EMBO/SourceData huggingface dataset:
Figure legend: "COS7  cells co-transfected with TagRFP-FRB-A1AY1   (red) and dNSpastin3Q-TagCFP-FKBP  (cyan) were treated with 0.1% DMSO  or rapamycin  (100 nM) for 1 hr and followed by immunostaining  with anti-tyrosinated tubulin  antibody (green). Dotted lines highlight the transfected cells. Scale bar, 20 μm. The normalized intensity of tyrosinated microtubules  in TagRFP-FRB-A1AY1  and dNSpastin3Q-TagCFP-FKBP  co-transfected cells upon 0.1% DMSO  or rapamycin  treatment for 1 hr. n=31 and 26 cells in DMSO  and rapamycin  treated groups, respectively, from three independent experiments. Data (blue) represent as mean ± S.E.M. Student's t-tests were performed with p values indicated."
NCBI gene IDs:
"A1AY1: 
CFP: 
RFP: 
FKBP: 2280
FRB: 2475
Spastin: 50850"
Figure legend: "COS7  cells co-transfected with EMTB-YFP-CIBN  and mCh-Cry2  (red) were incubated with SPY650-tubulin    (SPY650-tub) to visualize microtubules. The cells were illuminated by  blue light within a specified region (indicated by the dotted circle) for the indicated time period. Scale bar, 10 μm. The normalized intensity of mCh-Cry2  at microtubules  in illuminated regions (red) and non-illuminated regions (green). n = 6 cells from three independent experiments. Data are shown as the mean ± S.E.M."
NCBI gene IDs:
"mCh: 
YFP: 
CIBN: 829604
Cry2: 839529
EMTB: 9053"
Figure legend: "COS7  cells co-transfected with EMTB-YFP-CIBN  and dNSpastin3Q-mCh-Cry2  were incubated with SPY650-tubulin   to visualize microtubules. The cells were illuminated by  blue light as in (A). Scale bar, 10 μm. The normalized intensity of dNSpastin3Q-mCh-Cry2  and mCh-Cry2  at microtubules  and the normalized area of SPY650-tubulin   in illuminated regions and non-illuminated regions. n = 6 and 6 cells in dNSpastin3Q-mCh-Cry2  and mCh-Cry2  groups, respectively, from three independent experiments. Data are shown as the mean ± S.E.M."
NCBI gene IDs:
"mCh: 
YFP: 
CIBN: 829604
Cry2: 839529
EMTB: 9053
Spastin: 50850"
Figure legend: "E-F. COS7  cells co-transfected with EMTB-CFP-FRB, dNSpastin3Q-mCh-FKBP, and Tom20-Neon   were treated with rapamycin  (100 nM) for acute microtubule disruption. The morphology  of mitochondria  at different levels of microtubule  disruption is shown. Scale bar, 10 µm. The ratio of the long axis to the short axis of each mitochondrion  and microtubule filament area was determined. n= 4 different cells, three independent experiments. Data are shown as the mean ± S.E.M. Data information: Student's t-tests were performed with p values indicated."
NCBI gene IDs:
"CFP: 
mCh: 
Neon: 
FKBP: 2280
EMTB: 9053
FRB: 2475
Spastin: 50850
Tom20: 781575"
Figure legend: "G-H. The normalized intensity of MitoTracker Red  in non-transfected cells (Mock) or cells co-transfected with EMTB-CFRP-FRB  and dNSpastin3Q-YFP-FKBP  or dNSpastin3QED-YFP-FKBP  after rapamycin  (Rapa, 100 nM) treatment for the indicated time. Scale bar, 10 µm. n = 41, 6, and 18 cells from three independent experiments. Data are shown as the mean ± S.E.M. Data information: Student's t-tests were performed with p values indicated."
NCBI gene IDs:
"CFRP: 
YFP: 
FKBP: 2280
EMTB: 9053
FRB: 2475
Spastin: 50850"
Figure legend: "Cell number  in the bone marrow of wild-type and Hdac6  knockout mice  (n = 12-13 mice  per group). Data information: All values are presented as mean ± SEM. *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001, ****P &lt; 0.0001, ns, not significant (Student's t test)."
