EMBO/SourceData huggingface dataset:
Figure legend: "C) Performance in the multi-trail inverted screen test  is impaired in (C) SUR2-STOP475 mice  (WT n = 9 [4 male; 5 female]; STOP n = 15 [5 male; 10 female]; p = 2.9x10-4 according to Mann Whitney U test). Data information: Bars show mean (± SEM) with individual biological replicates shown as circles/squares. * denotes p value &lt; α = 0.05 for all panels."
NCBI gene IDs:
"SUR2: 20928"
Figure legend: "(D)Treadmill exercise tolerance is also reduced in SUR2-STOP475 mice  (WT n = 4 [2 male; 2 female]; STOP n = 8 [4 male; 4 female]; p = 0.008 according to Mann Whitney U test). Treadmill workload tolerated was also reduced (WT 18.1 ± 2.2 vs STOP475 9.2 ± 0.9 J; p = 0.008 from Man Whitney U test), mean mouse  body weight  was WT 22.1 ± 0.9 vs STOP475 21.9 ± 0.6 g. Data information: Bars show mean (± SEM) with individual biological replicates shown as circles/squares. * denotes p value &lt; α = 0.05 for all panels."
NCBI gene IDs:
"SUR2: 20928"
Figure legend: "(A) Example traces of inside-out patch clamp  recordings of acutely isolated FDB myofibers  of WT (black, top left), SUR2-STOP475 (purple, top right), and skeletal muscle dominant negative (SkM-DN; magenta, bottom left) mice. Patches were voltage clamped at -50 mV and excised at time-points indicated by arrows. ATP  (5 mM) was administered to the cytoplasmic  face of membrane patches as indicated by horizontal bars. Dashed lines denote the zero KATP   current level."
NCBI gene IDs:
"SUR2: 20928"
Figure legend: "(D) Distance travelled in  treadmill exercise tolerance tests (all male; WT n = 6; AAA+ n = 8; Myf5-cre  n = 8; SkM-DN n = 7; Dunn's test following Kruskal-Wallis omnibus test p = 0.005 for WT vs SkM-DN, 0.037 for AAA+ vs SkM-DN, and 0.014 for Myf5-cre  vs SkM-DN; * denotes p value &lt; adjusted α = 0.0083). Treadmill workload tolerated was also reduced (WT 23.6 ± 2.3 vs SkMDN 10.1 ± 1.8 J; p = 0.0017 from Dunn's test), mean mouse  body weight  was WT 28.9 ± 1.6, AAA+ 26.6 ± 0.9, Myf5-cre  25.3 ± 0.8, SkMDN 24.2 ± 0.8 g; no significant differences in body weights  were observed, p from Dunn's test following Kruskal-Wallis omnibus test &gt; adjusted α = 0.0083 for all comparisons. Bars show mean (± SEM) with individual mouse performance shown as dots/diamonds/triangles/squares."
NCBI gene IDs:
"cre: 2777477
Myf5: 17877"
Figure legend: "(A) Left - example HE stained tibialis anterior (TA) muscles from WT and SUR2-STOP475 mice. Black arrows identify peripheral nuclei  and yellow arrows indicate centrally nucleated fibers. Right - quantification of centrally nucleated fibers. Bars show mean (± SEM) with individual biological replicates shown as dots/squares (WT n = 5; STOP n = 4; p = 0.016 according to Mann Whitney U test) (B) Left - example HE stained TA  muscles from control and SkM-DN mice. Black arrows identify peripheral nuclei  and yellow arrows indicate centrally nucleated fibers. Right - quantification of centrally nucleated fibers. Bars show mean (± SEM) with individual biological replicates shown as dots/squares (Control n = 7 [comprising 2 x WT, 3 x Myf5+-cre, and 2 x AAA+ littermate controls]; SkM-DN n = 5; p = 0.002 according to Mann Whitney U test). Data information: * denotes p value &lt; α = 0.05 for all panels. Scale bars show 50 µm in each panel."
