EMBO/SourceData huggingface dataset:
Figure legend: "C Protein level of FOXO3 in METTL3-knockdown HCCs under hypoxia for 48h."
NCBI gene IDs:
"METTL3: 56339"
Figure legend: "D Half-life of FOXO3 mRNA in Bel-7402 cells and correspondent METTL3-knockdown Bel-7402 cells treated with actinomycin D."
NCBI gene IDs:
"FOXO3: 2309
METTL3: 56339"
Figure legend: "E Half-life of FOXO3 protein in Bel-7402 cells and correspondent METTL3-knockdown Bel-7402 cells treated with cycloheximide. Quantification of the protein optical density by Image J in E-1."
NCBI gene IDs:
"METTL3: 56339"
Figure legend: "F Analysis of FOXO3 mRNA in non-ribosome portion (&lt;40S), 40S, 60S, 80S and polysome for the METTL3-knockdown Bel-7402 cells compare to control cells under hypoxia for 48h. Data information: In all relevant panels, *p&lt;0.05; **p&lt;0.01; ***p&lt;0.001; ****p&lt;0.0001; Two-tailed t-test. Data are presented as mean ± SD and are representative of 3 independent experiments."
NCBI gene IDs:
"FOXO3: 2309
METTL3: 56339"
Figure legend: "G Knockdown of YTHDF1 and YTHDF2 in Bel-7402 cells by lentiviral shRNAs."
NCBI gene IDs:
"YTHDF1: 54915
YTHDF2: 51441"
Figure legend: "H Knockdown of YTHDF1 but not YTHDF2 abolished the increase of FOXO3 protein level in METTL3-overexpressing Bel-7402 cells. Quantification of the protein optical density by Image J in H-1 and H-2. Data information: In all relevant panels, *p&lt;0.05; **p&lt;0.01; ***p&lt;0.001; ****p&lt;0.0001; Two-tailed t-test. Data are presented as mean ± SD and are representative of 3 independent experiments."
NCBI gene IDs:
"METTL3: 56339
YTHDF1: 54915
YTHDF2: 51441"
Figure legend: "I RNA level of FOXO3 in YTHDF1-knockdown Bel-7402 cells by RT-PCR. Data information: In all relevant panels, *p&lt;0.05; **p&lt;0.01; ***p&lt;0.001; ****p&lt;0.0001; Two-tailed t-test. Data are presented as mean ± SD and are representative of 3 independent experiments."
NCBI gene IDs:
"FOXO3: 2309
YTHDF1: 54915"
Figure legend: "J The m6A-IP sequencing under hypoxia proved the m6A modification participated in regulation of FOXO3. The YTHDF1 binding site locates at the 3'UTR of FOXO3."
NCBI gene IDs:
"FOXO3: 2309
YTHDF1: 54915"
Figure legend: "L Relative luciferase activity of the wild-type and mutant form of FOXO3 3'UTR reporter vectors in Bel-7402 cells with various levels of METTL3 and YTHDF1. Data information: In all relevant panels, *p&lt;0.05; **p&lt;0.01; ***p&lt;0.001; ****p&lt;0.0001; Two-tailed t-test. Data are presented as mean ± SD and are representative of 3 independent experiments."
NCBI gene IDs:
"FOXO3: 2309
METTL3: 56339
YTHDF1: 54915"
Figure legend: "M Knockdown of METTL3 reduced the m6A methylation in FOXO3 mRNA by the m6A MeRIP analysis. Data information: In all relevant panels, *p&lt;0.05; **p&lt;0.01; ***p&lt;0.001; ****p&lt;0.0001; Two-tailed t-test. Data are presented as mean ± SD and are representative of 3 independent experiments."
NCBI gene IDs:
"FOXO3: 2309
METTL3: 56339"
Figure legend: "N Knockdown of METTL3 reduced the m6A methylation in FOXO3 mRNA by the YTHDF1-RIP analysis. Data information: In all relevant panels, *p&lt;0.05; **p&lt;0.01; ***p&lt;0.001; ****p&lt;0.0001; Two-tailed t-test. Data are presented as mean ± SD and are representative of 3 independent experiments."
NCBI gene IDs:
"FOXO3: 2309
METTL3: 56339
YTHDF1: 54915"
Figure legend: "O Correlation analysis of the RNA expression levels of METTL3 and FOXO3 in liver tumor cohort (Kim-90) by Pearson."
