EMBO/SourceData huggingface dataset:
Figure legend: "C VP1390 induces cell lysis in E. coli. Time-lapse microscopy of E. coli cells expressing periplasm-targeted sfGFP, VP1388, or VP1390 (perisfGFP, periVP1388, and periVP1390, respectively) from an arabinose-inducible vector, grown on LB agarose pads supplemented with kanamycin (to maintain the plasmid), 0.2% arabinose (to induce expression), and propidium iodide (PI; pink). Merging of the phase contrast and PI channels are shown. Scale bar = 2 µm."
NCBI gene IDs:
"sfGFP: 
VP1388: 1188895
VP1390: 1188897"
Figure legend: "Time-lapse microscopy of competition between V. parahaemolyticus ∆hns (T6SS+/VP1390+), ∆hns/∆hcp1 (T6SS-/VP1390+), or ∆hns/∆vp1390 (T6SS+/VP1390-) attackers and V. parahaemolyticus ∆vp1389 prey that express GFP. Attacker and prey were mixed (2:1 ratio) and spotted on LB agarose pads supplemented with propidium iodide (PI; pink). Merging of the phase contrast, GFP (green), and PI (pink) channels, as well as the PI channel alone are shown. Scale bar = 5 µm. The experiment was performed three times with similar results; results of a representative experiment are shown."
NCBI gene IDs:
"hns: 1188638
vp1389: 1188896
vp1390: 1188897
VP1390: 1188897
hcp1: 1188900"
Figure legend: "D) Lysate from HEK 293 cells expressing a GFP-tagged copy of either wild-type (WT) or F147/149/229/231L (F4L) TDP-43 was added to a mixture of recombinant WT or F4L TDP-43 (5.3 μM, 10% Cy3-labeled protein) and A(GU)6 (22.8 μM), A(CA)18 (7.6 μM), A(GU)18 (7.6 μM), or no RNA control at 250 mM NaCl. Droplets were imaged by brightfield and fluorescence microscopy. Representative images for 3 biological replicates using 2 protein preparations. Scale bars, 10 μm. E) LLPS measured by turbidity in the same experimental conditions as panel D. Mean and SD of 4 biological replicates using 2 recombinant protein preparations. Analyzed by one-way ANOVA (F(7,24)=69.30, P&lt;0.0001). Sidak's multiple comparisons test was used to compare selected groups. *P&lt;0.05, ****P&lt;0.0001. "
NCBI gene IDs:
"GFP: 
TDP-43: "
Figure legend: "B. Quantification of the MCAK/Uba2  signal ratio normalised to each non-targeting control of 4 independent experiments. Error bars indicate standard deviation, asterisks the p-value of a two-tailed unpaired Student's t-test comparing each Fbxw5-directed siRNA sample with the according non-targeting control (*P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001)."
NCBI gene IDs:
"Fbxw5: 54461"
Figure legend: "C. RPE-1  cells were transfected with the indicated siRNAs (72 hours total time), split on coverslips 24 hours later and serum-starved for the last 24 hours. Cells were fixed in methanol  and analysed via  immunofluorescence  using the indicated antibodies together with Hoechst staining. Left: Maximum intensity projections (same for all following microscopy images) of representative images. Arrows indicate ODF2  signal. Scale bar = 5 µm. Note: Middle panel shows an example image of siFw5-3. Right: Quantification of  MCAK signals  co-localising with ODF2. Long black line shows mean intensity and error bars indicate standard error of the mean of 3 independent experiments covering in total more than 280 cells. Asterisks indicate p-value of a Mann Whitney test comparing each sample set with the non-targeting control (**P &lt; 0.01, ***P &lt; 0.001)."
