYL719  or DMSO  as a vehicle control for the indicated times. Cells were lysed and immunblotted  with LC3B, pAKTS473, AKT(pan), pS6KT389 or S6K  antibodies and GAPDH  antibodies as a loading control (L). Data represent the relative LC3B-II levels normalized to GAPDH, and expressed relative to DMSO-treated GFP-vector cells which were assigned an arbitrary value of 1 (n=3 experiments) (M). Data information: Data is presented as mean ± SD. p values determined by one-way ANOVA with Tukey post hoc test in M,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "N, O MCF-7 cells expressing GFP-INPP4B  or GFP-vector were treated with 1 µM or 10 µM SAR405  or DMSO  as a vehicle control for 4 hours. Cells were lysed and immunblotted  with LC3B  antibodies and GAPDH antibodies as a loading control (N). Data represent the relative LC3B-II levels normalized to GAPDH, and expressed relative to DMSO-treated GFP-vector cells which were assigned an arbitrary value of 1 (n=3 experiments) (O). Data information: Data is presented as mean ± SD. p values determined by one-way ANOVA with Tukey post hoc test in O,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "A, B MCF-7 cells expressing NT, INPP4B  #1 or INPP4B  #2 shRNA were fixed and immunostained  with recombinant GST-2xFYVE and LAMP2  antibodies, and  co-stained  with DAPI  (A). Data represent the proportion of 2xFYVE+ lysosomes  (n=3 experiments, &gt;40 cells/experiment) (B). Arrows indicate  co-localization  between 2xFYVE and LAMP2. Data information: Data is presented as mean ± SD. The insets at the lower right or bottom of each image are higher power regions of the boxed areas. Scale bar is 10 µm in A, p values determined by one-way ANOVA with Tukey post hoc test in B"
NCBI gene IDs:
"INPP4B: 8821"
Figure legend: "D, E MCF-7  cells co-expressing GFP-INPP4B  or GFP-vector, and Hrs  or NT shRNA, were fixed and immunostained  with recombinant GST-2xFYVE and LAMP2  antibodies, and co-stained  with DAPI  (D). Data represent the proportion of 2xFYVE+ lysosomes  (n=3 experiments, &gt;30 cells/experiment) (E). Arrows indicate  co-localization  between 2xFYVE and LAMP2. Data information: Data is presented as mean ± SD. The insets at the lower right or bottom of each image are higher power regions of the boxed areas. Scale bar is 10 µm in D, p values determined by one-way ANOVA with Tukey post hoc test in"
NCBI gene IDs:
"GFP: 
INPP4B: 8821
Hrs: 6430"
Figure legend: "F, G  MCF-7 cells co-expressing GFP-INPP4B  or GFP-vector, and Hrs  or NT shRNA, were fixed and immunostained  with recombinant GST-2xFYVE   and CD63  antibodies, and co-stained  with DAPI  (F). Data represent the proportion of 2xFYVE+ late endosomes (n=3 experiments, &gt;30 cells/experiment) (G). Arrows indicate co-localization between 2xFYVE and LAMP2. Data information: Data is presented as mean ± SD. The insets at the lower right or bottom of each image are higher power regions of the boxed areas. Scale bar is 10 µm in F. p values determined by one-way ANOVA with Tukey post hoc test in G,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821
Hrs: 6430"
Figure legend: "H, I MCF-7 cells co-expressing GFP-INPP4B  or GFP-vector, and Hrs  or NT shRNA, were lysed and immunoblotted  with LC3B  antibodies, and GAPDH  antibodies as a loading control (H). Data represent the relative LC3B-II levels normalized to GAPDH, and expressed relative to GFP-vector;NT shRNA cells which were assigned an arbitrary value of 1 (n=3 experiments) (I). Data information: Data is presented as mean ± SD. p values determined by one-way ANOVA in I."