NCBI gene IDs:
"Hdac6: 15185"
Figure legend: "Flow cytometry  profiles for the LK  and LSK  subsets in wild-type and Hdac6  knockout mice."
NCBI gene IDs:
"Hdac6: 15185"
Figure legend: "Frequency of the LK subset in wild-type and Hdac6  knockout mice  (n = 12-13 mice  per group). Data information: All values are presented as mean ± SEM. *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001, ****P &lt; 0.0001, ns, not significant (Student's t test)."
NCBI gene IDs:
"Hdac6: 15185"
Figure legend: "L. number of the LSK subset in wild-type and Hdac6  knockout mice  (n = 12-13 mice  per group). Data information: All values are presented as mean ± SEM. *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001, ****P &lt; 0.0001, ns, not significant (Student's t test)."
NCBI gene IDs:
"Hdac6: 15185"
Figure legend: "Representative images of colonies formed by bone marrow cells  from wild-type and Hdac6  knockout mice. Scale bar, 200 µm. Number of colonies formed by bone marrow cells from wild-type and Hdac6  knockout mice  (n = 10 mice  per group). Data information: All values are presented as mean ± SEM. *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001, ****P &lt; 0.0001, ns, not significant (Student's t test)."
NCBI gene IDs:
"Hdac6: 15185"
Figure legend: "J. Immunoprecipitation  and immunoblotting  with various truncated mutants of HA-HDAC6  to identify the domains that mediate its interaction  with GFP-IDH1. K. Immunoprecipitation  and immunoblotting  with various truncated mutants of GFP-IDH1  to identify the domains that mediate its interaction  with HA-HDAC6."
NCBI gene IDs:
"GFP: 
HA: 
HDAC6: 10013
IDH1: 3417"
Figure legend: "Immunoprecipitation  and immunoblotting  showing the level of IDH1 acetylation  in HEK293T  cells transfected with wild-type GFP-IDH1  or various mutants, These cells were treated with the HDAC6  inhibitor, tubacin"
NCBI gene IDs:
"GFP: 
IDH1: 3417"
Figure legend: "Immunoprecipitation  and immunoblotting  showing the level of IDH1 acetylation  in HEK293T  cells transfected with wild-type GFP-IDH1  or various mutants, These cells were transfected with the HDAC6  siRNA"
NCBI gene IDs:
"GFP: 
HDAC6: 10013
IDH1: 3417"
Figure legend: "Immunoblotting  (E) in HEK293T  cells transfected with plasmids expressing GFP, GFP-IDH1, GFP-IDH1  K233R, or GFP-IDH1  K233Q. In panel E, the black arrowhead indicates exogenous IDH1, while the white arrowhead marks endogenous IDH1."
NCBI gene IDs:
"GFP: 
IDH1: 3417"
Figure legend: "G-H. Immunoblotting  (G) and IDH1  activity analysis (H, n = 6-9 tests from three independent experiments) in HEK293T cells transfected with control or HDAC6  siRNAs and plasmids expressing GFP, GFP-IDH1, GFP-IDH1  K233R, or GFP-IDH1 K233Q. In panel G, the black arrowhead indicates exogenous IDH1, while the white arrowhead marks endogenous IDH1. Data information: All values are presented as mean ± SEM. **P &lt; 0.01, ***P &lt; 0.001, ****P &lt; 0.0001 ANOVA test"
NCBI gene IDs:
"GFP: 
HDAC6: 10013
IDH1: 3417"
Figure legend: "K. Representative images of the colony formation assay. Scale bar, 200 µm. L. Number of colonies formed by wild-type and Hdac6  knockout mice bone marrow cells treated or untreated with 10 µM GSK321  (n = 6 mice  per group). Data information: All values are presented as mean ± SEM. **P &lt; 0.01, ***P &lt; 0.001, ****P &lt; 0.0001 ANOVA test"
NCBI gene IDs:
"Hdac6: 15185"
Figure legend: "qPCR  showing that knockdown of HDAC6   significantly upregulates the expression of TET2   target genes with hyper-hydroxymethylation. Data information: All values are presented as mean ± SEM. *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001, ****P &lt; 0.0001, ns, not significant (ANOVA test)."
