EMBO/SourceData huggingface dataset:
Figure legend: "B Results of immunoblotting  with immunoprecipitates  (IP) or whole-cell lysates from cells transfected with Bcl-2  and TMEM175  or its mutants TMEM175-V145A, TMEM175-R377V, as indicated. C Statistics of the relative TMEM175  protein levels normalized to GAPDH  in vector, TMEM175, TMEM175-V145A or TMEM175-R377V overexpressing HEK293T  cells. Data information: The data are presented as the mean ± SEM. Statistical significance was calculated with two-sided student's t-tests (C and is indicated with NS for not significant (P &gt; 0.05), ** for p &lt; 0.01, and *** for p &lt; 0.001. n value means the number of biological replicates made for each data point."
NCBI gene IDs:
"Bcl-2: 596
TMEM175: 84286"
Figure legend: "K (Upper) schematic diagram showing the strategy of TMEM175-KO in HEK293T  cells. 92 bp in exon 4 and intron 4 were removed from the tmem175  locus. (Lower) TMEM175  levels in the WT or TMEM175  KO cells were detected by Western-blotting."
NCBI gene IDs:
"tmem175: 84286
TMEM175: 84286"
Figure legend: "L CM-H2DCFDA (green) indicating cellular ROS  levels of WT or TMEM175  KO HEK293T  cells pre-treatment with vehicle or 10 μM HA14-1 for 20 min. Scale bars = 10 μm. M Statistics of CM-H2DCFDA  fluorescence intensity of (L). The n values represent the cell numbers counted within the same experiment. Data information: The data are presented as the mean ± SEM. Statistical significance was calculated with two-sided student's t-tests M) and is indicated with NS for not significant (P &gt; 0.05), * for p &lt; 0.05, ** for p &lt; 0.01, and *** for p &lt; 0.001. In panel M, n value means the number of technical replicates."
NCBI gene IDs:
"TMEM175: 84286"
Figure legend: "F Fluorescence of G3BP1  excited with 488 nm in control (upper) and TMEM175-overexpressing (lower) cells. Scale bars = 10 μm. G Statistics of the numbers of puncta per cell (left) and the percentage of cells with puncta in (F). We counted 547 cells in Vector group from 37 different fields of view and 332 cells in TMEM175  group from 76 different fields of view. n value represents the number of different fields of view randomly selected in the same imaging experiment. Data information: The data are presented as the mean ± SEM. Statistical significance was calculated with two-sided student's t-test, and is indicated with ** for p &lt; 0.01, and *** for p &lt; 0.001. In panels G n value means the number of technical replicates."
NCBI gene IDs:
"TMEM175: 84286"
Figure legend: "H Co-localization  of mitochondrial  indicator TOM20-mCherry  and lysosomal  indicator  LysoTracker in WT (upper row) or TMEM175  KO (lower row) HEK293T  cells. Co-localization  of mitochondrion  and lysosome  is observed as a yellow colour in the merged image (marked by white arrows). Scale bars = 10 μm. I The number of merged puncta per cell in (H). We counted 139 cells in WT group from 38 different fields of view and 148 cells in TMEM175  KO group from 42 different fields of view. n value represents the number of different fields of view randomly selected in the same imaging experiment. Data information: The data are presented as the mean ± SEM. Statistical significance was calculated with two-sided student's t-test, and is indicated with ** for p &lt; 0.01, and *** for p &lt; 0.001. In panels I, n value means the number of technical replicates."
NCBI gene IDs:
"TMEM175: 84286"
Figure legend: "D TMEM175  mRNA levels in the midbrains  of WT or TMEM175  KO mice  were detected by RT-qPCR using SYBR  Green PCR Master Mix. Data information: The data are presented as the mean ± SEM. Statistical significance was analyzed with two-sided student's t-tests, and is indicated with NS for not significant (p &gt; 0.05), * for p &lt; 0.05, ** for p &lt; 0.01, and *** for p &lt; 0.001. n value means the number of biological replicates made for each data point."