NCBI gene IDs:
"FOXO3: 2309
METTL3: 56339"
Figure legend: "P Correlation analysis of the RNA expression levels of YTHDF1 and FOXO3 in liver tumor cohort (Kim-90) by Pearson."
NCBI gene IDs:
"FOXO3: 2309
YTHDF1: 54915"
Figure legend: "A Validation of biomarker genes related to autophagy in FOXO3-knockdown Bel-7402 cells by RT-PCR. Data information: In all relevant panels, *p&lt;0.05; **p&lt;0.01; ***p&lt;0.001; ****p&lt;0.0001; Two-tailed t-test. Data are presented as mean ± SD and are representative of 3 independent experiments."
NCBI gene IDs:
"FOXO3: 2309"
Figure legend: "C Protein levels of LC3 I/II in FOXO3-knockdown SMMC-7721 cells."
NCBI gene IDs:
"FOXO3: 2309"
Figure legend: "D Overexpression of FOXO3 in sorafenib-resistant HepG-2 cells by Western blot."
NCBI gene IDs:
"FOXO3: 2309"
Figure legend: "E Protein levels of LC3 I/II in METTL3-knockdown &amp; FOXO3-overexpression SMMC-7721 cells under hypoxia for 48 h."
NCBI gene IDs:
"FOXO3: 2309
METTL3: 56339"
Figure legend: "F Electron micrographs of METTL3-knockdown SMMC7721 cells and METTL3-knockdown &amp; FOXO3-overexpression SMMC7721 cells under hypoxia for 48 h. G Representative Immunostaining images of LC3 in METTL3-knockdown SMMC7721 cells and METTL3-knockdown &amp; FOXO3-overexpression SMMC7721 cells under hypoxia for 48 h. Scale bar, 200μm. The quantification of the numbers of GFP-LC3 puncta/cell by Imaris in G-1. H Representative Immunostaining images of LC3 in naïve HepG-2 cells and sorafenib-resistant HepG-2 cells under hypoxia for 48 h. Scale bar, 200μm. The quantification of the numbers of GFP-LC3 puncta/cell by Imaris in H-1. I The IC50 of METTL3-knockdown SMMC7721 cells with overexpressing FOXO3 after treated with sorafenib for 24h under hypoxia condition. Data information: In all relevant panels, *p&lt;0.05; **p&lt;0.01; ***p&lt;0.001; ****p&lt;0.0001; Two-tailed t-test. Data are presented as mean ± SD and are representative of 3 independent experiments."
NCBI gene IDs:
"FOXO3: 2309
METTL3: 56339"
Figure legend: "J The IC50 of naïve HepG-2 cells and sorafenib-resistant HepG-2 cells with overexpressing FOXO3 after treated with sorafenib for 24h under hypoxia condition. Data information: In all relevant panels, *p&lt;0.05; **p&lt;0.01; ***p&lt;0.001; ****p&lt;0.0001; Two-tailed t-test. Data are presented as mean ± SD and are representative of 3 independent experiments."
NCBI gene IDs:
"FOXO3: 2309"
Figure legend: "K Cell survival assay of METTL3-knockdown SMMC7721 cells with overexpressing FOXO3 after treated with sorafenib for 24h under hypoxia condition."
NCBI gene IDs:
"FOXO3: 2309
METTL3: 56339"
Figure legend: "L Cell survival assay of naïve HepG-2 cells and sorafenib-resistant HepG-2 cells with overexpressing FOXO3 after treated with sorafenib for 24h under hypoxia condition."
NCBI gene IDs:
"FOXO3: 2309"
Figure legend: "A Depletion of METTL3 in Hepa1-6 cells by CRISPR-Cas9 knockout enhanced sorafenib-resistance in vivo."
NCBI gene IDs:
"Cas9: 
CRISPR: 
METTL3: 56335"
Figure legend: "D Knockdown of METTL3 slightly increased liver tumor growth treated with sorafenib in orthotopic xenograft mouse model. Stable METTL3-knockdown Bel-7402 cells and control cells were injected into the liver of each NOD/SCID mouse. 3 weeks after injection, livers were separated for pathological analysis. Red circle indicates tumors in the livers."
NCBI gene IDs:
"METTL3: 56339"
Figure legend: "F Overexpression of FOXO3 rescued sorafenib-resistance mediated by METTL3-knockdown in xenograft liver tumors. Representative xenograft tumors at endpoint, containing 6 groups."
