EMBO/SourceData huggingface dataset:
Figure legend: "A Quantification of BRD-1 protein and representative western blot from wild-type worms fed bacteria transformed with either empty-vector (con) or with vector expressing dsRNA against frh-1 or isp-1 Bar graphs are mean ± SEM Data information: Data are presented as mean ± SD N= 8-1 worms per replicate and condition, * P &lt; 0.05, *** P &lt; 0.001 and **** P &lt; 0.0001 vs untreated; ### P&lt;0.001 and #### P &lt; 0.0001 vs con. Not significant if nothing is specified"
NCBI gene IDs:
"frh-1: 174002
isp-1: 177609"
Figure legend: "B Quantification of mitotic nuclei in single gonad arm of wild-type (WT), brc-1(tm1145) and brd-1(gk297) strains fed as in (A) Data information: Data are presented as mean ± SD N= ), 8-1 worms per replicate and condition, * P &lt; 0.05, *** P &lt; 0.001 and **** P &lt; 0.0001 vs untreated; ### P&lt;0.001 and #### P &lt; 0.0001 vs con. Not significant if nothing is specified"
NCBI gene IDs:
"brc-1: 175499
brd-1: 175959"
Figure legend: "Quantification of apoptotic corpse in wild-type (WT), brc-1(tm1145) and brd-1(gk297) strains fed as in (A) and left untreated (C Bar graphs are mean ± SEM. Data information Data are presented a mean ± SEM N= 8-10 worms per replicate and condition, * P &lt; 0.05, *** P &lt; 0.001 and **** P &lt; 0.0001 vs untreated; ### P&lt;0.001 and #### P &lt; 0.0001 vs con. Not significant if nothing is specified. 2-way ANOVA Tukey&quot;s multiple comparison"
NCBI gene IDs:
"brc-1: 175499
brd-1: 175959"
Figure legend: "Quantification of apoptotic corpse in wild-type (WT), brc-1(tm1145) and brd-1(gk297) strains fed as in (A) an treated with ionizing radiation 125 Gy (IR) (D). Bar graphs are mean ± SEM. Data information: Data are presented a mean ± SEM N= 8-10 worms per replicate and condition, * P &lt; 0.05, *** P &lt; 0.001 and **** P &lt; 0.0001 vs untreated; ### P&lt;0.001 and #### P &lt; 0.0001 vs con. Not significant if nothing is specified. 2-way ANOVA Tukey&quot;s multiple comparison"
NCBI gene IDs:
"brc-1: 175499
brd-1: 175959"
Figure legend: "Kaplan-Meier survival curves of wild-type (WT) and, ced-9(n1653ts strains fed bacteria transformed with either empty-vector (con) or with vector expressing dsRNA against frh-1 or isp-1"
NCBI gene IDs:
"ced-9: 3565776
frh-1: 174002
isp-1: 177609"
Figure legend: "Kaplan-Meier survival curves of wild-type (WT) an ), brc-1(tm1145) (B strains fed bacteria transformed with either empty-vector (con) or with vector expressing dsRNA against frh-1 or isp-1"
NCBI gene IDs:
"brc-1: 175499
frh-1: 174002
isp-1: 177609"
Figure legend: "Kaplan-Meier survival curves of wild-type (WT) an brd-1(gk297) (C strains fed bacteria transformed with either empty-vector (con) or with vector expressing dsRNA against frh-1 or isp-1"
NCBI gene IDs:
"brd-1: 175959
frh-1: 174002
isp-1: 177609"
Figure legend: "Kaplan-Meier survival curves of wild-type (WT) an glp-1(e2141) (D strains fed bacteria transformed with either empty-vector (con) or with vector expressing dsRNA against frh-1 or isp-1"
NCBI gene IDs:
"frh-1: 174002
glp-1: 176286
isp-1: 177609"
Figure legend: "Kaplan-Meier survival curves of wild-type (WT) an glp4(bn2) (E), strains fed bacteria transformed with either empty-vector (con) or with vector expressing dsRNA against frh-1 or isp-1"
NCBI gene IDs:
"frh-1: 174002
glp4: 173224
isp-1: 177609"
Figure legend: "Kaplan-Meier survival curves of wild-type animals fed bacteria transformed with either empty-vector (con) or with vector expressing dsRNA against isp-1 (F and left untreated or treated with 600, 1200 or 2400 J/m2 UVB"