NCBI gene IDs:
"Fw5: 54461"
Figure legend: "A. Fluorescence-based pulse-chase experiment using a monoclonal RPE-1 cell line expressing mNG-MCAK under a doxycycline-inducible promoter. Cells were transfected with the indicated siRNAs (siFw5-1&amp;3 together) and split 24 hours later on Ibidi 8 Well Glass Bottom µ-slides while simultaneously inducing mNG-MCAK expression with 6 ng/ml doxycycline (pulse). 24 hours later, doxycycline was washed out and cells were released into serum-free medium. Cells that have just finished or were about to finish mitosis (distinguishable for example by the midbody signal of mNG-MCAK (arrow heads)) were selected and imaged over 24 hours, taking an image every 20 min (chase). Left: representative images of selected time points. Scale bar = 10 µm. Arrows indicate centrosomal mNG-MCAK signals, arrowheads  mNG-MCAK  signals at the midbody. Right: Quantification of centrosomal mNG-MCAK  signals. Error bars show standard error of the mean of 3 independent experiments with 25 cells in total. P-value of a two-tailed unpaired Students t-test comparing signal intensity of Fbxw5  knockdown over non-targeting control was mostly below 0.01 for time points 0 to 8 hours and below 0.05 for  time points 9h to 20h. Dark and light blue lines indicate the time points at which  mNG-MCAK  signals are reduced by 50% compared to time point  0 for siNT and siFbxw5  samples, respectively."
NCBI gene IDs:
"Fbxw5: 54461
Fw5: 54461"
Figure legend: "C. RPE-1 cells were treated with the indicated siRNA for 48 hours followed by serum-starvation for another 24 hours. Cells were then fixed in methanol and subjected to  IF  using the indicated antibodies together with  Hoechst staining. Left: Representative images. Note: Left panel shows an example image of siFw5-1. Scale bar = 10 µm. Right: Quantification of ciliated cells. Error bars show standard deviation of 4 independent experiments covering more than 200 cells and asterisks indicate p-value of a two-tailed unpaired Student's t-test (*P &lt; 0.05, **P &lt; 0.01, ***P &lt; 0.001)."
NCBI gene IDs:
"Fw5: 54461"
Figure legend: "(e,f) ELISA for IL-1β (e) and IL-18 (f) in supernatants. Resting or LPS-primed BMMs generated from wild-type (WT), Nlrp3−/−, Pycard−/− or Nlrc4−/− mice were stimulated with PA-BSA."
NCBI gene IDs:
"Nlrc4: 268973
Nlrp3: 216799
Pycard: 66824"
Figure legend: "(g) IL-1β ELISA of supernatants from LPS-primed BMMs stimulated with PA-BSA in the absence or presence of the pan-caspase inhibitor zVAD or caspase-1 inhibitor zYVAD."
NCBI gene IDs:
"caspase-1: 12362"
Figure legend: "(h) ELISA for IL-1β in supernatants. Resting or LPS-primed BMMs generated from WT or Casp1-/- mice were stimulated with PA-BSA, BSA control, ATP or nigericin."
NCBI gene IDs:
"Casp1: 12362"
Figure legend: "(i) ELISA for TNF in supernatants. Resting or LPS-primed BMMs generated from WT, Nlrp3-/-, Pycard-/- or Casp1-/- mice were stimulated with PA-BSA as indicated. Values are expressed as mean ± s.d., and the results are representative of three independent experiments."
NCBI gene IDs:
"Casp1: 12362
Nlrp3: 216799
Pycard: 66824"
Figure legend: "Immunoblotting for procaspase-1 and activated caspase-1 (p10), pro-IL-1β and cleaved IL-1β (p17) in supernatants (Sup) and cell lysates (Lys) from resting or LPS-primed BMMs generated from WT, Nlrp3−/−, Pycard−/− (a) or Nlrc4−/− (b) mice stimulated with PA-BSA (0.2 or 0.5 mM) as indicated at top. Data are representative of two independent experiments."