NCBI gene IDs:
"FOXO3: 56484
METTL3: 56335"
Figure legend: "I Knockdown of METTL3 by siRNA in PDX#1 and PDX#2 tissues were confirmed by Western blot."
NCBI gene IDs:
"METTL3: 56339"
Figure legend: "(A-B) Immunofluorescence (IF) analysis of IκBα in sections from murine small intestine of 2 month-old WT (A) and Lgr5-GFP reporter mice (B). Scale bars, 50μm."
NCBI gene IDs:
"GFP: 
Lgr5: 14160"
Figure legend: "IF analysis of P-IκBα in the intestine of 2 month-old Lgr5-GFP reporter mice (D), and quantification of P-IκBα positivity inside the Lgr5-GFP population. A minimum of 30 crypts was counted in 3 Lgr5-GFP mice. Scale bars in D, 50 μm."
NCBI gene IDs:
"GFP: 
Lgr5: 14160"
Figure legend: "(A) Representative images of P4 and P6 mice of the indicated IκBα genotypes."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "D-G (D) Immunohistochemical (IHC), IF ­and Alcian Blue staining with quantification of P6 IκBα WT and KO intestines (D), 2 month-old IκBβ;IκBε KO (E) and 2 month-old IκBαNES mice (F and G). A minimum of 50 crypts/villus was counted per genotype (3 mice). Data information: bars represent mean values ± standard error of the mean (s.e.m); p values were derived from an unpaired t-test, two-tailed, ****p-value&lt;0.0001, ***p-value&lt;0.0005, * p-value&lt;0.05, n.s. no significant. Scale bars in D, E, F and G, 50 μm."
NCBI gene IDs:
"IκBα: 18035
IκBβ: 18036
IκBε: 18037"
Figure legend: "(B) IF analysis of EphB2 in P6 WT and IκBα KO intestine. Data information: Scale bars , 25 μm."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(F) Table indicating the top 15 up-regulated genes in the IκBα KO EphB2-high signature including 11 genes in the fetal ISC signature (in orange)."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(I) qPCR analysis of the indicated genes in purified Lgr5+ cells from the different IκBα backgrounds. 4 WT and 1 KO mice were analyzed with at least three technical replicates. Bars represent mean values ± standard error of the mean (s.e.m). p values were derived from an unpaired t-test, two-tailed, ****p-value&lt;0.0001, **p-value&lt;0.005, *p-value&lt;0.05, n.s. no significant."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(A) IF analysis of c-Rel and RelA/p65 in P6 WT and IκBα KO intestines. Scale bars in 25 μm."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(B) Number of peaks from p65 ChIP-sequencing analysis associated with the different genomic localizations was obtained merging two biological replicates per condition (n=2 P6 WT and n=2 P6 IκBα KO intestinal crypt cells). Data from individual experiments have been deposited at GSE131187."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "IF analysis of active Notch1 (ICN1) (C) in the indicated IκBα backgrounds at P6 intestines. Scale bars in 25 μm."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "IF analysis of β-catenin (D) in the indicated IκBα backgrounds at P6 intestines. Scale bars 25 μm."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(F) Table indicating the methylation-related genes (PRC2 members and KDM6 demethylase) differentially express between IκBα WT and KO EphB2-high sorted cells (RNA-seq)."
NCBI gene IDs:
"PRC2: 103551
KDM6: 216850///22289
IκBα: 18035"
Figure legend: "(J) Representation of IκBα (n=4) and H3K27me3 (n=2) distribution (from ChIP-sequencing) and expression levels (from RNA-sequencing) in the genomic region of Litaf."
NCBI gene IDs:
"Litaf: 56722"
Figure legend: "(A) Representative stereoscopic image of P6 WT and IκBα KO-derived intestinal organoids. Scale bars in A, 100 μm"
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(B) IHC analysis with the indicated antibodies and Alcian Blue staining of WT and IκBα KO-derived organoids. Scale bars in B 50 μm."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(C) qPCR analysis of the indicated ISC genes in WT and IκBα KO-derived organoids. Data information: 3 technical replicates of a minimum of two organoids per genotype were analyzed Bars represent mean values ± standard error of the mean (s.e.m). p values were derived from an unpaired t-test, two-tailed, ****p-value&lt;0.0001, **p-value&lt;0.005, * p-value&lt;0.05."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(E) qPCR analysis of the indicated fetal genes in WT and IκBα KO-derived organoids. Data information: 3 technical replicates of a minimum of two organoids per genotype were analyzed Bars represent mean values ± standard error of the mean (s.e.m). p values were derived from an unpaired t-test, two-tailed, ****p-value&lt;0.0001, **p-value&lt;0.005, * p-value&lt;0.05."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(F) Western blot analysis of control and IκBα-deleted organoids using CRISPR-Cas9 technology."