NCBI gene IDs:
"HDAC6: 10013"
Figure legend: "qPCR  showing that knockdown of HDAC6  significantly upregulates the expression of TET2  target genes with hyper-hydroxymethylation. qPCR  showing that treatment with 10 µM GSK321  inhibits the upregulation of the indicated genes in HDAC6-knockdown HEK293T  cells. Data information: All values are presented as mean ± SEM. *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001, ****P &lt; 0.0001, ns, not significant (ANOVA test)."
NCBI gene IDs:
"HDAC6: 10013"
Figure legend: "qPCR  showing that treatment with 10 µM GSK321  inhibits the upregulation of the indicated genes in HDAC6-knockdown HEK293T  cells. Data information: All values are presented as mean ± SEM. *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001, ****P &lt; 0.0001, ns, not significant (ANOVA test)."
NCBI gene IDs:
"HDAC6: 10013"
Figure legend: "b. After 5 passages (p2, p3, p4 and p5) on VeroE6 cells, the mCherry reporter gene in ISA mCherry D614 supernatant medium was RT-PCR amplified and analysed using gel electrophoresis."
NCBI gene IDs:
"mCherry: "
Figure legend: "a: Dose response curve for the ISA D614 and for the mCherry D614 strains obtained by fluorescence or viral RNA measurement in VeroE6 cells from one representative experiment. Data are represented as mean ± SD (indicated by the error bars). Each experiment was performed in technical triplicates (N=3). b: Table of EC50 values obtained for the two different strains from two technical replicates. and their respective mean ± SD. c"
NCBI gene IDs:
"mCherry: "
Figure legend: "(A, B and C)  Polyphenols TA , PGG and EGCG activate  rhpR-lux  in wild type but not rhpS  deletion Psph  strains. Data information: , * indicate significant differences between mock group and strains under the different test conditions. (Student's t test. n.s., not significant, *, P ≤ 0.05, **, P ≤ 0.01, and ***, P ≤ 0.001). Error bars represent standard deviations (n=3 biological replicates)."
NCBI gene IDs:
"lux: 
rhpR: 
rhpS: "
Figure legend: "(E) Alanine-scanning mutagenesis of the RhpS sensor. RhpS containing a corresponding mutation was provided in the  rhpS deletion strain on a pHM1 vector. LUX activity was estimated in the absence (black frame) and presence  TA  (50-μM), PGG (100-μM) or EGCG (2-mM). Error bars represent standard deviations (n=3 biological replicates). Data information: , * indicate significant differences between mock group and strains under the different test conditions as indicated. (Student's t test. *, P ≤ 0.05, **, P ≤ 0.01, and ***, P ≤ 0.001)."
NCBI gene IDs:
"rhpS: 
RhpS: "
Figure legend: "(C and D) The rhpS/PSPPH_3550/PSPPH_3736/PSPPH_5115 quadruple deletion strain restored the T3SS induction of  rhpS  deletion strain. The wild type, rhpS  deletion and quadruple deletion strains were cultured in MM (C) for 6 hours or  KB (D) to OD600=0.6. Transcripts of the indicated genes were determined by RT-qPCR. Data information: , * indicate significant differences between rhpS mutant and quadruple mutant. Error bars represent standard deviations (n=3 biological replicates). Student's t test. *, P ≤ 0.05, **, P ≤ 0.01, and ***, P ≤ 0.001."
NCBI gene IDs:
"PSPPH_3550: 
PSPPH_3736: 
PSPPH_5115: 
rhpS: 
T3SS: 64442672"
Figure legend: "(F) The quadruple mutant strain restored the pathogenicity of rhpS  deletion strain. Bacterial virulence levels were estimated by inoculating wild type, rhpS deletion and quadruple deletion strains onto host  bean plants. Disease symptoms were recorded 5 days after inoculation. The experiment was repeated three times."