NCBI gene IDs:
"isp-1: 177609"
Figure legend: "A Kaplan-Meier survival curves of wild-type (WT) and, rrf-1(pk1417), ppw-1(pk2505) strains fed bacteria transformed with either empty-vector (con) or with vector expressing dsRNA against isp-1"
NCBI gene IDs:
"isp-1: 177609
ppw-1: 172013
rrf-1: 172523"
Figure legend: "B Quantification of apoptotic corpses in wild-type (WT) and, rrf-1(pk1417), ppw-1(pk2505) strains fed as (A) and left untreated or treated with 600 J/m2 UVB. Data information: Data are presented as mean ± SEM, N=3, 9-10 worms per replicate and condition ** P &lt; 0.01 vs con; ## P &lt; 0.01 vs WT; ooo P &lt; 0.00 and oooo P &lt; 0.0001 vs untreated . Not significant if nothing is specified. 2-way ANOVA Tukey's multiple comparisons test. C "
NCBI gene IDs:
"ppw-1: 172013
rrf-1: 172523"
Figure legend: "D. Top: representative Western blots assessing mTOR phosphorylation at S2448 and p70S6K phosphorylation at T389 in PFC of adult 5-HT6-/- mice are illustrated. Bottom: data represent the ratios of immunoreactive signals of the anti phospho-mTOR (S2448) or anti phospho-p70S6K (T389) antibodies to the immunoreactive signal of the anti-β-actin antibody and are expressed in % of values in vehicle-injected 5-HT6-/- mice. They are the means ± S.E.M. of results obtained in four mice per group. n.s. p &gt; 0.05, one-way ANOVA followed by Newman-Keuls test."
NCBI gene IDs:
"5-HT6: 15565"
Figure legend: "E. Top: schemas illustrating the behavioral tasks in 5-HT6-/- mice. Bottom: the plots represent the discrimination index for the novel object recognition test (discrimination index: 0.30 ± 0.05, N=10 and 0.31 ± 0.03, N=11, for THC+Vehicle and Vehicle+Vehicle conditions, respectively, p &gt; 0.05), the 3-chamber social preference test (sociability index: 0.49 ± 0.04, N=10 and 0.48 ± 0.07, N=11 for THC+Vehicle and Vehicle+Vehicle conditions, respectively, p &gt; 0.05) and the social discrimination test (discrimination index: 0.15 ± 0.06, N=8 and 0.21 ± 0.06, N=8 for THC+Vehicle and Vehicle+Vehicle conditions, respectively, p &gt; 0.05), measured in each condition. One-way ANOVA followed by Bonferroni test (error bars correspond to the mean ± SEM, the dotted line corresponds to a discrimination index equal to zero)."
NCBI gene IDs:
"5-HT6: 15565"
Figure legend: "(B) Flat-mounted retinas from OIR S1pr1f/stop/f and S1pr1 ECTG pups at P17. Blood vessels are stained with isolectin (left) and pathological neovascular tuft area are highlighted in yellow. Avascular area, total and average neovascular tuft areas are quantified (right)"
NCBI gene IDs:
"S1pr1: 13609"
Figure legend: "(C) Flat-mounted retinas from OIR S1pr1f/f and S1pr1 ECKO pups, at P17. Blood vessels are stained with isolectin and neovascular tufts are highlighted in yellow. Avascular area, total and average neovascular tuft areas are quantified."
NCBI gene IDs:
"S1pr1: 13609"
Figure legend: "(D) Cross sections from OIR S1pr1f/stop/f, S1pr1 ECTG and S1pr1 ECKO P17 pups. Blood vessels are stained with isolectin (red) and nuclei with Hoechst (blue)."
NCBI gene IDs:
"S1pr1: 13609"
Figure legend: "(A) Retinal flat mounts from OIR S1pr1f/stop/f or S1pr1 ECTG or ECKO P17 pups. High-magnification view of neovascular tufts stained for VE-cadherin (green) and Claudin-5 (red). Junctional levels of VE-cadherin and Claudin-5 were quantified as described, for a minimum of 5 animals per genotype."
