EMBO/SourceData huggingface dataset:
Figure legend: "(G) Meso-33 cells stably transduced with the indicated shRNAs targeting NEDD4L or a scrambled shRNA were then transduced with vector or Merlin prior to the BrdU incorporation assay. The percentage of BrdU positive cells was quantified. Mean±s.e.m, N=3 biological repeats, two-way ANOVA."
NCBI gene IDs:
"NEDD4L: 23327
Merlin: 4771"
Figure legend: "(H) FC-1801 cells stably transduced with vector or the indicated Merlin forms were subjected to the sphere formation assay. Scale bar = 500 μm. (I) The number of spheres in each well from (H) was quantified. Mean±s.e.m, N=3 biological repeats, paired t-test. **P&lt;0.05. "
NCBI gene IDs:
"Merlin: 4771"
Figure legend: "(J) FC-1801 cells stably transduced with vector or the indicated Merlin forms were subcutaneously injected into nude mice. Tumor sizes in each group were quantified and plotted. Mean±s.e.m, NVector=8 mice, NWT=10 mice, NK396R=10 mice, NS518D=8 mice, two-way ANOVA. P values of the last measurements (day 37 after injection) are shown. *P&lt;0.05, **P&lt;0.01. (K) Tumors were collected when the vector group in (J) reached the end point (day 37 after injection). "
NCBI gene IDs:
"Merlin: 4771"
Figure legend: "(H-H'') Live wing discs expressing UAS-RFP anterior to the compartment boundary, under the control of ptc-Gal4, were incubated in DiBAC, showing that the stripe of increased DiBAC fluorescence coincides with the posterior edge of ptc expression. White arrowhead in (H) indicates the stripe in the wing pouch; yellow arrowheads indicate the stripe in the dorsal and ventral hinge."
NCBI gene IDs:
"Gal4: 855828
ptc: 35851"
Figure legend: "(D, E) Expression of rpk RNAi using dpp-Gal4 results in diminished DiBAC fluorescence along the A-P compartment boundary (white arrowhead), while increased fluorescence at the D-V boundary in the A compartment is still observable (yellow arrowhead)."
NCBI gene IDs:
"dpp: 33432
Gal4: 855828
rpk: 40580"
Figure legend: "(A-A''') Immunostaining of discs expressing ptc&gt;RFP with antibodies to Rpk and ATPα showing elevated levels of both proteins anterior to the compartment boundary. White arrowheads indicate approximate position of the A-P compartment boundary."
NCBI gene IDs:
"RFP: 
ptc: 35851"
Figure legend: "(B-C') L3 discs that are temperature-sensitive for hh following shift to the restrictive temperature for 12 h show loss of increased expression of Rpk (B, B') and ATPα (C, C') anterior to the compartment boundary. Controls shown in Figure EV2. White arrowheads indicate approximate position of the A-P compartment boundary."
NCBI gene IDs:
"hh: 42737"
Figure legend: "(D-E''') Clones of cells expressing a constitutively activated form of the transcription factor Ci show elevated Rpk and ATPα expression in the anterior compartment (white box) as well as the posterior compartment (yellow arrowhead). (E-E''') A single clone in the A compartment is shown at higher magnification."
NCBI gene IDs:
"Ci: "
Figure legend: "(G-G') A clone of cells in the anterior compartment expressing ptc RNAi following incubation in DiBAC. The clones also express RFP."
NCBI gene IDs:
"ptc: 35851"
Figure legend: "(B-C) Effect of expressing an RNAi against the ENaC channel rpk in the dorsal compartment of the disc using ap-Gal4. Knockdown of Rpk in the dorsal compartment results in decreased accumulation of the Hh signal transducer Smo (B, B'), and the activator form of Ci (B, B''). The expression of ptc, visualized using an anti-Ptc antibody (C), a downstream target gene of Hh signaling, is also diminished. The Rpk RNAi line BL:39053 is used in all panels shown, but the phenotype was validated with a second RNAi line (BL:25847)."
NCBI gene IDs:
"ap: 35509
Gal4: 855828
rpk: 40580
Rpk: 40580"
Figure legend: "(A-C) Localization of Smo protein (blue) following expression of 71B-Gal4 (A), 71B-Gal4 and UAS-NaChBac (B) or 71B-Gal4 and UAS-Kir2.1 (C). Expression of the sodium channel NaChBac increases membrane localization of Smo while expression of the potassium channel Kir2.1 reduces membrane localization, and increases cytosolic Smo (B, C)."