NCBI gene IDs:
"TMEM175: 72392"
Figure legend: "E The knockout of TMEM175  in mouse  was verified by Western blot of brain  tissues."
NCBI gene IDs:
"TMEM175: 72392"
Figure legend: "F Representative TMEM175  basal lysosomal  currents recorded in macrophages  of WT or TMEM175-KO mice. Ψ is lysosomal membrane potential  (deﬁned as Vcytosol - Vlumen). The currents were elicited with ramp voltage protocols (-100 to +100 mV in 1 s, Vh = 0 mV). G Statistics of the current amplitudes of (F). Data information: The data are presented as the mean ± SEM. Statistical significance was analyzed with two-sided student's t-tests, and is indicated with NS for not significant (p &gt; 0.05), * for p &lt; 0.05, ** for p &lt; 0.01, and *** for p &lt; 0.001. n value means the number of biological replicates made for each data point."
NCBI gene IDs:
"TMEM175: 72392"
Figure legend: "L Immunoblots of the TH  levels post-MPTP  treatment in WT and TMEM175  KO mouse midbrains. M Quantification of the relative TH  levels normalized to GAPDH  post-MPTP. Data information: The data are presented as the mean ± SEM. Statistical significance was analyzed with two-sided student's t-tests, and is indicated with NS for not significant (p &gt; 0.05), * for p &lt; 0.05, ** for p &lt; 0.01, and *** for p &lt; 0.001. n value means the number of biological replicates made for each data point."
NCBI gene IDs:
"TMEM175: 72392"
Figure legend: "N TH immunofluorescent labeling on substantia nigra slices of WT or TMEM175-KO mice  post-MPTP  treatment. Scale bars = 100 μm. O Statistics of the TH-positive neurons  in (N). Data information: The data are presented as the mean ± SEM. Statistical significance was analyzed with two-sided student's t-tests, and is indicated with NS for not significant (p &gt; 0.05), * for p &lt; 0.05, ** for p &lt; 0.01, and *** for p &lt; 0.001. n value means the number of biological replicates made for each data point."
NCBI gene IDs:
"TMEM175: 72392"
Figure legend: "D. ARPE-19 cells were transfected with 50 pmol of non-targeting siRNA (siNT) or 50 pmol of siRNA targeting ATG13 or ULK1. 48 hours post knockdown, cells were treated with 1 mM DFP for an additional 48 hours. Cell lysates were subject to immunoblotting with the indicated antibodies. Quantification is shown on the right."
NCBI gene IDs:
"ATG13: 9776
ULK1: 8408"
Figure legend: "A. Representative immunoblots of the indicated proteins in lysates of WT or HIF1α KO U2OS cells, treated with 1mM DFP for 48 hours."
NCBI gene IDs:
"HIF1α: 3091"
Figure legend: "B. Representative confocal images of WT or HIF1α KO U2OS cells stably expressing the pexo-QC reporter and treated with 1 mM DFP for 48 hours (left panel) and flow cytometry analysis of the mCherry/GFP ratio (right panel)."
NCBI gene IDs:
"HIF1α: 3091"
Figure legend: "C. Representative immunoblots (left panel) and quantification (right panel) of the indicated proteins in lysates of WT or two NIX KO ARPE-19 clones (Cl), treated with 1 mM DFP for the indicated time (h, hours)."
NCBI gene IDs:
"NIX: 665"
Figure legend: "D-E. Representative confocal images of WT or NIX KO ARPE-19 cells stably expressing the mito-QC reporter (D) or the pexo-QC reporter (E) treated with 1 mM DFP for 48 hours (left panel) and flow cytometry analysis of the mCherry/GFP ratio (right panel)."