NCBI gene IDs:
"SUR2: 20928
cre: 2777477
Myf5: 17877"
Figure legend: "(A) Example traces showing force  generation in  isometric contractility studies  of isolated EDL  muscle from WT (left, black) and SUR2-STOP475 (right, purple) mice. Muscle was stimulated every 2 s. Scale bars show 20 mN (y-axis) and 2 s (x-axis). (B) Enlarged representations of the 1st (at 0 seconds), 10th (20 s) and 30th (60 s) contractions, identified in concatenated traces in (A) by arrows. Scale bars show 20 mN (y-axis) and 0.4 s (x-axis)."
NCBI gene IDs:
"SUR2: 20928"
Figure legend: "(A) Survival  of WT and SUR2-STOP475 mice  administered with verapamil  in drinking water (n = 7 [4 male, 3 female] for WT administered 0.9 g/l verapamil; n = 14 [8 male, 6 female] for SUR2-STOP475 administered 0.9 g/l verapamil; n = 6 [3 male, 3 female] for SUR2-STOP475 administered 0.3 g/l verapamil). Verapamil  induced deaths were observed in both male  and female mice  (7 of 8 male  and 4 of 6 female SUR2-STOP475 mice  died within 28 days of 0.9 g/l verapamil). (B) Survival  of WT and SUR2-STOP1149 mice  administered with verapamil  in drinking water (n = 10 [3 male, 7 female] for SUR2-STOP1149 mice  administered 0.9 g/l verapamil)."
NCBI gene IDs:
"SUR2: 20928"
Figure legend: "(D) Heart  rates calculated from ECG  recordings from WT and SUR2-STOP mice  administered with no verapamil  (0 Verap) or 0.9 g/l verapamil  in drinking water."
NCBI gene IDs:
"SUR2: 20928"
Figure legend: "(A) Left - Average performance in the  inverted screen test  of mice  homozygous for the ncDHPR   allele alone (ncDHPR) or homozygous for both the ncDHPR and SUR2-STOP475 alleles (STOP475/ncDHPR). Right - Summary of inverted screen test data. Data shown as mean ± SEM (WT n = 9 [4 male; 5 female]; ncDHPR n = 15 [male  6; female  9]; STOP475 n = 15 [5 male; 10 female]; STOP475/ncDHPR n = 12 [4 male; 12 female]; Dunn's test p = 4.0 x 10-4 for WT vs STOP475, 6.9 x 10-4 for WT vs STOP475/ncDHPR, 0.001 for ncDHPR  vs STOP475/ncDHPR verapamil, following Kruskal-Wallis omnibus test). * denotes p value &lt; adjusted α = 0.0083."
NCBI gene IDs:
"SUR2: 20928
DHPR: 12292"
Figure legend: "(B) Left - Example of HE stained tibialis anterior muscle from STOP475/ncDHPR mouse, black arrow shows  peripheral nuclei   and yellow arrows show central nuclei. Right - Quantification of centrally nucleated fibers, data from WT and SUR2-STOP475 mice  (WT n = 5; STOP475 n = 4; STOP475/ncDHPR n = 8; Dunn's test p = 0.007 for WT vs STOP475 and 0.011 for WT vs STOP475/ncDHPR, following Kruskal-Wallis test, * denotes p value &lt; adjusted α = 0.067). Scale bar shows 50 µm. Bars show mean (± SEM) with individual measurements shown as dots/squares/triangles."
NCBI gene IDs:
"SUR2: 20928
DHPR: 12292"
Figure legend: "(F) Summary of unstimulated force  (normalised by physiological cross-sectional area) at 60 s for each experiment. Bars show mean ± SEM with individual biological replicates shown as dots/squares/triangles (WT without glibenclamide  n = 6 [3 male; 3 female]; WT with glibenclamide  n = 10 [5 male; 5 female]; ncDHPR  without glibenclamide  n = 6 [3 male; 3 female]; ncDHPR with glibenclamide  n = 6 [3 male; 3 female]; Dunn's test p = 7.0 x 10-4 for WT without glibenclamide  vs WT with glibenclamide  and 0.002 for ncDHPR without glibenclamide  vs ncDHPR with glibenclamide, following Kruskal-Wallis omnibus test; * denotes p value &lt; adjusted α = 0.0083)."
NCBI gene IDs:
"DHPR: 12292"
Figure legend: "D The expression of FUNDC1 is induced by 10 ng/ml tetracycline (Tet) in FUNDC1‐inducible HeLa cells. Cells were transfected with HA‐ULK1 or HA‐ULK1 (K46N) for 24 h. Then, the cell lysates were prepared for immunoblotting using indicated antibodies."