NCBI gene IDs:
"NaChBac: 
Gal4: 855828
Kir2.1: 3759"
Figure legend: "(E, F) Expression of the Hh target gene ptc is visualized using anti-Ptc immunostaining. Compared to 71B-Gal4 (E), Ptc expression is increased in glands expressing 71B-Gal4 and UAS-NaChBac (F)."
NCBI gene IDs:
"NaChBac: 
Gal4: 855828"
Figure legend: "(D-E') Discs expressing the red-light activated channelrhodopsin ReaChR under control of ap-Gal4 were raised on a 12hr light/dark cycle, dissected and stained for Smo protein (D, D') or Ptc protein (E, E')."
NCBI gene IDs:
"ap: 35509
Gal4: 855828"
Figure legend: "B. DIS3  expression in total cell lysates of control (siCTRL) and DIS3 U2OS  silenced cells (siDIS3) was analyzed by Western blot upon rescue with empty vector (EV) or DIS3  expressing vector (DIS3). Lamin B was used as the loading control."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "C. Representative images of comet assays  performed under alkaline conditions in U2OS  cells transfected with siCTRL or siDIS3 and then infected with a vector expressing DIS3  (DIS3) or an empty vector (EV). Quantitative analysis of comet tail  lengths for each condition. Plots represent three biological replicates, with more than 150 cells for each point. The analysis is performed using Casplab software, error bars indicate s.e.m. (n=3). **** p-value &lt; 0.0001. ns= not statistically significant, two-way ANOVA, scale bar is 200 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "D. Immunostaining  against RPA  in U2OS  cells transfected with siCTRL or with siDIS3 and 48 hours later infected with a vector expressing DIS3  (DIS3) or an empty vector (EV). The averages of foci number per cell were calculated from three independent experiments using Cell Profiler software. At least 150 cells were counted for each point, error bars indicate s.e.m. (n=3). * p-value &lt; 0.05. ns= not statistically significant, two-way ANOVA, scale bar is 10 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "A. Immunostaining  with S9.6 (green) and DAPI  (blue) in U2OS  cells, transfected for 48 hours with siCTRL or siDIS3 and then mock-treated (UNTR) or treated with  RNase H  or RNase III for 1 hour before fixation. Histograms show S9.6 signal intensity per cell, error bars indicate s.e.m. (n=3, biological replicates). More than 150 cells were counted, and error bars indicate s.e.m. (n=3 biological replicates).). **** = p &lt; 0.0001, *** = p &lt; 0.001, ns = not statistically significant, two-way ANOVA, scale bar is 10 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "B. Immunostaining  with J2 (green) and DAPI  (blue) in U2OS  cells, as in panel A). More than 150 cells were counted, and error bars indicate s.e.m. (n=3 biological replicates). For all conditions, differences between siCTRL and siDIS3 were not statistically significant, two-way ANOVA, scale bar is 10 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "C. Dot blot  analysis of DNA:RNA hybrids formation: serial dilutions (750 ng, 375 ng, 187,5 ng, 93,75 ng, 46,87 ng) of genomic DNA extracted from WT or DIS3  silenced U2OS  cells and pre-treated with RNase H, RNase III or mock treated, were arrayed on a membrane and probed using the S9.6 antibody. The histogram shows the S9.6 signal quantification in 3 biological replicates, error bars indicate s.e.m., normalized on SYBR®-Gold signal (Adj. Vol.), using Image lab software. *** = p &lt; 0.001, ** = p &lt; 0.01, ns= not statistically significant, two-way ANOVA."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "D. DRIP-qPCR   analysis at four different R-loops sites, RPL13A, ACTB, ENSA, and TRIM33  in U2OS  cells transduced with shScr or shDIS3 and treated or not with  RNase H. Results are shown as mean + s.e.m of three independent experiments.**** = p &lt; 0.0001, *** = p &lt; 0.001, * = p &lt; 0.05, two-way ANOVA."