NCBI gene IDs:
"NIX: 665"
Figure legend: "F. Representative immunoblots (left panel) and quantification (right panel) of the indicated proteins. NIX KO ARPE-19 cells (Cl 31) stably expressing a pBabe empty vector (∅) or a pBabe NIX vector, were treated with 1 mM DFP for 48 hours prior lysis. Two biological replicates are shown in the immunoblot."
NCBI gene IDs:
"NIX: 665"
Figure legend: "A-B. Representative confocal images of untreated (CTRL) and DFP-treated ARPE-19 cells (1mM, 48 hours), stably expressing GFP-WT NIX (green) and stained with anti-catalase antibody (A, red) or anti-PMP70 antibody (B, red). At right, quantification of Pearson correlation coefficients between NIX and the peroxisomal markers catalase and PMP70, with or without DFP treatment for 48 hours. Peroxisomes enriched for GFP-NIX or having minimal signal for GFP-NIX are depicted with white arrowheads or white arrows, respectively."
NCBI gene IDs:
"GFP: 
NIX: 665"
Figure legend: "C. Representative confocal images of ARPE-19 cells stably expressing GFP-WT NIX, GFP-NIXΔTM or GFP-NIX TM only (green), treated with DFP (1mM) for 48 hours and immunostained with anti-catalase antibody (red). At right, quantification of Pearson correlation coefficients between the green and the red signal."
NCBI gene IDs:
"GFP: 
NIX: 665"
Figure legend: "B. Representative immunoblots of the indicated proteins in lysates of WT or HA-Parkin(PRKN)- ARPE-19 cells treated as in A."
NCBI gene IDs:
"HA: 
Parkin: 5071"
Figure legend: "B. Representative immunoblots of the indicated proteins in lysates of NIX KO ARPE-19 cells (Cl 31) stably expressing a pBabe Flag vector (∅), a pBabe Flag-NIX vector (NIX), a pBabe Flag-NIX W36A\L39A vector (W36A\L39A) or a pBabe Flag-NIX S34E\S35E vector (S34E\S35E), and treated with 1 mM DFP for 48 hours prior lysis."
NCBI gene IDs:
"Flag: 
NIX: 665"
Figure legend: "A. Representative confocal images of optical section from WT and NIX KO mouse retina immunostained with peroxisomal markers (PMP70 and catalase) or a lysosomal marker LAMP1. Nuclei are coloured in white (DAPI). RPE, retinal pigment epithelium; ONL, outer nuclear layer; OPL, outer plexiform layer; INL; inner nuclear layer; IPL, inner plexiform layer; RGC, retinal ganglion cells. B. Quantification of signal area in the ONL and INL from images as A. Each data point represents a single mouse (n=3-4 per group)."
NCBI gene IDs:
"NIX: 12177"
Figure legend: "(C) Asynchronous exponentially growing cells were treated with 0.2M HU (+HU), then HU was removed from the medium (-HU). SDS-PAGE of total protein extracts taken at the indicated times were used to detect the kinetic of Rad53 phosphorylation upshift (Rad53-P=**). Red and green asterisk indicate the time where mec1-S1991 phosphomutants show altered Rad53 recovery. A 5-fold dilution series of cells from exponential SC cultures of the indicated strains were spotted on SC +/- the indicated dose of HU."
NCBI gene IDs:
"mec1: 852433"
Figure legend: "Analysis of replication fork progression at the single-molecule level by DNA combing. (C) Representative images of DNA fibers. Green: ssDNA, red: BrdU. Scale bar corresponds to 20 kb. (D) Graph depict the distribution of BrdU track length. WT 90 min (n=427) and 180 min (n=483), mec1-S1991A 90 min (n=309) and 180 min (n=477)."
NCBI gene IDs:
"mec1: 852433"
Figure legend: "(A) tRNA level measured by RT-qPCR in asynchronous (async.) culture and after 90 min on HU in the indicated strains. Expression is normalized to ACT1. The repression is expressed as a ratio of HU treated/asynchronous cells in percent."