NCBI gene IDs:
"Nlrc4: 268973
Nlrp3: 216799
Pycard: 66824"
Figure legend: "(f) Transfection of BMMs with empty vector (EV) or constitutively active (CA) AMPK-α1 subunit. N, non-transfected. Efficiency was determined 16 h later by flow cytometric analysis of GFP expression in macrophages cotransfected with CA AMPK-α1 and pmaxGFP. Values are percentages of GFP-positive cells in the ranges indicated by the bars. (g) ELISA for IL-1β in supernatants of cells transfected as in f and stimulated with PA-BSA (0.5 mM) for 24 h. In each of a, b and f, one of two independent experiments is shown. In each of c-e and g, the results are representative of three independent experiments. Values are expressed as mean ± s.d. *P 0.05 versus controls."
NCBI gene IDs:
"AMPK-α1: 105787"
Figure legend: "(d-f) Akt Ser473 phosphorylation measured by flow cytometry (d,e) or immunoblotting (f). FL83B cells (d,e) or WT primary hepatocytes (f) were pretreated with conditioned medium (CM) generated from WT, Pycard−/− (d), Nlrp3−/− or Casp1−/− (e) macrophages for 24 h, then stimulated with insulin. Control medium was obtained from wild-type BMM cultures without stimulation."
NCBI gene IDs:
"Pycard: 66824"
Figure legend: "(d-f) Akt Ser473 phosphorylation measured by flow cytometry (d,e) or immunoblotting (f). FL83B cells (d,e) or WT primary hepatocytes (f) were pretreated with conditioned medium (CM) generated from WT, Pycard−/− (d), Nlrp3−/− or Casp1−/− (e) macrophages for 24 h, then stimulated with insulin. Control medium was obtained from wild-type BMM cultures without stimulation"
NCBI gene IDs:
"Casp1: 12362
Nlrp3: 216799
Pycard: 66824"
Figure legend: "(g) Akt serine 473 phosphorylation measured by flow cytometry. FL83B cells were pretreated with WT or Pycard−/− CM in the absence or presence of the IL-1 receptor antagonist anakinra (1 μg/ml) for 24 h, then stimulated with insulin."
NCBI gene IDs:
"Pycard: 66824"
Figure legend: "(b) ITT in WT mice on regular diet (RD) or HFD for 12 weeks, or Il1b-/- mice on HFD for 12 weeks."
NCBI gene IDs:
"Il1b: 16176"
Figure legend: "(c,d) ITT (c) and serum IL-1β (d, left) and TNF (d, right) determined by ELISA, 2 h after IL-1β injection. Recombinant mouse IL-1β was administered to WT and Tnfa−/− mice (n = 5 for each group). One of two independent experiments is shown (mean ± s.d.). *P 0.05 versus controls."
NCBI gene IDs:
"Tnfa: 21926"
Figure legend: "(a) Blood glucose and insulin levels measured in WT (n = 6), Nlrp3−/− (n = 5) or Pycard−/− (n = 6) mice under fasting or refed conditions after 12 weeks of HFD."
NCBI gene IDs:
"Nlrp3: 216799
Pycard: 66824"
Figure legend: "(b-e) Glucose tolerance test (GTT) (b,d) and insulin tolerance test (ITT) (c,e) performed for WT, Nlrp3−/− (b,c) and Pycard−/− (d,e) mice on HFD for 12 weeks."
NCBI gene IDs:
"Nlrp3: 216799
Pycard: 66824"
Figure legend: "(g,h) Insulin-stimulated phosphorylation of IRβ, IRS1 and Akt (Ser473) in liver tissues of individual WT and Pycard−/− mice (g), and p-Akt (Ser473) in liver, white adipose (WAT) and muscle tissues of individual WT and Nlrp3−/− mice (h) on HFD for 12 weeks, after insulin (2 IU/kg) infusion. Graphs at right of blots show the quantitation of each molecule. pY, phosphotyrosine."
NCBI gene IDs:
"Nlrp3: 216799
Pycard: 66824"
Figure legend: "(i,j) Expression of Tnfa and Mcp1 mRNA relative to Actb in liver tissues of Nlrp3−/− mice (i) and Pycard−/− mice (j) on regular diet (RD) or HFD for 12 weeks. One of two independent experiments is shown (mean ± s.d.). *P 0.05 versus controls."