NCBI gene IDs:
"FUNDC1: 139341
ULK1: 8408"
Figure legend: "EULK1+/+ cells were transfected with FUNDC1‐Myc, and ULK1-/- cells were transfected with FUNDC1‐Myc alone, FUNDC1‐Myc and HA‐ULK1, or FUNDC1‐Myc and HA‐ULK1 (K46N). Cells were harvested and lysed for immunoblots24 h after transfection."
NCBI gene IDs:
"FUNDC1: 139341
ULK1: 8408"
Figure legend: "F Purified GST‐FUNDC1 and GST‐FUNDC1 (S17A) were subjected to an in vitro kinase assay with Myc‐ULK1 immunoprecipitated by anti‐Myc antibody from Myc‐ULK1‐transfected cells about 24 h post‐transfection. Phosphorylated FUNDC1 was detected by anti‐p‐S17‐FUNDC1 antibody. The red asterisks mark the target bands."
NCBI gene IDs:
"FUNDC1: 139341"
Figure legend: "I, J The single mutant which can abolish the ULK1 and FUNDC1 interaction was identified. HeLa cells were co‐transfected with Flag‐ULK1 and the indicated constructs. 24 h after transfection, cells were lysed for immunoprecipitation by anti‐Flag antibody."
NCBI gene IDs:
"ULK1: 22241"
Figure legend: "KMEFs were transfected with FUNDC1‐Myc and its mutants after the endogenous FUNDC1 was knocked down by siRNA. 36 h after transfection, cells were harvested in the absence or presence of 50 nM bafilomycin A1 (BAF1) and then lysed for immunoblotting with the indicated antibodies."
NCBI gene IDs:
"FUNDC1: 72018"
Figure legend: "L MEFs were co‐transfected with FUNDC1‐Myc or its mutants and MitoDsred after the endogenous FUNDC1 was knocked down by siRNA. 24 h post‐transfection, cells were treated with hypoxic (1% O2) conditions for 12 h or FCCP (20 μM) for 6 h before fixed by 4% paraformaldehyde and stained with indicated antibodies. Scale bar, 10 μm."
NCBI gene IDs:
"FUNDC1: 72018"
Figure legend: "AULK1+/+ and ULK1−/− cells were cultured under hypoxic (1% O2) condition for 12 h or 24 h in the absence or presence of 50 nM bafilomycin A1 (BAF1). Cell lysates were immunoblotted."
NCBI gene IDs:
"ULK1: 22241"
Figure legend: "B ULK1+/+ and ULK1−/− cells were treated with FCCP (20 μM) for the indicated times in the absence or presence of 50 nM bafilomycin A1 (BAF1). Cell lysates were immunoblotted."
NCBI gene IDs:
"ULK1: 22241"
Figure legend: "C ULK1+/+ and ULK1−/− cells were transfected with FUNDC1−Myc for 24 h and then harvested in the absence or presence of 50 nM bafilomycin A1 (BAF1). Cell lysates were immunoblotted."
NCBI gene IDs:
"FUNDC1: 72018
ULK1: 22241"
Figure legend: "D ULK1−/− cells were transfected with HA‐ULK1 or HA‐ULK1 (K46N), then cultured under hypoxic (1% O2) conditions for 24 h in the absence or presence of 50 nM bafilomycin A1 (BAF1). Cells lysates were immunoblotted."
NCBI gene IDs:
"ULK1: 22241"
Figure legend: "EULK1−/− cells were transfected with HA−ULK1 or HA−ULK1 and then treated with FCCP (20 μM) for 24 h. Cells were harvested in the absence or presence of 50 nM bafilomycin A1 (BAF1). Cell lysates were immunoblotted."
NCBI gene IDs:
"ULK1: 22241"
Figure legend: "F FUNDC1‐knockdown MEFs were transfected with FUNDC1‐Myc or FUNDC1-Myc (S17A) for the indicated times. Cell lysates were used for immunoblotting."