NCBI gene IDs:
"ACT1: "
Figure legend: "(A) Preparations of chromatin-bound proteins were prepared in triplicate and subjected to SDS-PAGE and immunoblotting with the indicated antibodies in a strain that either does or does not express Rpb3-TAP Quantification of chromatin-bound Rpb1-S2P and Rpb1-S5P is shown on the right. Mcm2 is used as a loading control."
NCBI gene IDs:
"TAP: 
Rpb3: 854791"
Figure legend: "(F,G) A 10-fold dilution series of cells from exponential SC cultures of the indicated strains were spotted on SC +/- 200mM of HU. A high level of HU was used to be able to demonstrate robust suppression of the mec1-S1991A phenotype. (G) Histogram presents quantification of 2 independent HU sensitivity assays with mean and individual data point values indicated for each yeast dilution."
NCBI gene IDs:
"mec1: 852433"
Figure legend: "(B) Amongst the Mec1-S1991-dependent phosphopeptides on HU, factors involved in transcription are highlighted."
NCBI gene IDs:
"Mec1: 852433"
Figure legend: "(E) Position relative to the nuclear envelope (Zone 1 of the lacO-tagged GAL1-GAL10 locus in the indicated strains grown either 12h on glucose, or 90 min galactose or galactose + 0.2M HU. The third panel shows the relative retention at the nuclear periphery (Zone 1) on galactose + HU. The number of cells is &gt;300 for each condition."
NCBI gene IDs:
"lacO: 
GAL1: 852308
GAL10: 852307"
Figure legend: "A S. cerevisiae wt or hsp42Δ cells expressing mCherry‐VHL (red) and GFP‐luciferase‐DM‐NLS (green) were grown at 30°C and shifted to 37°C for 90 min. MG132 was added prior to temperature upshift. Changes in protein localizations were recorded. DNA was stained by DAPI (blue)."
NCBI gene IDs:
"luciferase: 
hsp42: 851751"
Figure legend: "B S. cerevisiae wt cells or hsp42Δ cells expressing GFP‐VHL (green) were treated as in (A). Nuclear membranes were visualized by Nsp1immunofluorescence microscopy labeling (red)."
NCBI gene IDs:
"hsp42: 851751"
Figure legend: "C S. cerevisiae wt cells or hsp42Δ cells expressing mCherry‐VHL (red) and GFP‐Nup49 (green) were treated as in (A). Three‐dimensional reconstructions of respective cells are given."
NCBI gene IDs:
"hsp42: 851751"
Figure legend: "A-D Cryo‐sections of (A) S. cerevisiae wt cells expressing GFP‐luciferase‐DM‐NLS, (B) hsp42Δ cells expressing GFP‐VHL. Sections were immunogold‐labeled with GFP‐specific antibodies. Gold particles are marked (black arrows). Electron‐dense regions represent protein aggregates (A). Locations of cytosol (C), nuclear envelope (NE, orange arrows), and nucleus (N) are given. Scale bars, 200 nm.E, F Average numbers of gold particles associated with nuclear and cytosolic protein aggregates or distributed throughout the cytosol or nucleus were determined."
NCBI gene IDs:
"luciferase: 
hsp42: 851751"
Figure legend: "A-D Cryo‐sections of S. cerevisiae (C, D) wt or hsp42Δ cells expressing Hsp104‐GFP. Sections were immunogold‐labeled with GFP‐specific antibodies. Gold particles are marked (black arrows). Electron‐dense regions represent protein aggregates (A). Locations of cytosol (C), nuclear envelope (NE, orange arrows), and nucleus (N) are given. Scale bars, 200 nm.E, F Average numbers of gold particles associated with nuclear and cytosolicprotein aggregates or distributed throughout the cytosol or nucleus were determined."