NCBI gene IDs:
"S1pr1: 13609"
Figure legend: "(B) Retinal flat mounts from OIR S1pr1f/stop/f or S1pr1 ECTG or ECKO P17 pups. Sites of vascular leakage were assessed by staining for fibrinogen (red), blood vessels are delineated by isolectin (green). Extravascular fibrinogen was quantified as described for a minimum of 5 animals per genotype."
NCBI gene IDs:
"S1pr1: 13609"
Figure legend: "(D) Flat-mounted retinas from OIR S1pr1f/f and S1pr1 ECKO pups at P21 stained with isolectin. Avascular area, total and average neovascular tuft areas are quantified. A minimum of 7 pups were analyzed per group."
NCBI gene IDs:
"S1pr1: 13609"
Figure legend: "(A) Flat-mounted retinas from OIR Apom+/- and Apom-/- pups at P17, stained with isolectin. Avascular area, total and average neovascular tuft areas are quantified. (n= 10 pups /group)"
NCBI gene IDs:
"Apom: 55938"
Figure legend: "(B) Flat-mounted retinas from OIR WT and ApomTG pups at P17, stained with isolectin. Avascular area, total and average neovascular tuft areas are quantified. (n= 7 pups /group)"
NCBI gene IDs:
"Apom: 55937"
Figure legend: "(D) Flat-mounted retinas from ApoM-Fc-S1P-treated, OIR S1pr1f/stop/f or S1pr1 ECTG pups at P17, stained with isolectin. Avascular area, total and average neovascular tuft areas are quantified. (n= 6 pups /group)"
NCBI gene IDs:
"S1pr1: 13609"
Figure legend: "(b, c) Immunoblots of recruitment reactions performed as described in (a), with the indicated proteins omitted. In (c), a mid reaction wash in high salt (0.5 M NaCl) buffer (HSW) was included following DDK phosphorylation as indicated."
NCBI gene IDs:
"DDK: 851545"
Figure legend: "(d) Recruitment reaction performed as in (a), using wild type (wt) or a Cdc45-binding mutant (3E1) of Sld3."
NCBI gene IDs:
"Sld3: 852765"
Figure legend: "(f) Wild type or mutant FLAG-Sld3 was added to an S-phase protein extract and tested for interaction with Cdc45. Immunoprecipitated proteins were analysed by immunoblot."
NCBI gene IDs:
"Sld3: 852765"
Figure legend: "(e) Reaction performed as in (a), except Sld3/7 was incubated with Rad53 before addition to reactions. ATP was omitted from this pre-incubation as indicated."
NCBI gene IDs:
"Rad53: 855950"
Figure legend: "(f) Sld3 recruitment reaction performed as in (a). Sld7 was omitted from this experiment."
NCBI gene IDs:
"Sld3: 852765"
Figure legend: "(c) Sld3/7 recruitment reaction conducted as in Fig. 2a."
NCBI gene IDs:
"Sld3: 852765"
Figure legend: "(e) Representative tetrads from dissection of SLD3+/sld3-6E heterozygotes."
NCBI gene IDs:
"SLD3: 852765
sld3: 852765"
Figure legend: "(b, c, D) Immunoblot of reactions performed as described in (a). In (B), either reconstituted Sld3/7 complex (lanes 6 and 7) or Sld3 alone (lanes 8 and 9) was coupled to beads. In (C), MCM was treated with Lambda Phosphatase after dissociation from DNA (lanes 3 and 7)."
NCBI gene IDs:
"Sld3: 852765"
Figure legend: "(F) Reaction conducted as in (a), using wild type (wt) or the indicated S/T-A substitution mutant versions of Mcm4 and Mcm6. Positions of mutations in Mcm6 are summarised in Fig. EV5c."
NCBI gene IDs:
"Mcm4: 856130
Mcm6: 852673"
Figure legend: "(b) Replication reaction performed as in Fig. 1g. Experiments in (a) and (b) used MCM containing wild type (wt) or the indicated S/T-A substitution mutant versions of Mcm4 and Mcm6."