NCBI gene IDs:
"FUNDC1: 72018"
Figure legend: "G ULK1+/+ cells were transfected with FUNDC1‐Myc, and ULK1−/− cells were transfected with FUNDC1‐Myc or FUNDC1-Myc (S17D). 24 h after transfection, cells were fixed with 4% paraformaldehyde and stained with anti‐Myc (mouse) and anti‐LC3 (rabbit) primary antibodies for immunofluorescence microscopy. Scale bar, 10 μm."
NCBI gene IDs:
"FUNDC1: 72018
ULK1: 22241"
Figure legend: "H ULK1−/− cells were transfected with FUNDC1‐Myc or FUNDC1-Myc (S17D) for 24 h in the absence or presence of 50 nm bafilomycin A1 (BAF1) for an additional 6 h before harvesting. Cell lysates were immunoblotted."
NCBI gene IDs:
"FUNDC1: 72018
ULK1: 22241"
Figure legend: "I ULK1−/− cells were transfected with FUNDC1‐Myc or FUNDC1-Myc (S17D) for 24 h in the absence or presence of 50 nm bafilomycin A1 (BAF1) for an additional 6 h before harvesting. Cell lysates were detected with the citrate synthase activity kit."
NCBI gene IDs:
"FUNDC1: 72018
ULK1: 22241"
Figure legend: "J HeLa cells were transfected with FUNDC1‐Myc, FUNDC1-Myc (S17A), or FUNDC1-Myc (S17D). 24 h after transfection, cell lysates were immunoprecipitated with anti‐LC3 antibody."
NCBI gene IDs:
"FUNDC1: 139341"
Figure legend: "A ULK1+/+ or ULK1−/− cells were cultured under hypoxic (1% O2) or normoxic conditions in the absence or presence of 50 nM bafilomycin A1 (BAF1). ULK1−/− cells were transfected with HA‐ULK1, and ULK1−/− FUNDC1‐KD cells were transfected with HA‐ULK1 and FUNDC1‐Myc, then cultured under hypoxic (1% O2) conditions for 24 h in the absence or presence of 50 nM bafilomycin A1 (BAF1). Cells were harvested and lysed for immunoblotting assays."
NCBI gene IDs:
"FUNDC1: 72018
ULK1: 22241"
Figure legend: "B ULK1+/+ or ULK1−/− cells were treated with or without FCCP (20 μM) in the absence or presence of 50 nM bafilomycin A1 (BAF1). ULK1−/− cells were transfected with HA‐ULK1 and ULK1−/− FUNDC1‐KD cells were transfected with HA‐ULK1 and FUNDC1‐Myc and then treated with FCCP (20 μM) for 24 h in the absence or presence of 50 nM bafilomycin A1 (BAF1). Cells were harvested and lysed for immunoblotting assays."
NCBI gene IDs:
"FUNDC1: 72018
ULK1: 22241"
Figure legend: "C ULK1+/+, ULK1−/− FUNDC1‐KD, or ULK1−/− FUNDC1‐KD cells rescued by introduction of HA‐ULK1 and FUNDC1‐Myc were cultured under hypoxic (1% O2) conditions for 24 h or with FCCP (20 μM) for 24 h. Samples were analyzed by electron microscopy. Scale bar, 2 μm. The yellow asterisks mark mitochondria. The red arrows indicate double‐membraned autophagic structures. The yellow arrow denotes autolysosomes."
NCBI gene IDs:
"FUNDC1: 72018
ULK1: 22241"
Figure legend: "Immunoblot analyses of TDG and TDG-SUMO in whole cell extracts of mESCs and MEFs. TDG and TDG-SUMO conjugates before (2i, 0 h) and during differentiation of TDG wildtype (TDGwt) and TDG deficient (TDGnull) mESC and MEFs (5 µM all-trans retinoic acid (RA, 24 h, 48 h). Percentages of TDG-SUMO relative to total TDG signal are indicated."
NCBI gene IDs:
"TDG: 21665"
Figure legend: "Immunoblot analyses of TDG and TDG-SUMO in whole cell extracts of mESCs Chromatin fractionation from mESCs expressing wildtype (ESC-TDGwt) or SUMOylation-deficient TDG (ESC-TDGsnm). Sol, chromatin unbound proteins; Chr1, chromatin associated proteins; Chr2, chromatin bound fraction; Histone H2B, stably chromatin bound marker."