NCBI gene IDs:
"rhpS: "
Figure legend: "(G) Leaf  disks (1 cm2) from (G) were removed 5 days after inoculation and diluted in sterile water to count bacterial CFUs. The experiment was repeated three times. Data information: , * indicate significant differences between  rhpS  mutant and quadruple mutant. Error bars represent standard deviations (n=3 biological replicates). Student's t test. *, P ≤ 0.05, **, P ≤ 0.01, and ***, P ≤ 0.001."
NCBI gene IDs:
"rhpS: "
Figure legend: "D, E Following heat shock and recovery for 4 h, mRNA levels in reporter cells treated with and without 10 mM metformin overnight were quantitated by qRT-PCR (mean ± SD, n = 3, Student's t-test, **P &lt; 0.01, ***P &lt; 0.001). β-actin was used as the internal control."
NCBI gene IDs:
"β-actin: "
Figure legend: "G Left panel, graphic depiction of the ELISA-based DNA binding assay. HSE: heat shock element. Right panel: Immediately following heat shock at 43°C for 30 min, nuclear proteins of the reporter cells treated with and without 10 mM metformin were extracted for assay (mean ± SD, n = 3, Student's t-test, **P &lt; 0.01, ***P &lt; 0.001). Experimental details are described in Materials and Methods."
NCBI gene IDs:
"HSE: "
Figure legend: "I HEK293T cells stably expressing a scramble or HSF1-targeting shRNA were treated with 10 mM metformin overnight and heat-shocked at 43°C for 30 min. Cells were fixed for PLA to detect HSF1-DNA interactions. Experimental details are described in Materials and Methods. Scale bars: 50 μm for low magnification and 10 μm for high magnification."
NCBI gene IDs:
"HSF1: 3297"
Figure legend: "A-C Reporter cells were treated with and without 1 μM A-769662 for 3 h followed by heat shock at 43°C for 30 min and recovery at 37°C for 5 h. Hspa1a and Hspb1 mRNA levels were quantitated by qRT-PCR (mean ± SD, n = 3, Student's t-test, ***P &lt; 0.001). ACC phosphorylation was detected by immunoblotting (C)."
NCBI gene IDs:
"Hspa1a: 193740
Hspb1: 15507"
Figure legend: "D-F Primary MEFs were derived from Ampkα1fl/fl; Ampkα2fl/fl embryos and transduced with either adenoviral GFP or Cre to delete Ampkα1/2 in vitro. AMPKα levels were detected 4 days after transductions (D)"
NCBI gene IDs:
"Cre: 
GFP: 
Ampkα1: 105787
Ampkα2: 108079"
Figure legend: "G Transcriptional activities of HSF1 were measured by a dual reporter system consisting of two plasmids: the HSF1-dependent reporter pHSE-SEAP, in which ideal HSEs drive the expression of secreted alkaline phosphatase (SEAP), and the control reporter pCMV-Gaussia Luc, in which a CMV promoter drives the expression of secreted Gaussia luciferase. In HEK293T cells, either LacZ or GST-AMPKα1CA plasmid was co-transfected with the two reporter plasmids. After 24 h, the transfected cells were heat-shocked at 44°C for 45 min. The culture supernatants were collected to measure SEAP and luciferase activities 24 h after heat shock. SEAP signals were normalized to Gaussia luciferase signals (mean ± SD, n = 5, Student's t-test, **P &lt; 0.01, ***P &lt; 0.001)."
NCBI gene IDs:
"LacZ: 
HSF1: 3297
AMPKα1: 5562"
Figure legend: "H, I Following treatment with 10 mM metformin overnight, endogenous AMPKα and HSF1 proteins were co-precipitated using anti-AMPKα agarose conjugates from lysates of immortalized Hsf1+/+MEFs (H)."
NCBI gene IDs:
"Hsf1: 15499"
Figure legend: "HC: heavy chain. Endogenous HSF1-AMPKα interactions in immortalized Hsf1+/+ and Hsf1−/− MEFs were visualized in situ by PLA (I). Experimental details are described in Materials and Methods. Scale bars: 50 μm."