NCBI gene IDs:
"ACTB: 60
DIS3: 22894
ENSA: 2029
RPL13A: 23521
TRIM33: 51592"
Figure legend: "E. Representative pictures of comet assays performed under alkaline conditions in U2OS  cells transfected for 48 hours with siCTRL or siDIS3, untreated (UNTR) or treated with RNase H (RNase H). Tail  moments analysis was performed using Casplab software, error bars indicate s.e.m. Plots represent three biological replicates, with 150 cells for each cell line. **** = p &lt; 0.0001, ns= not statistically significant, two-way ANOVA, scale bar is 200 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "A. U2OS  cells were transfected with siCTRL or with siDIS3 and 48 hours later were irradiated (IR) or left untreated (NO IR). Cells were fixed 4 hours after IR  and stained  for RAD51. Histograms show foci number per cell, analyzed with Cell Profiler. The average number of foci per cell was calculated from three independent experiments. At least 200 cells were counted for each point, error bars indicate s.e.m. (n=3). * = p &lt; 0.05, two-way ANOVA, ns= not statistically significant, scale bar is 10 µ"
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "D. Representative pictures of alkaline comet assays performed in U2OS  silenced (siDIS3) or not (siCTRL) for DIS3, at sequential  time points  after exposure to 3 Gy irradiation. Relative comet tail  moments were plotted for siCTRL (black circles) and siDIS3  (red circles). Analysis was performed using Casplab software, error bars indicate s.e.m. Plots represent three biological replicates, with more than 150 cells for each siRNA. **** = p &lt; 0.0001, ** = p &lt; 0.001, ns= not statistically significant, two-way ANOVA, scale bar is 20 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "F. Representative images of HPRT   negative mutants in HT1080  cells infected with scramble shRNA (shScr) or shRNA against DIS3  (shDIS3). Histograms show the  mutation frequency  and the  deletion length  of DIS3  WT (shScr) and DIS3  depleted cells (shDIS3) after I-SceI  induced DSB. Error bars represent s.e.m. (n=3). *** = p &lt; 0.001, ns= not statistically significant Student t-test."
NCBI gene IDs:
"DIS3: 22894
HPRT: 3251"
Figure legend: "A. U2OS  cells were transfected with siCTRL or with siDIS3 and 48 hours later were 3 Gy irradiated   (IR) or left untreated (NO IR). Cells were fixed 4 hours after IR  and stained  for BRCA1. Histograms show foci number per cell, analyzed with Cell Profiler. The average number of foci per cell was calculated from three independent experiments. At least 200 cells were counted for each point, error bars indicate s.e.m. (n=3 biological replicates). ** = p &lt; 0.01, ns= not statistically significant, two-way ANOVA, scale bar is 10 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "C. Representative images of BRCA1 staining  on U2OS  cells transfected with siCTRL or with siDIS3. 48 hours after transfection cells were irradiated and 4 hours later were treated with  RNase H or left untreated (UNTR). Histograms show the average foci number per cell from three independent experiments analyzed with Cell Profiler. At least 200 cells were counted for each point, error bars indicate s.e.m. (n=3). ** = p &lt; 0.01, ns= not statistically significant, one-way ANOVA, scale bar is 10 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "D. Representative pictures of comet assays performed under alkaline conditions in U2OS  cells, silenced (siDIS3) or not (siCTRL) for DIS3  untreated (UNTR) or treated with RNase H (RNase H). Relative comet tail  moments are plotted for siCTRL (black circles) and siDIS3 (red circles). Analysis was performed using Casplab software, error bars indicate s.e.m. Plots represent three biological replicates, with 150 cells for each siRNA. **** = p &lt; 0.0001, one-way ANOVA, scale bar is 20 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "A. Representative pictures of comet assays performed under alkaline conditions in DIS3  WT MM  cell lines  MM.1S  and RPMI-8226 (RPMI), and in DIS3  mutated MM  cell lines PCM6  and OPM2, untreated (UNTR) or treated with RNase H (RNase H). Tail  moments analysis was performed using Casplab software, error bars indicate s.e.m. Plots represent three biological replicates, with 150 cells for each cell line. **** = p &lt; 0.0001 ns= not statistically significant, two-way ANOVA, scale bar is 20 µm."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "A. Relative mRNA expression level of interferon genes IFI6, ISG15, IFITM1, IFIT3, IFI27, MCL1, cGAS, and STING  in OPM2  cells infected with a vector expressing DIS3  (DIS3) or an empty vector (EV). Values are relative to housekeeping gene expression, normalized on EV, and represent SE of three biological replicates. *** = p &lt; 0.001, ** = p &lt; 0.01, multiple t-tests."