NCBI gene IDs:
"CRISPR: 
Cas9: 901176
IκBα: 18035"
Figure legend: "(G) Representative stereoscopic image of WT and IκBα-deleted organoids. Scale bars in G, 50 μm."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "A) Representative stereoscopic images and Western blot analysis of IκBα KO organoids infected with the indicated sh-RNA for NF-κB elements. Data information Scale bars in A, 100 μm,"
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(B) qPCR analysis of the indicated ISC and differentiation genes in the different sh-RNA treated organoids. The canonical NF-κB target gene Cxcl10 is shown as positive control of the experiment. Data information 3 technical replicates of a minimum of two organoids per condition were analyzed. Bars represent mean values ± standard error of the mean (s.e.m); p values were derived from an unpaired t-test, two-tailed, ****p-value&lt;0.0001, ***p-value&lt;0.0005, **p-value&lt;0.005, * p-value&lt;0.05, n.s. no significant."
NCBI gene IDs:
"Cxcl10: 15945"
Figure legend: "(C) Representative stereoscopic images of IκBα KO organoids untreated or treated with the PRC2 inhibitor EPZ-6438. Data information Scale bars in 50 μm."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(D-E) qPCR analysis of the indicated adult and fetal ISC genes (D) and elements of the Notch and IFN pathway (E) (differentially expressed in IκBα KO organoids) in IκBα KO organoids untreated or treated with the PRC2 inhibitor EPZ-6438. Data information: 3 technical replicates of a minimum of two organoids per condition were analyzed. Bars represent mean values ± standard error of the mean (s.e.m); p values were derived from an unpaired t-test, two-tailed, ****p-value&lt;0.0001, ***p-value&lt;0.0005, **p-value&lt;0.005, * p-value&lt;0.05, n.s. no significant."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(F) Representative stereoscopic images of IκBα KO organoids treated with dexamethasone as IFN inhibitor and DAPT as Notch inhibitor. Data information Scale bars in F, 50 μm."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(G) qPCR analysis of IκBα KO organoids untreated or treated with dexamethasone and DAPT. Data information: 3 technical replicates of a minimum of two organoids per condition were analyzed. Bars represent mean values ± standard error of the mean (s.e.m); p values were derived from an unpaired t-test, two-tailed, ****p-value&lt;0.0001, ***p-value&lt;0.0005, **p-value&lt;0.005, * p-value&lt;0.05, n.s. no significant."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(D) qPCR analysis of the indicated genes in WT and IκBα KO organoids treated with TNFα and collected at the indicated time-points. 3 technical replicates of organoids from each genotype were analyzed."
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "(E-F) Representative images of the colonic tissue from 2 months-old DSS-treated WT and IκBα KO mice are shown. Alcian Blue staining was used to identify the mucus-secreting goblet cells in the colonic glands and Ki67 as proliferation marker. Nuclear counterstain is Fast Red. The table shows number of ulcerations present in the intestines of mice analysed (3 WT, 2 IκBα KO). Data information: Scale bars in E and F, 100 μm"
NCBI gene IDs:
"IκBα: 18035"
Figure legend: "C Genomic PCR analysis indicating the existence of MpFGMYB in both male [Y] and female [X] genomes of M. polymorpha. Two biological replicates were analyzed. Constitutively expressed MpEF1α was used as a control."
NCBI gene IDs:
"MpEF1α: 
MpFGMYB: "
Figure legend: "D Real-time RT-PCR analyses indicating preferential accumulation of MpFGMYB transcripts in female sexual organs and the sporophytes. MpEF1α was used for normalization. Measurements of six biological replicates for thalli and sporophyte, and three biological replicates for gametangiophore are plotted. Bars represent mean ± SD. Symbols above the bars indicate grouping by p &lt;0.05 in a Tukey-Kramer test."
NCBI gene IDs:
"MpEF1α: 
MpFGMYB: "
Figure legend: "F MpFGMYB-Citrine fusion proteins expressed using the 5′- and 3′-flanking sequences rescued the Mpfgmybge-1 mutant and accumulated in the nuclei of the egg and the ventral canal cell (VCC) Scale bar, 10 µm. Magenta, chlorophyll autofluorescence; green, Citrine fluorescence."