NCBI gene IDs:
"TDG: 21665"
Figure legend: "Fluorescence microscopy of GFP-TDGwt GFP-TDGpip in mESCs. Scale bar: 100µM. Quantitation of fluorescence signals of GFP-TDGwt and GFP-TDGpip in mESCs. median with interquartile range. &gt;470 cells were analysed of each GFPTDGwt and GFPTDGpip ESCs."
NCBI gene IDs:
"TDG: 21665"
Figure legend: "Immunoblot analysis of XRCC1 and XRCC1-SUMO in GFP-TDGwt and GFP-TDGpip mESCs."
NCBI gene IDs:
"GFP: 
TDG: 21665"
Figure legend: "Immunoblot analysis of XRCC1, TDG, TDG-SUMO in TDGwt (wt), TDGsnm (snm) and XRCC1null mESCs (null)."
NCBI gene IDs:
"TDG: 21665
XRCC1: 22594"
Figure legend: "Immunoblot analysis of TDG and TDG-SUMO in TDGwt (wt) and XRCC1null mESCs (null) exposed to H2O2 as indicated."
NCBI gene IDs:
"TDG: 21665
XRCC1: 22594"
Figure legend: "Bright field captures of TDGwt, TDGcat and TDGsnm mESCs at indicated stages of differentiation. DAPI, Alexa Fluor® 680 phalloidin actin staining at the bottom. Scale bars 25µM, 50µM, 500µM as indicated. Quantification of neural cells with neurites of total differentiating TDGwt, TDGcat and TDGsnm mESCs. n ≥ 5. Means with standard deviation (SD). **: P&lt;0.01. Non parametric, Mann-Whitney test."
NCBI gene IDs:
"TDG: 21665"
Figure legend: "Relative changes of lineage marker expression between NPCs and undifferentiated mESCs (ESCM LIF, 0 h), quantified with Gapdh as normalizer. n ≥ 3. Means with standard deviation (SD)). *: P&lt;0.05; **: P&lt;0.01 by non parametric Mann-Whitney test."
NCBI gene IDs:
"Gapdh: "
Figure legend: "Representative images of mESC neuronal differentiation as in Fig 4B. Shown are XRCC1wt and XRCC1null (XRCC1null1, XRCC1null2) mESCs in 2i medium supplemented with LIF (2i LIF) and in ESC medium supplemented with LIF (ESCM LIF), EBs in ESCM LIF and 5µM RA (EB 4d ESCM RA) and dissociated neuron-like cells in B27 (B27). Scale bars 25µM, 50µM, 500µM as indicated. Neurite grids were observed for XRCC1wt; heterogeneous cell populations formed with the XRCC1null (XRCC1null1, null2) clones. Quantification (below) of neural cells with neurites of total differentiating XRCC1wt, XRCC1null mESCs. n = 5. Means with standard deviation (SD). **: P&lt;0.01. Non parametric, Mann-Whitney test."
NCBI gene IDs:
"XRCC1: 22594"
Figure legend: "Quantification of mRNA expression of pluripotency and ectodermal/neurogenesis marker genes by RT-qPCR. n ≥ 3. Mean values and standard deviations (SD) of EBs relative to their mESC (ESCM LIF, 16h), normalised to Gapdh."
NCBI gene IDs:
"Gapdh: "
Figure legend: "Dox-induced prolongation of Nanog expression in Nanogtg embryos up to E9.5 results in lack of blood (left) and downregulation of erythropoietic gene expression. The center and right panels show whole-mount in situ hybridization for Hbb-bh1 (in embryos with intact yolk sacs) and for the long non-coding RNA Redrum. Asterisks mark the aorta-gonad-mesonephros region (AGM) and arrows the tailbud. Embryos of the same genotype but not treated with dox were used as controls (-dox). Scale bars, 500 µm."