NCBI gene IDs:
"cGAS: 115004
DIS3: 22894
IFI27: 3429
IFI6: 2537
IFIT3: 3437
IFITM1: 8519
ISG15: 9636
MCL1: 4170
STING: 340061"
Figure legend: "Differentially expressed genes (DEGs) between mutant and WT samples; p-values are from limma and false-discovery rate (FDR) is calculated using the Benjamini-Hochberg procedure; FDR &lt; 0.05 was used as cut off. Functional annotation analysis by IPA of the DEGs between DIS3  mutant and WT samples based on FDR cut-off. (C) Volcano plot of DEGs between mutant and WT samples; labeled genes are the IFN-related genes with an FDR &lt; 0.05 (red horizontal line) and absolute log 2-fold change above or below 0.5 (red vertical lines), respectively; additional representative IFN-related genes are also labeled."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "(F) Violin plot of the number of non-synonymous (NS) mutation load comparison between DIS3  mutant versus DIS3 WT performed on the entire CoMMpass dataset, including 853 MM patients, 88 presenting DIS3  mutations (all samples) and on the CoMMpass dataset, stratified according to the intensity of the IFN   responsiveness (clusters C1, C2, C3). Wilcoxon rank-sum test was used for comparison between DIS3  mutant vs WT. **** = p &lt;, ** = p &lt; 0.01, * = p &lt; 0.05. Black color dots represent the median in each group."
NCBI gene IDs:
"DIS3: 22894"
Figure legend: "(A) Immunoblotting against the GFP or the GAPDH of proteins extracted from HEK293 cells transfected for 24 hours with 80 G4C2 repeats embedded in the human sense C9ORF72 and fused in all three possible frames with the GFP deleted of its ATG."
NCBI gene IDs:
"GFP: 
C9ORF72: 203228"
Figure legend: "(C, D) Immunoblotting against the GFP (C) or the HA tag (D) or the GAPDH of proteins extracted from HEK293 cells transfected for 24 hours with 3, 20 or 80 G4C2 repeats embedded in the human sense C9ORF72 sequence fused to the GFP in the GA frame."
NCBI gene IDs:
"GFP: 
C9ORF72: 203228"
Figure legend: "(E) Immunoblotting against the GFP or the GAPDH of proteins extracted from HEK293 cells transfected with either a wild type or mutant (AGG into CGG) construct containing 80 G4C2 repeats embedded in sense C9ORF72 fused to the GFP in the GR frame."
NCBI gene IDs:
"GFP: 
C9ORF72: 203228"
Figure legend: "(A) Immunoblotting against the HA tag or the GAPDH of proteins extracted from HEK293 cells transfected for 24 hours with 100 C4G2 repeats embedded in the human antisense C9ORF72 and fused in all three possible frames with a HA tag."
NCBI gene IDs:
"HA: 
C9ORF72: 203228"
Figure legend: "(C, D) Immunoblotting against the GFP (C) or the HA tag (D) or the GAPDH of proteins extracted from HEK293 cells transfected for 24 hours with 3, 10 or 100 C4G2 repeats embedded in the human antisense C9ORF72 sequence fused to the GFP in the PG frame."
NCBI gene IDs:
"GFP: 
C9ORF72: 203228"
Figure legend: "(A) Cell viability (TO-PRO-3 FACS staining) of GT1-7 neuronal cells transfected for 24 hours with either wild type or indicated mutant constructs containing either 80 G4C2 repeats or 100 C4G2 repeats embedded in sense or antisense C9ORF72 fused to the GFP in the GA, PG or GR frame."
NCBI gene IDs:
"GFP: 
C9ORF72: 203228"
Figure legend: "(B) Immunoblotting against the GFP, endogenous C9ORF72 or the GAPDH of proteins extracted from Neuro2A cells transfected for 24 hours with 80 G4C2 repeats embedded in the human sense C9ORF72 sequence fused to the GFP in the GA frame and with either a control siRNA or a siRNA targeting C9orf72 mRNA."
NCBI gene IDs:
"GFP: 
C9ORF72: 203228
C9orf72: 203228"
Figure legend: "(C) Immunoblotting against the HA tag, endogenous C9ORF72 or GAPDH of proteins extracted from Neuro2A cells transfected for 24 hours with 100 C4G2 repeats embedded in the human antisense C9ORF72 sequence fused to a HA tag in the PG frame and with either a control siRNA or a siRNA targeting C9orf72 mRNA or treated with Bafilomycin A1 for 15 hours."