NCBI gene IDs:
"Actb: 
Mcp1: 20296
Nlrp3: 216799
Pycard: 66824
Tnfa: 21926"
Figure legend: "(E-G) Effect of EPI  on CIII-deficient (BCS1L) cells stable-expressing  ATPIF1WT or  ATPIF1H49K. (E) CV ATP  hydrolytic capacity measured by the acidification rate  and normalized maximal respiration. Maximal respiration was determined using the OCR  channel (Max OCR  on SR). Effect of EPI  is shown as % of control cells, untreated with EPI. Cells were treated for 24hrs with 50nM EPI  (n≥4). (F) mtATP content measured as fluorescence intensity per mitochondria  area and shown as % of control untreated (n=5). Mitochondrial  area was quantified using MTG staining. Cells were treated for 30min. (G) Total cellular ATP  content shown as % of untreated cells. Cells were treated for 24hrs (n≥4). In all cases, data represent average ± SEM. For each biological replicate, technical replicates were averaged. Two-way ANOVA followed by Šídák's multiple comparisons test shows statistical differences depicted by p-value."
NCBI gene IDs:
"ATPIF1: 11983
BCS1L: 617"
Figure legend: "B Venn diagrams showing overlap between genes up-regulated (1.5 fold) in abo1Δ mutants with genes up-regulated under the indicated condition, along with the significance of the overlaps (based on hypergeometric distribution)."
NCBI gene IDs:
"abo1: 2543084"
Figure legend: "B Nucleosome position frequency values for the coding regions of 4013 S. pombe genes were k-means clustered (k = 9) using the abo1Δ data from biorep 1 (low MNase) and displayed with positive values coloured yellow and other values coloured blue (left-hand panel). The cluster order was then used to display the equivalent wild type frequency values in the right-hand panel."
NCBI gene IDs:
"abo1: 2543084"
Figure legend: "C Level of histone gene mRNAs was determined by qRT-PCR. Data are the mean of four independent biological repeats and error bars are ±SEM. Two-tailed unpaired t-tests showed no significant differences (P &gt; 0.05) between wild type and abo1Δ cells."
NCBI gene IDs:
"abo1: 2543084"
Figure legend: "C RNA purified from wild type, abo1Δ and spt16-18 cells was analysed by northern blotting using a probe to the 3′ end of spbc19c7.11 (top panel). RNA (5 µg) used for northern blotting was analysed on an ethidium bromide stained 1% TAE agarose gel (bottom panel). Data are representative of two independent biological repeats."
NCBI gene IDs:
"abo1: 2543084
spbc19c7.11: 2540750
spt16: 2541355"
Figure legend: "D RNA purified from wild type, and abo1Δ cells was analysed by strand specific RT-PCR. RNA from hip1Δ cells was analysed as a control. One primer, complementary to either the forward or reverse transcripts, was included during the reverse transcription step the second primer was then added during PCR amplification. Control reactions omitting the reverse transcription step (-RT) were included to demonstrate the absence of contaminating genomic DNA. Data are representative of two independent biological repeats."
NCBI gene IDs:
"hip1: 2540219
abo1: 2543084"
Figure legend: "F ChIP analysis of histone H3 levels at act1+ was determined by qPCR. Data are the mean of three independent biological repeats and error bars represent ±SEM. P-value was calculated using a two-tailed unpaired t-test."
NCBI gene IDs:
"act1: 2540051"
Figure legend: "A The position of ura4+ reporter alleles in centromere 1 is shown in the top panel. Strains containing the imr::ura4+ allele were grown to log phase in YE5S medium, subjected to 5-fold serial dilutions and spotted onto YE5S agar or YE5S agar supplemented with 5-FOA (1 mg/ml). Data are representative of three independent biological repeats."