NCBI gene IDs:
"Mcm4: 856130
Mcm6: 852673"
Figure legend: "(d) Representative tetrads from diploids heterozygous for mcm4-25A and mcm6ΔN+11A."
NCBI gene IDs:
"mcm4: 856130
mcm6: 852673"
Figure legend: "(d) Replication reaction performed as in Fig. 1g. Experiments in (a)-(d) used MCM containing wild type (wt) or S/T-D substitution mutants of Mcm4 and Mcm6 as indicated. In (d), MCM loading was equalised across samples by using 5-fold more mutant than wild type MCM protein, as is shown in Fig. EV6c."
NCBI gene IDs:
"Mcm4: 856130
Mcm6: 852673"
Figure legend: "E. Osmotic stress does not reduce YAP target gene expression. HEK293A cells were treated with 0.2 M sorbitol for 4 hr. mRNA levels of CTGF and CYR61 were measured by quantitative RT-PCR and normalized to GAPDH control. Data are presented as mean ± SEM. n.s means p &gt; 0.05 (two tailed student's t-test, n = 3)."
NCBI gene IDs:
"GAPDH: 
CTGF: 1490
CYR61: 3491"
Figure legend: "G. Osmotic stress does not increase the interaction between YAP and 14-3-3. HEK293A cells were transiently transfected with Flag-YAP and Myc-14-3-3, then treated with 0.2 M sorbitol for the indicated time points. Myc-14-3-3 was immunoprecipitated and the co-precipitated Flag-YAP was detected."
NCBI gene IDs:
"14-3-3: "
Figure legend: "B. Osmotic stress induces TAZ nuclear translocation. YAP knockout (KO) HEK293A cells were serum starved for 1 hr followed by 0.2 M sorbitol treatment for 1 hr. TAZ localization was determined by immunofluorescence staining with the YAP/TAZ antibody (red). Scale bar: 20 μm."
NCBI gene IDs:
"YAP: 10413"
Figure legend: "D. Osmotic stress induces YAP target gene expression. Wild type (WT) or YAP/TAZ double knockout (Y/T KO) HEK293A cells were serum starved for 1 hr and treated with 0.2 M sorbitol for 4 hr. mRNA levels of CTGF and CYR61 were measured by quantitative RT-PCR and normalized to GAPDH control. Data are presented as mean ± SEM. *p &lt; 0.05 (two tailed student's t-test, n = 3)."
NCBI gene IDs:
"GAPDH: 
CTGF: 1490
CYR61: 3491
TAZ: 6901
YAP: 10413"
Figure legend: "E. Osmotic stress decreases YAP and 14-3-3 interaction. HEK293A cells were transiently transfected with Flag-YAP and Myc-14-3-3, and were serum starved for 16 hr. Cells were then treated with 0.2 M sorbitol for the indicated time points. Myc-14-3-3 was immunoprecipitated and the associated Flag-YAP was detected by Western. Data are presented as mean ± SEM. *p &lt; 0.05 (two tailed student's t-test, n = 3)."
NCBI gene IDs:
"14-3-3: "
Figure legend: "B. NLK knockout blocks osmotic stress-induced YAP nuclear localization. HEK293A cells were transiently transfected with CRISPR/Cas9 to knockout NLK. Wild type (WT) cells and the NLK KO cell pool were treated with 0.2 M sorbitol for 1 hr in the absence of serum. YAP/TAZ subcellular localization was determined by immunofluorescence staining. Scale bar: 20 μm."
NCBI gene IDs:
"NLK: 51701"
Figure legend: "C. NLK induces YAP nuclear translocation. HEK293A cells were co-transfected with Flag-YAP together with vector control, Myc-NLK-WT (wild type NLK), or NLK-KN (kinase negative mutant). Cells were serum starved for 6 hr, and YAP localization and NLK expression were determined by Flag (green) and Myc (red) antibodies, respectively. Scale bar: 20 μm."
NCBI gene IDs:
"NLK: 51701"
Figure legend: "D. NLK induces YAP phosphorylation. HA-YAP was co-transfected with NLK-WT or NLK-KN in HEK293A cells. The phos-tag gel showed NLK-WT but not NLK-KN caused a significant mobility shift of YAP."