NCBI gene IDs:
"HA: 
C9ORF72: 203228
C9orf72: 203228"
Figure legend: "(D) Immunoblotting against the HA tag, endogenous C9ORF72 or GAPDH of proteins extracted from Neuro2A cells transfected for 24 hours with 80 G4C2 repeats embedded in the human sense C9ORF72 sequence fused to a HA tag in the GR frame and with either a control siRNA or a siRNA targeting C9orf72 mRNA or treated with Bafilomycin A1 for 15 hours."
NCBI gene IDs:
"HA: 
C9ORF72: 203228
C9orf72: 203228"
Figure legend: "(E) Cell viability (TO-PRO-3 FACS staining) of GT1-7 neuronal cells co-transfected for 24 hours with either a control siRNA or a siRNA targeting C9orf72 mRNA and wild-type or mutants constructs containing either 80 G4C2 repeats or 100 C4G2 repeats embedded in sense or antisense C9ORF72 fused to the GFP in the GA, PG or GR frame."
NCBI gene IDs:
"GFP: 
C9orf72: 203228
C9ORF72: 203228"
Figure legend: "(A) Left panel, immunoblotting against the HA tag or the GAPDH of proteins extracted from Neuro2A cells transfected for 24 hours with a construct expressing 80 G4C2 repeats embedded in the human sense C9ORF72 sequence fused to a HA in the GA frame and treated with 10 µM of the indicated compound for 15 hours. Right panel, quantification of polyGA expression relative to the GAPDH."
NCBI gene IDs:
"HA: 
C9ORF72: 203228"
Figure legend: "(B) Left panel, immunoblotting against the HA tag or the GAPDH of proteins extracted from Neuro2A cells transfected for 24 hours with a construct expressing 100 C4G2 repeats embedded in the human antisense C9ORF72 sequence fused to a HA tag in the PG frame and treated with 10 µM of the indicated compound for 15 hours. Right panel, quantification of polyPG expression relative to the GAPDH."
NCBI gene IDs:
"HA: 
C9ORF72: 203228"
Figure legend: "(C) Cell viability (TO-PRO-3 FACS staining) of GT1-7 neuronal cells treated with 1, 3 or 10 µM of promethazine and co-transfected for 24 hours with either a control siRNA or a siRNA targeting C9orf72 mRNA and a construct expressing either 80 G4C2 repeats or 100 C4G2 repeats embedded in sense or antisense C9ORF72 fused to the GFP in the GA or PG frame."
NCBI gene IDs:
"GFP: 
C9orf72: 203228
C9ORF72: 203228"
Figure legend: "B WT, Ripk3-/-, Mlkl-/-, Tnfr1-/- and Traf2-/- MDFs were untreated (UT) or treated with TSI for 3 hrs. Nec-1 and GSK872 were added to inhibit RIPK1 and RIPK3 kinase activities respectively."
NCBI gene IDs:
"Mlkl: 74568
Ripk3: 56532
Tnfr1: 71609
Traf2: 22030"
Figure legend: "E RIPK3-gyrase were inducibly expressed in Ripk3-/- MDFs by doxycycline (dox) for 5 hrs, and cells were then treated ± combination of TSI, or coumermycin (coum) for 3 hrs."
NCBI gene IDs:
"Ripk3: 56532"
Figure legend: "B WT USP21-CaaX and USP21C221R-CaaX (CR) were inducibly expressed in WT MDFs by doxycycline for 5 hrs. Ubiquitylated proteins were enriched followed by TSI stimulation and cellular fractionation. All fractions were analysed by Western blot and probed with antibodies as indicated. Representative of three independent experiments."
NCBI gene IDs:
"USP21: 30941"
Figure legend: "A WT and R105AD106A mutant MLKL were inducibly expressed in Mlkl-/- MDFs by doxycycline, at the same time cells were untreated (UT) or treated with TSQ for 6 hrs. Cells were fractionated into cytosol (C) and crude membrane (M). Fractions were analysed by BN- or SDS-PAGE, Western blot and probed with the indicated antibodies. Representative of three independent experiments. B Cell lysates from (A) were subjected to UBA-pull down and analysed as described above."
NCBI gene IDs:
"Mlkl: 74568"
Figure legend: "A WT and E109AE110A mutant MLKL were inducibly expressed in Mlkl-/- MDFs by doxycycline, cells were untreated or treated with TSQ for 6 hrs (please note that the same WT control was used in Fig. EV3A). Cell death was measured by PI staining based on flow cytometry. Data are plotted as mean ± SEM of three independent experiments. B Cellular fractions from (A) were analysed by Western blot from BN-PAGE or SDS-PAGE using antibodies as indicated. The same WT control was used in Fig. 4A. Representative of three independent experiments. C Cell lysates from (A) were subjected to UBA-pull down and analysed as described above."