NCBI gene IDs:
"Hbb-bh1: 15132
Nanog: 71950
Redrum: 77433"
Figure legend: "Endomucin staining of vessels in control (-dox) or treated (+dox) E9.5 Nanogtg embryos. On the right, higher magnifications of the boxed areas. Scale bar, 500 µm."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "Representative FACS plot of the distribution of the CD71 and Ter119 populations in dissected yolk sacs from untreated and dox-treated E9.5 Nanogtg embryos. Quantification of the CD71+ Ter119+ population in controls (-dox, black dots; n=8) and Nanog expressing (+dox, red dots; n=7) E9.5 yolk sacs. Each replicate contained a pool of 5 (-dox) or 8 (+dox) E9.5 Nanogtg embryos. ***P. &lt; 0.0005; Student's t-test. Horizontal line represents mean values and error bars standard deviation (SD)."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "Representative FACS plots showing the distribution of cKit and CD41 populations in yolk sacs from untreated controls (-dox) and Nanog expressing (+dox) E9.5 Nanogtg embryos. Quantification of different progenitor populations in yolk sacs from control (-dox, black dots; n=8) and Nanog expressing (+dox, red dots; n=7) E9.5 embryos. Each replicate contained a pool of 5 (-dox) or 8 (+dox) E9.5 Nanogtg embryos. Horizontal line represents mean values and error bars SD."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "Differences in the expression levels of Nanog and selected hematopoietic genes in the CD71+ Ter119+ population of control (-dox; n=7) and Nanog-expressing (+dox; n=4) E9.5 embryos. **P &lt; 0.005, ***P &lt; 0.0005; Student's t-test. Horizontal line represents mean values and error bars SD."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "Freshly dissected dox-treated Nanogtg E10.5 embryos without (control) and with (chimera) contribution of wt-ESGFP cells (left, brightfield; right, GFP). Arrows mark the presence of blood in chimeric embryos that is absent from controls. Scale bar, 500 µm."
NCBI gene IDs:
"GFP: 
Nanog: 71950"
Figure legend: "Quantification of colony-forming units generated by wild type (wt) and knockout (Nanog-/-) ES cells after culture of EBs for 5 (D5), 6 (D6), or 7 (D7) days and plating disaggregated cells in different hemogenic-promoting conditions). Panels on the left show representative images of mouse hematopoietic colonies obtained after 12 days of culture in specific media. CFU-GEMM, progenitors giving rise to granulocytes, erythrocytes, monocytes, and megakaryocytes; BFU-E, burst forming units-erythroid; Ery-P, colony forming primitive erythroid; CFU-GM, granulocyte-monocyte precursors; CFU-M, monocyte precursors; CFU-G, granulocyte precursors. No CFU-GEMM are detected at D5 and no BFU-E at D7. For both wt and knockout cells, n=3 each with 3 technical replicates. *P &lt; 0.05, **P &lt; 0.005, ***P &lt; 0.00005; Student's t-test. Horizontal line represents mean values and error bars SD."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "RT-qPCR determination of the relative expression of Brachyury and selected hematopoietic genes in control (wt, right) and knockout (Nanog-/-, left) ES cells (n=3) during 10 days of EB differentiation in hematopoietic-cytokine-enriched medium. Black arrowheads indicate the peak of Brachyury expression and white arrowheads the time of maximum hematopoietic-gene expression."
NCBI gene IDs:
"Nanog: 71950
Brachyury: 20997"
Figure legend: "Representative FACS plots showing the distribution of CD16/32 and CD34 hematopoietic precursors sorted from the cKit+Sca1-LIN- bone marrow of untreated (-dox) or treated (+dox) adult Nanogtg mice."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "Contribution of Nanogtg transplanted bone marrow cells to peripheral blood before (left) and after (right) dox treatment. Percentage of host derived cells (CD45.1+) are shown in black, and of donor derived cells (CD45.1/CD45.2 double +) in red. Individual mice are indicated on the x-axis (n=7)."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "Contribution of Nanogtg transplanted cells to LSK, CMP, GMP and MEP populations purified from bone marrow. Percentage of host derived cells (CD45.1+) are show in black, and of donor derived cells (CD45.1/CD45.2 double +) in blue. Individual mice are indicated on the x-axis (n=7)."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "Expected and observed number of mesodermal (Flk1+) cells of the E7.0 mouse embryo expressing Nanog and selected mesodermal or hematopoietic gene expression, based on single cell RNA-seq data (Scialdone et al., 2016). Statistical significance was calculated with a hypergeometric test."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "PCA showing the distribution of Flk1+ E7.0 mesoderm cells expressing Nanog (green) or Tal1 (red). The single cell expressing both genes is shown in yellow and indicated by an arrow."