NCBI gene IDs:
"Hsf1: 15499"
Figure legend: "A In HEK293T cells that stably express an shRNA targeting the 3′ UTR of human HSF1, HSF1WT or HSF1S121A was expressed. Following treatment with 10 mM metformin overnight, the levels of HSF1 phosphorylation at Ser121 were detected by immunoblotting using a specific phospho-HSF1 Ser121 antibody (A8041, Assay Biotechnology)."
NCBI gene IDs:
"HSF1: 3297"
Figure legend: "B Primary Ampkα1fl/fl; Ampkα2fl/fl MEFs were transduced with adenoviral GFP or Cre. Following treatment with 10 mM metformin overnight or treatment with 10 μM A-769662 for 3 h, HSF1 Ser121 phosphorylation was examined by immunoblotting."
NCBI gene IDs:
"Cre: 
GFP: 
Ampkα1: 105787
Ampkα2: 108079"
Figure legend: "C HSF1WT or HSF1S121A was co-expressed with either GFP or GST-AMPKαCA in HSF1-deficient HEK293T cells. HSF1 Ser121 phosphorylation was examined by immunoblotting."
NCBI gene IDs:
"HSF1: 3297
AMPKα: 5562"
Figure legend: "E, F HSF1 activities were measured by the dual reporter system in HSF1-deficient HEK293T cells. Either FLAG-HSF1WT or FLAG-HSF1S121A was co-expressed with LacZ orAMPKα1CA (E)."
NCBI gene IDs:
"LacZ: 
HSF1: 3297
AMPKα1: Q13131///5562"
Figure legend: "E, F HSF1 activities were measured by the dual reporter system in HSF1-deficient HEK293T cells. Either FLAG-HSF1WT or FLAG-HSF1S121A was co-expressed with LacZ or AMPKα1CA (E). Following expression of HSF1WT or HSF1S121A, cells were treated with and without 10 mM metformin overnight (F) (mean ± SD, n = 5, one-way ANOVA, n.s., not significant, *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001)."
NCBI gene IDs:
"LacZ: 
HSF1: 3297
AMPKα1: 5562"
Figure legend: "G, H FLAG-HSF1WT or FLAG-HSF1S121A plasmids were co-transfected with LacZ or AMPKα1CA plasmids into HSF1-deficient HEK293T cells for 3 days (G). Following transfection with FLAG-HSF1WT or FLAG-HSF1S121A plasmids for 3 days, HSF1-deficient HEK293T cells were treated with and without 10 mM metformin overnight (H). Nuclear proteins were extracted to measure HSF1-DNA binding by the ELISA-based DNA binding assay using anti-FLAG antibodies (mean ± SD, n = 3, one-way ANOVA, n.s., not significant, *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001)."
NCBI gene IDs:
"LacZ: 
HSF1: 3297
AMPKα1: 5562"
Figure legend: "I, J HEK293T cells were sequentially transfected with control or AMPKα1/2-targeting siRNAs and dual HSF1 reporter plasmids. 24 h later, transfected cells were starved overnight before reporter activities were measured (mean ± SD, n = 6, Student's t-test, n.s., not significant, **P &lt; 0.01, ***P &lt; 0.001)."
NCBI gene IDs:
"AMPKα1: 5562"
Figure legend: "K, L FLAG-HSF1WT or FLAG-HSF1S121A plasmids were co-transfected with the dual HSF1 reporter plasmids into HSF1-deficient HEK293T cells for 2 days, followed by overnight starvation (mean ± SD, n = 5, Student's t-test, n.s., not significant, *P &lt; 0.05, **P &lt; 0.01)."
NCBI gene IDs:
"HSF1: 3297"
Figure legend: "F-H HSF1WT or HSF1S121A plasmids were transfected into HSF1-deficient HEK293T cells. Transfected cells were heat-shocked at 43°C for 40 min. HSP mRNAs were quantitated by qRT-PCR following overnight recovery. HSF1-DNA binding was measured immediately after heat shock (mean ± SD, n = 3, Student's t-test, **P &lt; 0.01, ***P &lt; 0.001)."