NCBI gene IDs:
"ura4: 2538768"
Figure legend: "B Strains carrying the otr::ura4+ were analysed as described for A."
NCBI gene IDs:
"ura4: 2538768"
Figure legend: "D RNA was purified from the indicated strains and subjected to qRT-PCR for the subtelomeric gene, tlh1+. Data is the mean of three biological repeats and error bars indicate ± SEM. P-value was calculated using a two-tailed unpaired Student's t-test."
NCBI gene IDs:
"tlh1: 2541932"
Figure legend: "E The position of insertion of ade6+ reporter allele in the silent mat locus is shown in the top panel. Log phase cells containing the mat3-M::ade6+ allele were subjected to five-fold serial dilution and spotted onto YE5S agar plates lacking adenine (Low Ade) were incubated for 4 days at 30°C. Data are representative of at least three independent biological repeats. Note, microarray analysis indicates that deletion of abo1+ does not influence the expression of ade6+ (or ura4+) when these genes are present at their normal genomic loci."
NCBI gene IDs:
"mat3: 
ade6: 2538734
abo1: 2543084
ura4: 2538768"
Figure legend: "A ChIP analysis was performed on wild type (untagged) and abo1-GFP cells and the resulting DNA analysed by qPCR for centromeric (dh, dg and imr) repeat sequences. Data are the mean of four independent biological repeats and error bars represent ±SEM. P-values calculated using a two-tailed unpaired t-test indicates that all loci are significantly enriched (P &lt; 0.05) relative the untagged control."
NCBI gene IDs:
"abo1: 2543084"
Figure legend: "B The indicated strains expressing GFP-Swi6 were subjected to ChIP analysis. The level of centromeric (dg) repeat sequences relative to the euchromatic control locus, adh1+ was determined by qPCR and scaled to a clr4Δ (- H3 K9me control) mutant. Data are the mean of two independent ChIP experiments and error bars represent the range of the data."
NCBI gene IDs:
"adh1: 2538902
clr4: 2540825"
Figure legend: "D. ChIP analysis of Abo1-GFP at centromeric (dh and imr) repeat sequences regions in wild type and pob3Δ cells. Data are the mean of three independent experiments and error bars represent ±SEM. P-values, calculated using a two-tailed unpaired t-test, indicated no significant difference (P &gt; 0.05) for wild type and pob3Δ cells."
NCBI gene IDs:
"pob3: 2541088"
Figure legend: "F ChIP analysis of Abo1-GFP over the dh and imr regions in wild type and swi6Δ cells. Data are the mean of three independent experiments and error bars represent ±SEM. P-values, calculated using a two-tailed unpaired t-test, indicated no significant differences (P &gt; 0.05) for wild type and swi6Δ cells."
NCBI gene IDs:
"swi6: 2541633"
Figure legend: "A RNA was extracted from mid log phase cells and Tf2 mRNA levels were determined by qRT-PCR, normalised to act1+ mRNA and scaled relative to the wild type level. Data are the mean of three independent biological repeats and error bars represent ±SEM."
NCBI gene IDs:
"Tf2: 
act1: 2540051"
Figure legend: "B Mid log phase cells with the indicated integrated lacZ reporter were subjected to quantitative β-galactosidase assays. Data are the mean of three independent biological repeats and error bars represent ±SEM.C As for B"
NCBI gene IDs:
"lacZ: "
Figure legend: "D ChIP DNA samples from wild type (untagged) and abo1-GFP cells were analysed by qPCR for Tf2 LTR. Data are the mean of four independent biological repeats and error bars represent ±SEM."
NCBI gene IDs:
"Tf2: 
abo1: 2543084"
Figure legend: "E Normalised cumulative nucleosome (150 ± 30 bp) position frequency profiles for Tf2 LTR retrotransposons aligned at the ATG plotted from low MNase (biorep1) and high MNase (biorep 2) datasets.P-values were calculated using a two-tailed unpaired t-test."