NCBI gene IDs:
"GFP: 
INPP4B: 8821
Hrs: 6430"
Figure legend: "A, B MCF-7  cells expressing GFP-INPP4B  or GFP-vector were fixed and immunostained  with LAMP1  or LAMP2  antibodies, and co-stained with DAPI  and phalloidin  (A). Data represent the number of LAMP1+ or LAMP2+ puncta relative to cell area (µm2) (n=3 experiments, &gt;50 cells/experiment) (B). Data information: Data is presented as mean ± SD. Scale bar is 10 µm in A, p values determined by two-tailed unpaired t test in B,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "C, D Snapshots of  Magic Red cathepsin B   substrate and Hoechst 33342  captured in live MCF-7 cells expressing GFP-INPP4B  or GFP-vector (C). Data represent the number of  Magic Red cathepsin B+ puncta per cell (n=3 experiments, &gt;50 cells/experiment) (D). Data information: Data is presented as mean ± SD. Scale bar is 10 µm in C, p values determined by two-tailed unpaired t test in D,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "E, F MCF-7 cells expressing NT or INPP4B  #1 shRNA were cultured in growth media  or EBSS  for the indicated times, then fixed and immunostained  with LAMP1  antibodies and co-stained  with DAPI  and phalloidin  (E). Data represent the number of LAMP1+ puncta relative to cell area (µm2) (n=3 experiments, &gt;30 cells per experiment) (F). Data information: Data is presented as mean ± SD. Scale bar is 10 µm in p values determined by one-way ANOVA with Tukey post hoc test in F"
NCBI gene IDs:
"INPP4B: 8821"
Figure legend: "G, H  MCF-7  cells expressing GFP-INPP4B  or GFP-vector were transfected with NT, PIK3CA  #1 or PIK3CA  #2 siRNA. After 24 hours, cells were fixed and immunostained  with LAMP1  antibodies, and co-stained with DAPI  and phalloidin  (G). Data represent the number of LAMP1+ puncta relative to cell area (µm2) (n=3 experiments, &gt;40 cells per experiment) (H). Data information: Data is presented as mean ± SD. Scale bar is 10 µm in G. p values determined by one-way ANOVA in H."
NCBI gene IDs:
"GFP: 
INPP4B: 8821
PIK3CA: 5290"
Figure legend: "A, B Snapshots of LAMP1-GFP, Magic Red cathepsin B  substrate and  Hoechst 33342 captured in live HeLa  cells transfected with INPP4B  or NT siRNA (A). Data represent the number of LAMP1+/Magic Red Cathepsin B+ and LAMP1+/Magic Red Cathepsin B− lysosomes   (terminal storage lysosomes) per cell (n=3 experiments, &gt;50 cells/experiment) (B).Yellow arrows indicate LAMP1+/MR Cathepsin B+ lysosomes, and white arrows indicate terminal storage lysosomes. Data information: Data is presented as mean ± SD. The insets at the lower right of each image are higher power regions of the boxed areas. Scale bar is 10 µm in A, p values determined by two-way ANOVA with Holm-Sidak post-hoc test in B"
NCBI gene IDs:
"INPP4B: 8821"
Figure legend: "C Timelapse  snapshots of LAMP1-mCherry  signals from MCF-7 cells expressing GFP-INPP4B  or GFP-vector captured by  spinning disk microscopy. Maximum intensity projections of 3 z-planes taken 0.27 µm apart are shown. Arrows indicate lysosome  reformation. Data information: The insets at the lower right of each image are higher power regions of the boxed areas. Scale bar is 10 µm in C."
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "E Data represent the number of LAMP1+ reformation events per cell per minute (n=12 GFP-vector cells, n=15 GFP-INPP4B  cells). Data information: Data is presented as mean ± SD. p values determined by two-tailed unpaired t test in E."