NCBI gene IDs:
"HSP: 
HSF1: 3297"
Figure legend: "A, B Following treatment with 10 μM metformin for 3 days, the levels of HSF1 binding to endogenous HSP promoters were quantitated by chromatin IP (mean ± SD, n = 3, one-way ANOVA, **P &lt; 0.01, ***P &lt; 0.001). Normal rabbit IgG served as the negative control (A). Following the same treatment, HSP mRNA levels were quantitated by qRT-PCR (mean ± SD, n = 3, Student's t-test, ***P &lt; 0.001) (B)."
NCBI gene IDs:
"HSP: "
Figure legend: "C, D Following transfection with AMPKα1/2-targeting siRNAs for 2 days, WM115 cells were treated with 10 μM metformin for 3 days. HSP mRNA levels were quantitated by qRT-PCR (mean ± SD, n = 6, Student's t-test, n.s., not significant, *P &lt; 0.05, **P &lt; 0.01)."
NCBI gene IDs:
"HSP: 
AMPKα1: 5562"
Figure legend: "I HEK293T cells stably expressing either scramble or HSF1-targeting shRNAs were treated with 10 μM metformin for 7 days. Individual proteins were detected by immunoblotting."
NCBI gene IDs:
"HSF1: 3297"
Figure legend: "K, L Immortalized and RAS-transformed MEFs were treated with either 10 μM metformin (K) or different concentrations of glucose (L) for 7 days. Individual proteins were detected by immunoblotting."
NCBI gene IDs:
"RAS: 15461"
Figure legend: "M Following transfection with LacZ or polyQ79, HEK293T cells were grown under different concentrations of glucose for 5 days before measuring aggregate size."
NCBI gene IDs:
"LacZ: "
Figure legend: "A, B A2058 cells were transduced with lentiviral scramble or HSF1-targeting (hA6 and hA9) shRNAs. (A) Cell numbers were quantitated by Hoechst 33342 DNA staining (mean ± SD, n = 4, two-way ANOVA, ***P &lt; 0.001). (B) Protein levels were measured by immunoblotting."
NCBI gene IDs:
"HSF1: 3297"
Figure legend: "C A2058 cells stably expressing LacZ or HSF1 were grown in medium containing 4.5, 1.0, or 0.45 g/l glucose. Following treatment with 10 μM metformin, cell proliferation was measured by Hoechst 33342 DNA staining (mean ± SD, n = 5, two-way ANOVA, ***P &lt; 0.001)."
NCBI gene IDs:
"LacZ: 
HSF1: 3297"
Figure legend: "D, E 1 × 106 LacZ- or HSF1-expressing A2058 cells were transplanted into female NOD/SCID mice. One day after transplantation, metformin was administered via drinking water at 1 mg/ml. Tumor incidence (log-rank test; D) and volumes (E) were measured (mean ± SEM, two-way ANOVA n.s., not significant, *P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001). Tumor growth curves were fitted to exponential growth models to calculate tumor doubling time (DT)."
NCBI gene IDs:
"LacZ: 
HSF1: 3297"
Figure legend: "H A2058 cells stably expressing FLAG-HSF1WT or FLAG-HSF1S121A were treated with 10 μM metformin for 7 days. Protein levels were measured by immunoblotting."
NCBI gene IDs:
"HSF1: 3297"
Figure legend: "I A2058 cells stably expressing HSF1WT or HSF1S121A were grown in Corning®ultra-low attachment 96-well culture plates with 10 μM metformin and different concentrations of glucose for 7 days, 10,000 cells per well. Viable cells were counted by Guava flow cytometer using ViaCount® reagent (mean ± SEM, n = 8, Student's t-test, n.s., not significant, **P &lt; 0.01, ***P &lt; 0.001)."
NCBI gene IDs:
"HSF1: 3297"
Figure legend: "J Tukey box plots showing the inverse correlation between AMPKα Thr172 phosphorylation and HSP mRNA expression in ccRCC. Patients were stratified on the median value of AMPKα Thr172 phosphorylation reverse-phase protein array (RPPA) scores (Student's t-test)."