NCBI gene IDs:
"Tf2: "
Figure legend: "Subcellular localization of dLap1mGFP and dTormGFP-E177Q in the wild-type (w-) or dLap1+/∆11 fat body of 3rd instar fly larvae, when expressed as UAS transgenes. "
NCBI gene IDs:
"dLap1: 36670"
Figure legend: "GFP, Phalloidin and LipidTOX detect the expression of dTormGFP chimeras (green), cell boundaries (red), and LD (red), respectively, in dTorKO fat body cells."
NCBI gene IDs:
"mGFP: 
dTor: 31399"
Figure legend: "Bars show the fraction (mean ± SEM) of membrane GL and GPL lipids with each fatty acyl chain characteristic. n = 3 MS analyses of 4DO fat body samples for each genotype. MUFA, mono-unsaturated; PUFA, poly-unsaturated. ‡ indicate a significant difference between w- and dTorKO expressing Luciferase RNAi, * indicate a significant difference compared to dTorKO expressing Luciferase RNAi. Two-way ANOVA, Dunnett's multiple comparison test. ‡ p &lt; 0.05 and * p &lt; 0.05."
NCBI gene IDs:
"Luciferase: 
dTor: 31399"
Figure legend: "Control and dTorKO 5DO fat body cells expressing UAS GFP fusion proteins with the Cg-Gal4 driver, and labeled with anti-Calnexin (red) and a neutral lipid dye (LipidTOX, magenta). Note that dTorKO cells are smaller. White arrowhead indicates NE enrichment of LipinmGFP."
NCBI gene IDs:
"Gal4: 
GFP: 
dTor: 31399"
Figure legend: "Lipin1mGFP localization in HEK293T cells transfected with a plasmid that co-expresses CTDNEP1myc-WT or -CD (red) and NEP1R1V5 (magenta). (G') Upper: enlargement of panel G, white arrow highlights NE enrichment. Lower: plot showing the intensity of Lipin1mGFP signal (mean ± SD, n = 5 cells) along a 3 µm profile that transects the NE at 0 µm."
NCBI gene IDs:
"myc: 
CTDNEP1: 23399"
Figure legend: "Control (w-) and dTorKO fat body nuclei labeled with anti-LaminDm0, Megator/Tpr, mAb414, or expressing UAS Nup107GFP or UAS Nup358GFP with the Cg-Gal4 driver."
NCBI gene IDs:
"Gal4: 
dTor: 31399"
Figure legend: "mAb414 labeling of 5DO dTorKO fat body cells expressing the dTor cDNA, Luciferase RNAi, or RNAi against Nep1r1, Ctdnep1, or Lipin. Nuc, nucleus. The percentage of fat body cells with NE-localized mAb414. ** and **** indicate that Lipin, Ctdnep1, and Nep1r1 RNAi significantly increased the number of dTorKO cells with NE-specific mAb414 labeling compared to the Luciferase RNAi (Luc). Chi-square test followed by individual post hoc Chi-square tests. ** p &lt; 0.01 and **** p &lt; 0.0001. NE ultrastructure in 5DO dTorKO cells. Red arrows, nuclear pores; yellow arrows, abnormal INM herniations. Nuc, nucleus; Cyto, cytosol."
NCBI gene IDs:
"Luciferase: 
Luc: 
Nep1r1: 3355167
Ctdnep1: 33107
Lipin: 35790
dTor: 31399"
Figure legend: "The percentage that Lipin, Ctdnep1, and Nep1r1 RNAi normalize the abundance of membrane GL and GPL classes in the dTorKO fat body. 0% &quot;normal&quot; reflects lipid abundance in dTorKO expressing Luciferase RNAi, while 100% &quot;normal&quot; reflects lipid abundance in w- expressing Luciferase RNAi. Percentage normalization was separately calculated for PI, PA, DAG, PC, PE and PS (for dTorKO expressing Lipin, Ctdnep1, and Nep1r1 RNAi). Points show the mean of all lipid class normalization per sample, bars show mean ± SEM for the group."