NCBI gene IDs:
"NLK: 51701"
Figure legend: "E. NLK phosphorylates YAP in vitro. NLK-WT and NLK-KN were immunoprecipitated from HEK293A cells and an in vitro kinase assay was performed using recombinant GST-YAP as a substrate in the presence of ATP-γ-S. Total phosphorylation of YAP was detected by immunoblotting with thiophosphate ester antibody, which identifies the alkylated thiophosphorylation on YAP."
NCBI gene IDs:
"NLK: 51701"
Figure legend: "A. NLK induces YAP Ser 128 phosphorylation. Flag-YAP WT or S128A mutant was co-transfected with or without Myc-NLK. Phosphorylation was determined by Western blot using YAP S128 phosphospecific antibody."
NCBI gene IDs:
"NLK: 51701
YAP: 10413"
Figure legend: "B. NLK phosphorylates YAP Ser 128 in vitro. NLK-WT or NLK-KN was transfected into HEK293A cells and immunoprecipitated. An in vitro NLK kinase assay was performed using recombinant GST-YAP as a substrate. Phosphorylation of YAP Ser 128 was determined by immunoblotting with phospho-YAP (S128) antibody."
NCBI gene IDs:
"NLK: 51701
YAP: 10413"
Figure legend: "D. NLK deficiency reduces YAP S128 phosphorylation. Two CRISPR/CAS9 gRNA plasmids targeting different sites of NLK were transfected into HEK293A. WT cells and two pools of NLK CRISPR/CAS9 transfected cells were treated with 0.2 M sorbitol for the indicated time points. Data are presented as mean ± SEM. *p &lt; 0.05 (two tailed student's t-test, n = 4)."
NCBI gene IDs:
"NLK: 51701"
Figure legend: "E. The S128D phosphomimetic mutant abolishes YAP interaction with 14-3-3. Flag-YAP WT and mutant constructs were co-transfected with Myc-14-3-3 into HEK293A cells. Cells were serum starved for 16 hrs. 14-3-3 was immunoprecipitated with Myc antibody and the associated YAP was detected with Flag antibody."
NCBI gene IDs:
"14-3-3: 
YAP: 10413"
Figure legend: "F. YAP Ser 128 phosphorylation is required for disruption of YAP-14-3-3 interaction by osmotic stress. Flag-YAP WT or Flag-YAP S128A constructs were co-transfected with Myc-14-3-3 into HEK293A cells. Cells were serum starved for 16 hrs, and treated with 0.2 M sorbitol for the indicated time points or refreshed with serum containing medium for 1 hr. Refreshing medium served as a control to disrupt YAP and 14-3-3 binding.14-3-3 was immunoprecipitated with Myc antibody, and the associated YAP was detected with Flag antibody. Data are presented as mean ± SEM. *p &lt; 0.05 (two tailed student's t-test, n = 3)."
NCBI gene IDs:
"14-3-3: 
YAP: 10413"
Figure legend: "A. NLK does not induce nuclear translocation of the S128A mutant YAP. HEK293A cells were co-transfected with Myc-NLK and Flag-YAP WT or S128A mutant. Cells were serum starved for 6 hr, and YAP localization and NLK expression were determined by Flag (green) and Myc (red) antibodies, respectively. Scale bar: 20 μm."
NCBI gene IDs:
"NLK: 51701
YAP: 10413"
Figure legend: "B. YAP Ser 128 phosphorylation is required for osmotic stress-induced YAP nuclear localization. HEK293A YAP KO cells reconstituted with Flag-YAP WT, YAP S128D, or YAP S128A mutant were treated with 0.2 M sorbitol for 1 hr. YAP subcellular localization was determined by Flag immunofluorescence staining (green). Scale bar: 20 μm."
NCBI gene IDs:
"YAP: 10413"
Figure legend: "A. YAP S128D reconstituted cells show growth advantage under hyperosmotic conditions. YAP/TAZ dKO HEK293A cells with stable expression of YAP WT, S128A, and S128D were cultured in the absence (left panel) or presence of 0.2M sorbitol (right panel) for the indicated amount of time. Cell numbers were counted and normalized to day 0. Data are presented as mean ± SEM, n = 3."