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "A, B  MCF-7 cells expressing GFP-INPP4B  or GFP-vector were treated with 5 µM YM201636  for 2 hours. Cells were fixed and immunostained  with recombinant GST-2xFYVE and LAMP2  antibodies, and co-stained with DAPI  (A). Data represent the proportion of 2xFYVE+ lysosomes  (n=3 experiments, &gt;30 cells/experiment) (B). Arrows show co-localization between 2xFYVE and LAMP2. Data information: Data is presented as mean ± SD. The insets at the lower right or bottom of each image are higher power regions of the boxed areas. Scale bar is 10 µm in A p values determined by one-way ANOVA in B"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "D-F  MCF-7  cells expressing GFP-INPP4B  or GFP-vector were treated with 5 µM YM201636  or DMSO  as a vehicle control for 2 hours, then YM201636  was washed out for 1, 2 or 4 hours. Cells were fixed and immunostained  with LAMP1  antibodies, and co-stained  with DAPI  and phalloidin  (D). Data represent the number of LAMP1+ puncta relative to cell area (µm2) (E), and the lysosome  fold change relative to the YM201636-treated condition for each cell line (F) (n=3 experiments, &gt;30 cells per experiment). Data information: Data is presented as mean ± SD. The insets at the lower right or bottom of each image are higher power regions of the boxed areas. Scale bar is 10 µm in D. p values determined by one-way ANOVA in E, or by two-tailed unpaired t test of the area under the curve in F."
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "G, H MCF-7 cells expressing GFP-INPP4B  or GFP-vector were treated with 1, 2 or 5 µM YM201636  or DMSO  as a vehicle control for 4 hours. Cells were lysed and immunoblotted  with LC3B  antibodies, and GAPDH  antibodies as a loading control (G). Data represent the relative LC3B-II levels normalized to GAPDH, and expressed relative to DMSO-treated GFP-vector cells which were assigned an arbitrary value of 1 (n=3 experiments) (H). Data information: Data is presented as mean ± SD. p values determined by one-way ANOVA in H,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "A, B MCF-7  cells expressing GFP-INPP4B  or GFP-vector were transfected with NT, SNX1  or SNX2  siRNA. After 24 hours, cells were fixed and immunostained  with LAMP2  antibodies, and  co-stained with DAPI  and phalloidin  (A). Data represent the number of LAMP2+ puncta relative to cell area (µm2) (n=3 experiments, &gt;40 cells per experiment) (B). Data information: Data is presented as mean ± SD. The insets at the lower right or bottom of each image are higher power regions of the boxed areas. Scale bar is 10 µm in A, p values determined by one-way ANOVA in with Tukey post hoc test in B"
NCBI gene IDs:
"GFP: 
INPP4B: 8821
SNX1: 6642
SNX2: 6643"
Figure legend: "D, E MCF-7  cells expressing GFP-INPP4B  or GFP-vector were treated with 5 µM YM201636  for 2 hours, then YM201636  was washed out for 1 hour. Cells were fixed and immunostained  with SNX2  and LAMP1  antibodies, and co-stained with DAPI  (D). Data represent the proportion of SNX2+ LAMP2  puncta (n=3 experiments, &gt;40 cells/experiment) (E). Arrows show  co-localization between SNX2  and LAMP2. Data information: Data is presented as mean ± SD. The insets at the lower right or bottom of each image are higher power regions of the boxed areas. Scale bar is 10 µm in D, p values determined by one-way ANOVA in with Tukey post hoc test in E,"
NCBI gene IDs:
"GFP: 
INPP4B: 8821"
Figure legend: "F HeLa  cells were transfected with GFP-SNX2. After 24 hours, cells were treated with 5 µM YM201636  for 2 hours, then YM201636  was washed out for 1 hour. Cells were fixed and subjected to  immuno-electron microscopy  analysis using GFP  (10 nm) antibodies. Arrows show GFP-SNX2 localization  to lysosome. Data information: Scale bar is 100 nm in F."
NCBI gene IDs:
"GFP: 
SNX2: 67804"