NCBI gene IDs:
"hsp42: 851751"
Figure legend: "B tGnd1‐GFP is stabilized in ubr1Δ san1Δ cells. S. cerevisiae wt and ubr1Δ san1Δ mutant cells expressing tGnd1‐GFP were grown at 30°C. Cycloheximide was added, and protein levels were determined at the indicated time points by Western blot using GFP‐specific antibodies. Zwf1 levels are given as a loading control."
NCBI gene IDs:
"san1: 851721
ubr1: 853096"
Figure legend: "C Ubiquitination status of tGnd1‐GFP expressed in S. cerevisiae wt and ubr1Δ san1Δ cells was determined by GFPpull‐down and Western blot analysis using ubiquitin‐specific antibodies. Levels of isolated tGnd1‐GFP after GFPpull‐down were determined by Western blot using GFP‐specific antibodies and are given as a control."
NCBI gene IDs:
"san1: 851721
ubr1: 853096"
Figure legend: "D S. cerevisisae wt, ubr1Δ san1Δ, and ubr1Δ san1Δ btn2Δ cells expressing tGnd1‐GFP (green) were grown at 30°C. DNA and nuclear envelopes were visualized by coexpressing Htb1‐mCherry or Nic96‐mCherry, respectively (red). The fraction of cells showing specific tGnd1‐GFP foci numbers per cell was determined. INQ formation in cells containing tGnd1‐GFP foci was determined (% cells with INQ) based on close vicinity of tGnd1‐GFP foci to Htb1‐mCherry or localization inside Nic96‐mCherry signals, yielding comparable results. Scale bars, 2 μm."
NCBI gene IDs:
"btn2: 853043
san1: 851721
ubr1: 853096"
Figure legend: "A, B S. cerevisiae hsp42Δ and hsp42Δ nup42Δ cells expressing mCherry‐VHL (red) were grown at 30°C and shifted to 37°C in the presence of MG132. Changes in protein localization were monitored. Scale bars, 2 μm. The total number of mCherry‐VHL foci per cell was determined."
NCBI gene IDs:
"hsp42: 851751
nup42: 851774"
Figure legend: "S. cerevisiae hsp42Δ and hsp42Δ tet‐off sis1 cells expressing GFP‐VHL were grown for 20 h in the absence (−Dox) or presence (+Dox) of doxycycline at 30°C and shifted for 90 min to 37°C in the presence of MG132. Changes in protein localization were monitored. DNA was stained by DAPI (blue). The total number of GFP‐VHL foci per cell and frequencies (%) of INQ formation were determined. Scale bars, 2 μm."
NCBI gene IDs:
"hsp42: 851751"
Figure legend: "B S. cerevisiae wt, hsp42Δ, sti1Δ, and hsp42Δ sti1Δ cells expressing GFP‐VHL were grown at 30°C and shifted to 37°C in the presence of MG132. Changes in protein localization were monitored. The total number of GFP‐VHL foci per cell and frequencies (%) of INQ formation were determined. Scale bars, 2 μm."
NCBI gene IDs:
"hsp42: 851751
sti1: 854192"
Figure legend: "A, B S. cerevisiae wt, hsp42Δ, btn2Δ, and hsp42Δ btn2Δ cells expressing GFP‐VHL (green, A) or GFP‐luciferase‐DM‐NLS (green, B) were grown at 30°C and shifted to 37°C for 90 min in the presence of MG132, and protein localizations were recorded. DNA was stained by DAPI (blue), and the nuclear envelope was stained by Nsp1immunofluorescence microscopy (red). Solubilities of GFP‐VHL and GFP‐luciferase‐DM‐NLS were determined after stress application by Western blot using GFP‐specific antibodies. Solubility of actin was determined as a control. T, total fraction; S, soluble fraction; P, pellet fraction. Scale bars, 2 μm."