NCBI gene IDs:
"Mpfgmyb: "
Figure legend: "B Diagnosis of genetic sex using Y- and X-chromosome-linked rbm27 and rhf73 markers, respectively. Two biological replicates were analyzed for each genotype."
NCBI gene IDs:
"rbm27: 
rhf73: "
Figure legend: "A-C DAPI-staining visualization of sperm formation in wild-type male (A), Mpfgmyb [X] (B), and Mpfgmyb [Y] (C) plants. Note that background DAPI staining visualizes flagella (arrows) in addition to nuclei (arrowheads). (B′) is an enlarged image of the boxed region in (B), visualizing an incompletely condensed nucleus. Scale bars, 5 µm."
NCBI gene IDs:
"Mpfgmyb: "
Figure legend: "D RT-PCR analysis indicating acquisition of male-like autosomal gene expression patterns in Mpfgmyb [X] antheridiophores. Two independent Mpfgmyb [X] mutant alleles were analyzed."
NCBI gene IDs:
"Mpfgmyb: "
Figure legend: "E, F TEM analyses visualizing the abnormal arrangement of axonemal microtubules in Mpfgmyb [X] sperm (F), as compared with those of wild-type males (E). Scale bars, 100 nm."
NCBI gene IDs:
"Mpfgmyb: "
Figure legend: "A RNA-seq analysis showing male-specific accumulation of lncRNAs derived from the MpFGMYB 3′ region. Diagrams illustrate wild-type and mutant MpFGMYB/SUF loci. Folded lines with a ∆ symbol indicate a deletion."
NCBI gene IDs:
"MpFGMYB: 
SUF: "
Figure legend: "B RT-PCR analysis of wild-type and genetically male suf mutants revealed loss of SUF expression and gain of MpFGMYB expression after induction of reproductive growth by far-red irradiation. Two independent suf mutant alleles were analyzed. The SUF primer pair used here flanked an intron and the duplicated bands of SUF likely represent spliced and unspliced forms."
NCBI gene IDs:
"suf: 
SUF: 
MpFGMYB: "
Figure legend: "A gametangiophore of MpEF1pro:SUF/suf-30ge [Y], indicating the inability of transgenic SUF overexpression in rescuing the feminization phenotype of sufge [Y]. Scale bar, 2mm."
NCBI gene IDs:
"MpEF1: 
SUF: 
suf: 
suf-30: "
Figure legend: "B Real-time RT-PCR analyses confirming SUF transcript accumulation in SUF-overexpressing lines. Constitutively expressed MpEF1α was used as control. Measurements of six biological replicates for WT [Y], and three biological replicates for each SUF-overexpressing line are plotted. Data information: bars represent mean ± SD. Asterisks indicate significant differences from WT [Y] (B) (p &lt;0.05, two-tailed Student's t-test)."
NCBI gene IDs:
"SUF: 
MpEF1α: "
Figure legend: "D Real-time RT-PCR measurement of MpFGMYB transcript levels. Three biological replicates are analyzed for each line. Data information bars represent mean ± SD. Asterisks indicate significant differences from WT [X] (D) (p &lt;0.05, two-tailed Student's t-test)."
NCBI gene IDs:
"MpFGMYB: "
Figure legend: "E-H Gametangiophores (E, G) and gametangia (F, H) of gMpFGMYB-S [Y] (E, F) and gMpFGMYB-L [Y] (G, H). Scale bars, 1 mm (E, G), 50 μm (F), 100 μm (H)."