NCBI gene IDs:
"Luciferase: 
Nep1r1: 3355167
Ctdnep1: 33107
Lipin: 35790
dTor: 31399"
Figure legend: "NE ultrastructure of 5DO fat body cells overexpressing UAS transgenes, or from dLap1-/- animals. Yellow dotted lines highlight NE regions with subtly abnormal membrane architecture. Red arrows indicate nuclear pores. R1, region 1; R2, region2; Nuc, nucleus; Cyto, cytosol"
NCBI gene IDs:
"dLap1: 36670"
Figure legend: "Data from FIB-SEM imaging of fat body nuclei expressing Sec61b (control), or CTDNEP1mGFP. (J - L) 3D reconstructions, (M) distance between the INM and ONM at NPC in wild-type cells versus CTDNEP1mGFP-induced structures. Kolmogorov-Smirnov non-parametric T-Test. **** p &lt; 0.0001"
NCBI gene IDs:
"mGFP: 
CTDNEP1: 23399
Sec61b: 66212"
Figure legend: "mAb414 localization in 5DO fat body cells expressing the indicated UAS transgenes or from a dLap1-/- animal. *** and **** indicate significant difference compared to control mGFPSec61b expressing cells. Chi-square test followed by individual post hoc Chi-square tests. *** p &lt; 0.001 and **** p &lt; 0.0001."
NCBI gene IDs:
"mGFP: 
dLap1: 36670
Sec61b: 66212"
Figure legend: "NE ultrastructure of 5DO fat body cells from a (I) control animal, (J) homozygous Nup35BG01311 and (K) homozygous Nup35MB02683 animals. Nuc, nucleus; Cyto, cytosol."
NCBI gene IDs:
"Nup35: 32851"
Figure legend: "D. In vitro competition assay of the 3 MCC cell lines MKL-2, PeTa, and WaGa transduced with either shLSD1.1, shLSD1.2, shRenilla (negative control), or shRPS15 (positive control). Individual graphs are displayed in Fig EV1E."
NCBI gene IDs:
"Renilla: 
LSD1: 23028
RPS15: 6209"
Figure legend: "F. Violin plot depicting the LSD1 dependency score in MCC compared to cancer types from 23 tissues, ordered according to mean dependency score. Red horizontal line depicts the median. Data obtained from DepMap RNAi screen. Blood, hematopoietic and lymphoid tissue; U. aerodigestive, upper aerodigestive tract; A. ganglia, autonomic ganglia; CNS, central nervous system."
NCBI gene IDs:
"LSD1: 23028"
Figure legend: "E. Violin plot depicting the HMG20B dependency in MCC compared to cancer types from 23 tissues, ordered according to mean. Red horizontal line depicts the median. Data obtained from DepMap RNAi screen. Blood, hematopoietic and lymphoid tissue; U. aerodigestive, upper aerodigestive tract; A. ganglia, autonomic ganglia; CNS, central nervous system."
NCBI gene IDs:
"HMG20B: 10362"
Figure legend: "K. Bar graph of HMG20B rescue experiment in PeTa cells transduced with either a shRNA targeting HMG20B (shHMG20B) or negative control (shRenilla) and with an overexpression construct expressing either of the HMG20B mutant that cannot be targeted by the shRNA. Cell survival is depicted at day 8 after transduction and normalized to shRenilla. EV, empty vector control, WT, wild-type; ΔALPHA, alpha-helices deletion; ΔCC, coiled-coil domain deletion; ΔHMG, HMG box deletion."
NCBI gene IDs:
"Renilla: 
HMG20B: 10362"
Figure legend: "B. RT-qPCR quantification of neuronal genes at the different time points and conditions depicted in Fig 7A. Data are relative to the housekeeping gene HPRT1 and normalized to the respective DMSO control. n = 4 technical replicates. Bar graphs represent mean ± SD."
NCBI gene IDs:
"HPRT1: "