NCBI gene IDs:
"TAZ: 6901
YAP: 10413"
Figure legend: "B. YAP S128D reconstituted cells have lower cell death in a hyperosmotic environment. Cell cycle analyses of YAP/TAZ dKO HEK293A cells with stable expression of YAP WT, S128A, and S128D after 0.2 M sorbitol treatment were determined using flow cytometry. Propidium iodine (PI) was used for DNA staining (Fig EV5). Quantification of sub-G1 cells is shown. Data are presented as mean ± SEM. *p &lt; 0.05 (two tailed student's t-test, n = 3)."
NCBI gene IDs:
"TAZ: 6901
YAP: 10413"
Figure legend: "C. YAP S128D reconstituted cells show reduced apoptosis under hyperosmotic conditions. Annexin V analyses of YAP/TAZ dKO HEK293A cells with stable expression of YAP WT, S128A, and S128D after 0.2 M sorbitol treatment were determined using flow cytometry. PE-Annexin V and 7-AAD stained for phospholipid phosphatidylserine (PS) and DNA, respectively. Data are presented as mean ± SEM. *p &lt; 0.05 (two tailed student's t-test, n = 3)."
NCBI gene IDs:
"TAZ: 6901
YAP: 10413"
Figure legend: "B Wildtype (Ocrl+/y) and Ocrl-/- MEF cells were grown in  complete media or 5 h  serum starvation, then immunostained with indicated antibodies. Dashed lines in images outline cell boundaries. Scale bar, 10 μm."
NCBI gene IDs:
"Ocrl: 320634"
Figure legend: "I Snap  images of WT (Ocrl+/y), OCRL knockout (Ocrl-/-) and  IOB MEFs transfected  with lysosome-GFP. After transfection, WT, OCRL knockout and IOB MEFs were left in serum starvation  for 8 h. Scale bar, 5 μm. J Quantitative analyses of tubulated lysosomes in the experiments shown in H. n = 3 per group in which 10 cells were counted per condition per experiment. D Data information: data are presented as mean ± SEM. * ≤ 0.05, ** ≤ 0.01, ***≤ 0.001, ****P ≤ 0.0001, n.s., not significant, calculated by two-tailed Student's t-test."
NCBI gene IDs:
"Ocrl: 320634
OCRL: 320634"
Figure legend: "A Immunoblot analysis of endogenous p-mTOR (Ser2448), total mTOR, p-p70 S6K (Thr389) and total p70 S6K in NHF, Lowe 1676 and Lowe 3265 cells grown in complete media or 5 h serum starvation. p-p70 S6K (Thr389) over total p70 S6K ratios normalized to NHF cells, three independent experiments. B Immunoblot analysis of endogenous p-mTOR (Ser2448), total mTOR , p-p70 S6K (Thr389) and total p70 S6K in WT (Ocrl+/y) and IOB MEFs grown in complete medium or 5 h serum starvation. p-p70 S6K (Thr389) over total p70 S6K ratios normalized to NHF  cells, three independent experiments. C Data information: data are presented as mean ± SEM. * ≤ 0.05, ** ≤ 0.01, ***≤ 0.001, ****P ≤ 0.0001, n.s., not significant, calculated by two-tailed Student's t-test unless otherwise stated."
NCBI gene IDs:
"Ocrl: 320634"
Figure legend: "C WT (Ocrl+/y), OCRL knockout (Ocrl-/-) and IOB MEFs derived from the corresponding mice were  costained with anti-α-tubulin and anti- γ-tubulin antibodies.  Nuclei were stained with DAPI (blue). Scale bar, 10 μm. D Quantitative analyses of focused microtubule arrays  numbers at  γ-tubulin (microtubule organizing center MTOC) measured in the experiments shown in C. n = 3 per group in which 30 cells were counted per condition per experiment. E Data information: data are presented as mean ± SEM. * ≤ 0.05, ** ≤ 0.01, calculated by two-way ANOVA, multiple comparisons."