NCBI gene IDs:
"luciferase: 
btn2: 853043
hsp42: 851751"
Figure legend: "C S. cerevisiae wt, hsp42Δ, btn2Δ, and hsp42Δ btn2Δ cells expressing mCherry‐VHL were heat‐shocked to 38°C. Upon return to 30°C, protein synthesis was stopped by cycloheximide (CHX) addition and degradation of mCherry‐VHL was monitored by Western blot analysis. The stability of GFP‐luciferase‐DM‐NLS expressed in S. cerevisiae wt and btn2Δ cells was determined accordingly. Ccs1 or Zwf1 levels are given as loading controls."
NCBI gene IDs:
"luciferase: 
btn2: 853043
hsp42: 851751"
Figure legend: "D S. cerevisiae hsp42Δ btn2Δ cells expressing either GFP or LuciDM‐GFP and Htb1‐mCherry were grown at 30°C and heat‐shocked to 37°C for 30 min. Line intensity plots of luciferase‐DM‐GFP and Htb1‐mCherry before and after heat shock are given. The ratio of nuclear and cytosolic luciferase‐DM‐GFP fluorescence intensity was determined at 30°C and 37°C (n &gt; 25). Scale bars, 2 μm."
NCBI gene IDs:
"luciferase: 
btn2: 853043
hsp42: 851751"
Figure legend: "C S. cerevisiae btn2Δ hsp42Δ Hsp42‐NLS cells expressing GFP‐VHL (green) were grown at 30°C and heat‐shocked to 37°C for 30 min in the presence of MG132. Changes in protein localizations were recorded. DNA was stained by DAPI (blue). The total number of GFP‐VHL foci per cell and frequencies (%) of INQ formation were determined. Scale bars, 2 μm."
NCBI gene IDs:
"btn2: 853043
hsp42: 851751
Hsp42: 851751"
Figure legend: "D S. cerevisiaebtn2Δ hsp42Δ Hsp42‐NLS cells expressing mCherry‐VHL (red) were treated as described in (C). The nuclear membrane was visualized by Nsp1 immunofluorescence (green) and colocalization of mCherry‐VHL foci with Hsp42 was probed by Hsp42 (green) immunofluorescence microscopy. DNA was stained with DAPI (blue). Scale bars, 2 μm."
NCBI gene IDs:
"btn2: 853043
hsp42: 851751
Hsp42: 851751"
Figure legend: "B, C S. cerevisiae wt and btn2Δ cells expressing Hos2‐GFP (green, B) or GFP‐VHL (green, C) were grown at 30°C and treated with MMS. Changes in protein localizations were recorded at the indicated time points. DNA was stained by DAPI (blue). The total number of GFP‐VHL foci per cell and frequencies (%) of INQ formation were determined."
NCBI gene IDs:
"btn2: 853043"
Figure legend: "C. Cells were treated with BMP2 for 1 h. D. Cells were stimulated with increasing (doubling) doses of BMP4/7 (0.625-20 ng/mL) for 1 h.  Data information: In all cases, whole cell extracts were Western blotted  using the indicated antibodies. Representative experiments are shown. The levels   of pSMAD1/5 relative to  Actin were determined and are expressed as a fold change relative to the parental HEK293T  untreated sample or normalized to the 20 ng/mL ligand  dose  in parental  HEK293T cells Act, Activin A; Par, parental  HEK293T  cells,  KO1, ACVR1 KO clone 1."
NCBI gene IDs:
"ACVR1: 90"
Figure legend: "D. Parental HEK293T, S2/3 dKO1 and HOM1 cells were treated with Activin A  for the indicated times. Data information: ns, not significant; *, p&lt;0.05; **, p&lt;0.01; ***, p&lt;0.001; ****, p&lt;0.0001. The p-values are from two-way ANOVA with Dunnett's post-hoc test. In D quantifications are from a representative experiment and are the intensities of  pSMAD1/5 normalized to Actin, expressed as fold change relative to untreated cells for each clone. In all panels, Western blots of whole cell lysates were probed with the antibodies indicated."