NCBI gene IDs:
"Mlkl: 74568"
Figure legend: "D N-FLAG MLKL were inducibly expressed in Mlkl-/- MDFs by doxycycline overnight, and cells were treated with TSI for indicated time, followed by UBA-pull down. Representative of three independent experiments. E N-FLAG MLKL were inducibly expressed in Mlkl-/- MDFs by doxycycline for 16 hrs. Cells were stimulated ± TSI for 3 hrs after withdrawal of doxycycline. Then TSI medium was removed and replaced to medium containing inhibitors Bafilomycin A1 (BAF), PS341 (PS) or left untreated (UT). IDN-6556 was added to all conditions to block apoptosis. Cells were collected 0, 2, 4, 6 hrs after medium replacement, followed by UBA-pull down. Representative of three independent experiments."
NCBI gene IDs:
"Mlkl: 74568"
Figure legend: "B WT and 4KR mutant MLKL were inducibly expressed in Mlkl-/- MDFs by doxycycline for 6 hrs and cells were untreated (UT) or treated with TSI, followed by UBA-pull down. Representative of three independent experiments."
NCBI gene IDs:
"Mlkl: 74568"
Figure legend: "D MLKL-/- HT29 cells stably transfected with constructs encoding human MLKL-USP21 and MLKL-USP21C221R, were treated with doxycycline, NSA (1 μM), TSI or combinations thereof (added simultaneously). Sytox Green positive cells were quantified in real time by live cell imaging. Data are plotted as mean ± SEM of six independent experiments. (A red dashed line is shown to highlight the delay in death kinetics upon treatment with NSA). E Human MLKL-USP21 and MLKL-USP21C221R were inducibly expressed in MLKL-/- HT29 cells by doxycycline (10 ng/mL) for 16 hrs, TSI was added for the indicated times but all samples were collected 25 hrs post-induction, followed by UBA-pulldown . Representative of three independent experiments."
NCBI gene IDs:
"MLKL: 197259
USP21: 27005"
Figure legend: " Total IgG ELISA titers expressed as area under the curve (AUC) against homologous Cal/7/9 virus of pre-immune and pre-challenge sera of individual animals of the indicated vaccine groups (AAV-HA, -cHA, -GFP, WIV n = 18, AAV-NP n = 11). Background reactivity of pooled AAV-GFP pre-challenge serum is shown as dashed line. ELISAs were performed in technical duplicates. "
NCBI gene IDs:
"HA: 23308115
NP: 23308118"
Figure legend: " IgA ELISA titers in post-challenge lung homogenates against Cal/7/9 of individual mice of the indicated vaccine groups (AAV-HA, -cHA, -GFP, -NP, WIV n = 11). of the Cal/7/9 (blue symbols) and PR8 low dose (red symbols) challenge groups. ELISAs were performed in technical duplicates. "
NCBI gene IDs:
"HA: 23308115
NP: 23308118"
Figure legend: " A Immunoblot analysis of purified H1N1 viruses A/California/7/2009 (Cal/7/9), A/Brevig Mission/1/1918 (BM/1/1918), A/Puerto Rico/8/1934 (PR8) or A/Brisbane/59/2007 (Bris/59/7) separated under reducing and denaturing conditions. Uncleaved HA0 and cleavage products HA1 and HA2 were detected with pooled pre-challenge sera (AAV-HA, -cHA, -GFP , WIV n = 18, AAV-NP n = 11) as indicated (n = 3)."
NCBI gene IDs:
"GFP: 
HA: 23308115
NP: 23308118"
Figure legend: " C to F Binding of C179 (C), or antibodies present in AAV-HA (D), AAV-cHA (E) or WIV (F) pooled pre-challenge sera (n = 18 mice per group) to Cal/7/9 or PR8 virus after incubation of the virions at pH = 7.2, 5.8, 5.4, 5.0, 4.4 or 4.4+DTT to induce conformational changes in HA or remove the HA1 subdomain. Mean ± SD (n = 3, in technical triplicates). Statistical significance between pH = 7.2 and other conditions was determined using Kruskal-Wallis test with Dunn's multiple comparison testing (*p&lt;0.05, **p&lt;0.01). "
NCBI gene IDs:
"HA: 23308115"