NCBI gene IDs:
"HSP: "
Figure legend: "A Co-immunoprecipitation of endogenous STING with WIPI1/2-Myc in MEFs transfected with Myc-tagged WIPI1 or WIPI2. The cells were treated with or without cGAMP for 2 h and the WIPI1/2-Myc precipitates were analyzed by western blot using anti-STING. B Co-immunoprecipitation of endogenous WIPI2 with HA-tagged STING, STING-R238A or STING-S366A from HEK293T cells stably expressing STING-HA STING-R238A-HA or STING-S366A-HA. The cells were treated with or without cGAMP for 2 h."
NCBI gene IDs:
"HA: 
Myc: 
STING: 340061
WIPI1: 55062
WIPI2: 74781"
Figure legend: "Co-immunoprecipitation of endogenous STING with Myc- WIPI2 or the indicated WIPI2 mutants from MEFs transfected with the indicated plasmids."
NCBI gene IDs:
"Myc: 
WIPI2: 74781"
Figure legend: "A WIPI2-GFP puncta in MEFs stably expressing GFP-tagged WT or mutant WIPI2. The cells were treated with cGAMP for 2 h or Torin1 for 1 h. B Statistical analysis of the number of WIPI2-GFP puncta in cells treated as in (A)."
NCBI gene IDs:
"GFP: 
WIPI2: 74781"
Figure legend: "F LC3 and p62 level in HEK293T cells stably expressing HA-tagged WT or mutant STING. The cells were treated with or without cGAMP for 4 h."
NCBI gene IDs:
"HA: 
STING: 340061"
Figure legend: "C Co-immunoprecipitation of endogenous WIPI2 with STING-HA from HEK293 cells stably expressing STING-HA with or without BECN1 deletion. The cells were treated with or without Torin1 for 3 h."
NCBI gene IDs:
"HA: 
BECN1: 8678
STING: 340061"
Figure legend: "E Co-immunoprecipitation of endogenous STING with Myc-tagged WT or mutant WIPI2 from MEFs treated with or without VPS34-IN1 for 2 h."
NCBI gene IDs:
"Myc: 
WIPI2: 74781"
Figure legend: "A, B Localization of endogenous WIPI2, WIPI1, ATG16L1 (A) or Myc-tagged WT WIPI2 or WIPI2 mutants (B) in MEFs transfected with Cy3 labeled-ISD (1 μg/ml). ISD, interferon stimulatory DNA."
NCBI gene IDs:
"Myc: 
WIPI2: 74781"
Figure legend: "A Wipi2- or Sting-deleted MEFs were treated with Ara-C for 12 h, and then cultured in Ara-C-free medium. After 24 h, the cells were lysed and analyzed by western blot using the indicated antibodies. B Statistical analysis of the protein level of phospho-TBK1 (Ser172) and STING in cells treated as in (A). The relative phospho-TBK1 level was normalized to TBK1, the relative STING level was normalized to Actin."
NCBI gene IDs:
"Sting: 72512
Wipi2: 74781"
Figure legend: "C-E MEFs with Wipi2 or Sting deletion (C), Wipi2-KO MEFs with transfection of Myc-tagged WT or mutant WIPI2 (D), or Sting-KO MEFs with transfection of HA-tagged WT or mutant STING (E), were treated with Ara-C for 12 h and then cultured in Ara-C-free medium for another 24 h. Total mRNA was extracted and the Ifnb1 mRNA level was measured by real-time PCR and normalized to Actb mRNA. 2RE, WIPI2-R108E/R125E."
NCBI gene IDs:
"HA: 
Myc: 
Actb: 11461
Ifnb1: 15977
Sting: 72512
STING: 340061
Wipi2: 74781
WIPI2: 74781"
Figure legend: "F Sting-KO MEFs with transfection of HA-tagged WT or mutant STING were treated with cGAMP for the indicated time. The cells were lysed and analyzed by western blot using the indicated antibodies."
NCBI gene IDs:
"HA: 
Sting: 72512
STING: 340061"