NCBI gene IDs:
"Nanog: 71950
Tal1: 21349"
Figure legend: "E6.5 Nanogtg embryos after 8 hours ex-utero culture in the presence (+dox) or absence (-dox) of doxycycline. Scale bar, 100 µm."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "RT-qPCR quantification of the relative expression of Nanog, Tal1, and Klf1 in individual untreated embryos (-dox) or treated embryos (+dox) (n=5). **P &lt; 0.005, ***P &lt; 0.0005; Student's t-test. Horizontal line represents mean values and error bars SD."
NCBI gene IDs:
"Klf1: 16596
Nanog: 71950
Tal1: 21349"
Figure legend: "Whole mount in situ hybridization of Tal1 in E7.5 untreated (-dox) or in utero treated (+dox) Nanogtg embryos. Scale bar, 100 µm."
NCBI gene IDs:
"Nanog: 71950
Tal1: 21349"
Figure legend: "RT-qPCR determination of relative expression in wild type and CRISPR-deleted embryos (n=5) of Tal1 (wt, n=19; deleted, n=13), Klf1 (wt, n=3; deleted, n=6), Gfi1b (wt, n=10; deleted, n=8), Runx1 (wt, n=13; deleted, n=5) and Stil (wt, n=19; deleted, n=13). **P &lt; 0.005, Student's t-test. Horizontal line represents mean values and error bars SD."
NCBI gene IDs:
"CRISPR: 
Gfi1b: 14582
Klf1: 16596
Runx1: 12394
Stil: 20460
Tal1: 21349"
Figure legend: "Experimental design for ES to EpiL cell differentiation of Nanogtg cells and two independent clones (Nanogtg;dTal1del#1 and Nanogtg;dTal1del#2) where the binding site for NANOG distal to Tal1 has been deleted (left). On the right, relative expression of Tal1 determined by RT-qPCR for each ES cell line (ESC; n=9 for all three lines) and EpiL cells without (EpiLC; Nanogtg and Nanogtg;dTal1del#1, n=8; Nanogtg;dTal1del#2, n=6) or with dox treatment (EpiLC +dox; n=9 for all three lines). The genotype of the cell lines is indicated below. Values were normalized to Nanogtg ESC. *P &lt; 0.05, **P &lt; 0.01, ns = not significant; ANOVA with Fisher post-test. Horizontal line represents mean values and error bars standard error of the mean (SEM).  "
NCBI gene IDs:
"Nanog: 71950
Tal1: 21349"
Figure legend: "WB analysis of OTUB1 expression in cultured primary astrocytes from OTUB1fl/fl and GFAP-Cre OTUB1fl/fl mice."
NCBI gene IDs:
"Cre: 2777477
GFAP: 14580
OTUB1: 107260"
Figure legend: "Direct ex vivo WB analysis of OTUB1 expression in astrocytes isolated from adult OTUB1fl/fl and GFAP-Cre OTUB1fl/fl mice."
NCBI gene IDs:
"Cre: 2777477
GFAP: 14580
OTUB1: 107260"
Figure legend: "Normal CNS architecture in OTUB1fl/fl and GFAP-Cre OTUB1fl/fl mice. Myelination is normal in the brain and spinal cord of an OTUB1fl/fl and a GFAP-Cre OTUB1fl/fl mouse. CV-LFB staining; original magnification ×50; scale bars correspond to 100 µm. All photographs are representative of three mice per group."
NCBI gene IDs:
"Cre: 2777477
GFAP: 14580
OTUB1: 107260"
Figure legend: "Absolute numbers of CD45+ cells in the spinal cord of OTUB1fl/fl and GFAP-Cre OTUB1fl/fl mice (n = 5 for both groups, mean + SEM). Absolute numbers of different subpopulations of leukocytes infiltrating the spinal cord of OTUB1fl/fl and GFAP-Cre OTUB1fl/fl mice were analyzed by flow cytometry (n = 5 for both groups, mean + SEM)."
NCBI gene IDs:
"Cre: 2777477
GFAP: 14580
OTUB1: 107260"