NCBI gene IDs:
"Ocrl: 320634
OCRL: 320634"
Figure legend: "H Representative  images of the co-localization of OCRL-WT, GFP-OCRL-△RhoGAP and GFP-OCRL-△ASH+RhoGAP with γ-tubulin. Insets, enlargements of the outlined areas. Scale bars, 10 μm. I Quantitative analysis of cells with and without centrosomal OCRL (centrosomal GFP signal) in the experiments shown in A. n = 3 per group in which 10 cells were counted per condition per experiment. Means ±SEM, ****P &lt; 0.0001, n.s., not significant, calculated by two-way ANOVA, multiple comparisons. "
NCBI gene IDs:
"OCRL: 4952"
Figure legend: "A RPE-1 cells transfected with nontargeting control siRNA or OCRL siRNA, were left for 48 h, then subjected to IF microscopy to visualize PI(4,5)P2 (green), γ-tubulin (red) and nuclei  (blue, DAPI staining). Scale bar, 10 μm. B Quantitative analyses of centrosomal PI(4,5)P2 fluorescence intensity in the experiments shown in A. n = 3 per group in which 50 cells were counted per condition per experiment. C Data information: data are presented as mean ± SEM. n.s., not significant, calculated by calculated by two-tailed Student's t-test."
NCBI gene IDs:
"OCRL: 4952"
Figure legend: "A SSX2IP interacts with  OCRL. Plasmids carrying GFP-OCRL-WT, GFP-OCRL-△RhoGAP and GFP-OCRL-△ASH+RhoGAP  were transfected into RPE-1  cells. Immunoprecipitation was performed with GFP-Trap, followed by blotting with the indicated antibodies."
NCBI gene IDs:
"GFP: 
RhoGAP: 392
ASH: 2885
OCRL: 4952"
Figure legend: "D NHF, Lowe 1676 and  Lowe 3265 cells were transfected with wildtype GFP-SSX2IP  or GFP-PACT-SSX2IP for 48 h, then immunostained with anti-β-tubulin (red) antibody. Nuclei (blue) were  stained with DAPI. The centrosomal microtubule nucleation in  GFP-PACT-SSX2IP transfected cells was indicated by white arrowhead. Scale bar, 5 μm."
NCBI gene IDs:
"GFP: 
PACT: 
SSX2IP: 117178"
Figure legend: "F Western blot analysis of GFP, endogenous phospho-mTOR, total  mTOR, in NHF and Lowe 1676 cells. NHF and Lowe 1676  cells were left untransfected, transfected with GFP-SSX2IP-WT or GFP-PACT-SSX2IP, then immunoblotted with indicated antibodies."
NCBI gene IDs:
"GFP: 
PACT: 
SSX2IP: 117178"
Figure legend: "(b) Immunofluorescence for LC3 and Atg16 in normal rat kidney (NRK) cells expressing GFP-Cx43 maintained in the presence or absence of serum for 4 h. Single channels are shown in reverse black and white, and magnification of single and merged images are shown in colour. Arrows: co-localization of Atg16/Cx43 (yellow) or Atg16/Cx43/LC3 (white). Quantification is shown in Supplementary Fig. 1c."
NCBI gene IDs:
"Cx43: 24392"
Figure legend: "(e) Immunofluorescence for LC3 and Atg16 in NRK cells expressing GFP-Cx43 but knocked down for Eps15. Single channels are shown in reverse black and white, and merged images in colour. Inset shows higher magnification. Bottom: Quantification of co-localization between Atg16 and Cx43 (n = 3 wells, 4 independent experiments, &gt;20 cells per experiment). Values are mean + s.e.m. * P 0.05."
NCBI gene IDs:
"Eps15: 313474
Cx43: 24392"
Figure legend: "(h) Immunoblot for the indicated proteins of immunoprecipitates (IP) of endogenous Cx43 from untreated WT MEFs, on incubation with 3-methyladenine (3MA) or in MEFs from Atg5-null mice (Atg5−/−)."
NCBI gene IDs:
"Atg5: 11793"
Figure legend: "(i) Immunoblot for Flag and Cx43 of immunoprecipitates (IP) of endogenous Cx43 in WT MEFs transfected with the indicated Flag-tagged constructs of truncated Atg16."
NCBI gene IDs:
"Atg16: 73683///77040"