NCBI gene IDs:
"gMpFGMYB-L: 
gMpFGMYB-S: "
Figure legend: "(a) Hippocampal tissues obtained from Nrf2 (−/−) (6 months old, one male and two female) or wild-type (WT) (11 months old, two male and one female) mice were immunoblotted with a Nrf2 antibody, 12E8, PHF1, a monoclonal to total tau (Tau5) or a polyclonal to total tau (Tau) antibody. The asterisk to the left of the Nrf2 blot designates the position at which a nonspecific band migrated. The relative molecular masses (kDa) are indicated to the left of each blot. (b) Bar graphs represent the relative optical density of phosphorylated or total tau in the hippocampal tissues. n=6 (These data are based on the mouse hippocampi immunoblotted in Supplementary Fig. 1). Data shown are mean±s.e. and were analysed using Student's t-test. (**P0.01; ***P0.001)"
NCBI gene IDs:
"Nrf2: 18024"
Figure legend: "Brain cortical tissue obtained from Nrf2 (−/−) (6 months old, one male and two female) or wild-type (11 months old, two male and one female) mice were separated into sarkosyl-soluble (SS) and insoluble (SI) fractions as described in the Methods. The level of total tau was analysed by immunoblotting using a monoclonal antibody to total tau (Tau5). The relative molecular masses (kDa) are indicated to the left of each blot. Bar graph represents the relative optical density of sarkosyl-insoluble tau normalized with that of sarkosyl-soluble tau. n=3. Data shown are mean±s.e. and were analysed using Student's t-test. (*P0.05)."
NCBI gene IDs:
"Nrf2: 18024"
Figure legend: "Mouse brains were obtained from wild-type (11 months old, one male; 5 months old, one female; 12 months old, two female) and Nrf2 (−/−) (10 months old, two male and two female) mice. (a)Mouse brain tissues were homogenized in the lysis buffer, and 10 μg of lysates was incubated with 2 μg of GST-tau protein at 37°C for 30 min in the presence or absence of 1 mM ATP. The levels of tau phosphorylated at Ser262/Ser356 and Ser396/Ser404 were analysed by immunoblotting using a 12E8 and PHF1 antibodies, respectively. GST-tau was detected with a monoclonal GST antibody (GST-tau; Supplementary Fig. 4). Bar graph of the relative optical density of phosphorylated tau normalized to actin. Data shown are mean±s.e. of duplicated independent experiments and were analysed using Student's t-test."
NCBI gene IDs:
"Nrf2: 18024"
Figure legend: "Mouse brains were obtained from wild-type (11 months old, one male; 5 months old, one female; 12 months old, two female) and Nrf2 (−/−) (10 months old, two male and two female) mice. (b) Mouse brain tissues were homogenized in the phosphatase storage buffer, and phosphatase activity in the lysates was quantified using the serine/threonine phosphatase assay system (Promega) by measuring the dephosphorylation of a phosphopeptide, RRA(pT)VA in the presence or absence of okadaic acid (OA, 20 nM). PP2A activity was defined as the activity inhibited by the addition of OA to the phosphatase reaction mixture. n=4. Data shown are mean±s.e. of three independent experiments and were analysed using Student's t-test."
NCBI gene IDs:
"Nrf2: 18024"
Figure legend: "(c) HEK293-TN cells were co-transfected with the plasmid expressing tau together either with siRNA of beclin-1 or scramble RNA as a control, which was kept for 48 h."
NCBI gene IDs:
"beclin-1: 8678"
Figure legend: "(b) In hippocampal tissues from Nrf2 (−/−) (5 months old, one male; 11 months old, one female; 5 months old, one female; 12 months old, three female) or wild-type (10 months old, four male and two female) mice, the relative mRNA level of each gene compared with that of wild-type mice. n=6."
NCBI gene IDs:
"Nrf2: 18024"
Figure legend: "(c) The levels of p62/SQSTM1, Keap1, mouse NDP52 (mNDP52) and Hsp70 in Nrf2 (−/−) or wild-type mice were examined by immunoblotting. The asterisk on the Nrf2 panel indicates a nonspecific band."
NCBI gene IDs:
"Nrf2: 18024
Nrf2: Q60795///18024"
Figure legend: "(d,e: upper panel) Primary cortical neurons (DIV 5) (d) and SH-SY5Y cells (e) were treated with SFN for 24 h, and the expression levels of rat and human NDP52 (rNDP52 and hNDP52) examined by immunoblotting using anti-NDP52 antibody. The relative molecular masses (kDa) are indicated to the left of each blot. (d,e: low panel) Primary cortical neurons (DIV 5) (d) and SH-SY5Y cells (e) transiently transfected with the pGL4.14/human NDP52 promoter (2,173 bp) luciferase reporter plasmid were treated with SFN for 24 h, and assayed for the luciferase activity."
NCBI gene IDs:
"luciferase: "
Figure legend: "(b) CN1.4 cortical cells and SH-SY5Y cells were transiently transfected with the reporter plasmids with the human NDP52 promoter (2,317 bp or deleted mutants), and luciferase activity was assayed 24 h after transfection."
NCBI gene IDs:
"luciferase: 
NDP52: 10241"