NCBI gene IDs:
"S2: 4087"
Figure legend: "A. Parental HEK293T, ACVR2A KO, ACVR2B KO, ACVR2A/B dKO, HOM1, HOM1 ACVR2A  KO, HOM1 ACVR2B KO, HOM1 ACVR2A/B dKO cells were treated with Activin A  or BMP2 for 1 h. Data information: In all panels, Western blots of whole cell lysates were probed with the antibodies indicated. Representative experiments are shown. Par, parental HEK293T  cells."
NCBI gene IDs:
"ACVR2A: 92
ACVR2B: 93"
Figure legend: "C. NIH-3T3 cells were either  untransfected or  transfected  with either FLAG-SMAD1 or  GFP-SMAD3 together with Opto-ACVR1B*. Post  transfection, cells were either kept in the  dark or exposed to blue light for 1 h, in the presence or absence of 50 µM SB-505124 or 1 µM LDN-193189. Data information: In all panels, Western blots of whole cell lysates were probed with antibodies against pSMAD1/5 (that detected both endogenous and pFLAG-SMAD1), SMAD1 (which detects both endogenous and FLAG-SMAD1), HA (which detects the Opto-receptors), pSMAD3 (which detects pGFP-SMAD3), SMAD3 (which detects GFP-SMAD3) and either Tubulin  or Actin as the loading controls. Lane numbers are given below each blot for clarity. "
NCBI gene IDs:
"ACVR1B: 11479"
Figure legend: "I. Average brightness of His-Activin A-Atto647N in  ICR-B169 and  HSJD-DIPG-007 cells alone or with pre-incubation with 1.5 µg/mL of rhACVR2A Fc and 15 µg/mL of rhACVR2B Fc. Source data is in Fig. EV4B-F. Means ± SEM are plotted. Each point represents one analyzed image, collected from 2-4 biological replicates. Data information: In H and I the p values are from one-way ANOVA with Tukey's post hoc correction. *, p&lt;0.05; **, p&lt;0.01; ***, p&lt;0.001; ****, p&lt;0.0001."
NCBI gene IDs:
"ACVR2A: 92
ACVR2B: 93"
Figure legend: "CL levels after PTPIP51 depletion and reconstitution were monitored. A doxycycline-induced shRNA expression system was used to deplete the PTPIP51 protein in HeLa cells. Left, western blot analysis of HeLa cells in which PTPIP51 was depleted and restored. β-ACTIN was used as the loading control. Right, the mitochondrial CL level (nmol/mg) according to PTPIP51 expression. To reconstitute PTPIP51, the full-length PTPIP51 gene was transiently expressed. The data are presented as the mean ± SD of technical triplicate experiments from one representative experiment (n = 3), and p-values calculated using Student's t-test are shown."
NCBI gene IDs:
"PTPIP51: 55177"
Figure legend: "Quantification of CL in mitochondria using lipidomic analysis after PTPIP51 depletion and reconstitution. Color codes for each sample were presented in the lower right subpanel. Experiments were technically repeated three times, and the results are represented as the means ± SD of technical replicates (n = 3). *p &lt; 0.05; **p &lt; 0.01 (Student's t-test). Quality control (QC) samples, which were pooled identical aliquots of the mitochondria samples, were measured four times throughout the run for data reproducibility. Upper right, western blot analysis of HeLa cells in which PTPIP51 WT or ∆FFAT mutant were depleted and restored. β-Actin was used as a loading control."
NCBI gene IDs:
"PTPIP51: 55177"
Figure legend: "B Analysis of the methylation status at nephrin gene promoter in podocytes cultured in normal, high glucose or high mannitol at the indicated time points. U, unmethylated-specific primers; M, methylated-specific primers."
NCBI gene IDs:
"nephrin: 54631"
Figure legend: "D Effect of pargyline hydrochloride on high glucose-mediated DNA methylation at nephrin gene promoter. Genomic DNA samples from the treated podocytes were analyzed for methylation status of nephrin gene promoter by methylation-specific PCR."
NCBI gene IDs:
"nephrin: 54631"