EMBO/SourceData huggingface dataset:
Figure legend: "A, B CD4+T cells from wild-type, Cblb-/- and Cd5-/- mice were stimulated for 1 min with anti-CD3 and anti-CD4 antibodies (+). CBL (A) were immunoprecipitated from equal amounts of protein lysates. Level of ubiquitylation and amount of CD5 associated proteins were evaluated by immunoblot with antibodies specific for the proteins specified in the left margin. Whole cell lystates (WCLs) were also analyzed with the specified antibodies. Molecular masses are shown (kDa). Data are representative of at least 2 experiments."
NCBI gene IDs:
"Cblb: 208650
Cd5: 12507"
Figure legend: "A, B CD4+T cells from wild-type, Cblb-/- and Cd5-/- mice were stimulated for 1 min with anti-CD3 and anti-CD4 antibodies (+). PI3KR1 (PI3Kp85α) (B) were immunoprecipitated from equal amounts of protein lysates. Level of ubiquitylation and amount of CD5 associated proteins were evaluated by immunoblot with antibodies specific for the proteins specified in the left margin. Whole cell lystates (WCLs) were also analyzed with the specified antibodies. Molecular masses are shown (kDa). Data are representative of at least 2 experiments."
NCBI gene IDs:
"Cblb: 208650
Cd5: 12507"
Figure legend: "(A) Chromatin features mapped here displayed differences between CLL (patient CLL1) and an NBC donor (H7) as shown for the TCF4 locus, which encodes for a transcription factor from the E protein family. Based on the increased H3K4me1, H3K27ac and ATAC signal, two predicted enhancer loci were marked that became active in CLL. Note that the y-axis for RNA-seq is scaled differently for CLL (8000) and NBCs (100) to visualize that the TCF4 gene was not completely silenced but lowly expressed also in NBCs as evident also from the H3K36me3 mark. Light grey depicts active chromatin region and dark grey the confined enhancer locus coinciding with an open chromatin region."
NCBI gene IDs:
"TCF4: 6925"
Figure legend: "(D) Exemplary region at the TAF13 promoter showing higher H3K4me3 levels upstream of the TSS with lost ATAC signal (grey bar) as compared to the NBC control."
NCBI gene IDs:
"TAF13: 6884"
Figure legend: "(E) TF motif analysis of ATAC signal lost at CLL promoters with broadened H3K4me3 regions. An enrichment for the NFY TF motif was detected."
NCBI gene IDs:
"ATAC: 6375"
Figure legend: "(E) Volcano plot of differential super-enhancers targeting known leukemia and cancer genes. Examples include SE loss at CDKN1A, PI3KC2B and KMT2B (MLL2) and SE gain at FMOD, CREB3L2, CTLA4, TCF4, LEF1 and BCL2. Points represent non-differential SEs (grey), and differential SEs (FDR &lt; 0.01) with fold change greater than 1 (orange)."
NCBI gene IDs:
"BCL2: 596
CDKN1A: 1026
CREB3L2: 64764
CTLA4: 1493
FMOD: 2331
KMT2B: 9757
MLL2: 8085
LEF1: 51176
PI3KC2B: 5287
TCF4: 6925"
Figure legend: "(I) Genome browser view of H3K27ac tracks (in grey) at exemplary genes for NBCs and CLL cells 24 hours after mock and after panobinostat treatment. At genes such as CDKN1A (cell cycle control) and KLF13, reduced H3K27ac signal in CLL was increased upon HDAC inhibition to the level found in NBCs. WNT11 is shown as an example of a de novo gain of an active enhancer due to treatment with panobinostat."
NCBI gene IDs:
"CDKN1A: 1026
KLF13: 51621
WNT11: 7481"
Figure legend: "(B) H3K27ac (left) and DNA methylation (right) at NFAT binding sites. CLL cells showed both an H3K27ac enrichment and DNA-hypomethylation at NFAT target sites, suggesting a higher activity of TFs from the NFAT family in CLL."
NCBI gene IDs:
"NFAT: 4776///4775///10725///4773///4772"
Figure legend: "(D) ATAC footprints for E2A, EBF and CTCF motifs from the Homer analysis. The E2A motif footprint (binding site of E protein family TFs like TCF4) displayed an increased binding signal in CLL while sites with the EBF and CTCF motif lost the ATAC signal."
NCBI gene IDs:
"CTCF: 10664
EBF: 1879
E2A: 6929
ATAC: 6375"
Figure legend: "(E) Expression of the genes nearest to target enhancers with constitutively bound (&quot;stable&quot;) CTCF vs. enhancers that lost CTCF in CLL. Loss of CTCF binding correlated with reduced gene expression."
NCBI gene IDs:
"CTCF: 10664"
Figure legend: "(G) Enhancer-promoter rewiring at the NFKB2 locus. A switch of interactions between the NFKB2 promoter and two different enhancers in CLL (red line) vs. NBCs (grey line) was observed. Based on the CTCF ChIP-seq analysis both intronic enhancers at the NFKB2 and the FBXL15 gene show (nearby) constitutively bound CTCF, even though the targets of the two enhancers are switched."
NCBI gene IDs:
"CTCF: 10664
FBXL15: 79176
NFKB2: 4791"
Figure legend: "(E) Analysis of regulation of SNX22 by the intronic H464 enhancer shown in panel B. This enhancer lost its ATAC signal at the predicted EBF1 binding site. EBF1 ChIP-seq analysis validated that EBF1 is indeed lost at this site. Although H3K27ac at the locus was only slightly reduced, transcription of SNX22 was largely reduced. These findings are consistent with a mechanism where EBF1 binding drives gene expression of SNX22 by binding to H464."
NCBI gene IDs:
"EBF1: 1879
SNX22: 79856
ATAC: 6375"
Figure legend: "(G) The protein level of SMIM26  (up) and RNA level of LINC00493  (down) in ccRCC  tissues (T) and their adjacent non-tumoral tissues (N) were detected by IHC staining  and RNA in situ hybridization  (ISH) staining. The right scatter plot shows no significant correlation between SMIM26 protein expression  and LINC00493  RNA expression in ccRCC  tissues (green dots, P=0.94) and adjacent non-tumorous renal  tissues (purple dots, P=0.53). n = 72. Scale bar, 200 μm."
NCBI gene IDs:
"LINC00493: 388789"
Figure legend: "(F) RIP  assay showing a strong binding  of LINC00493  with PABPC4  in HEK293T  and ACHN  cells."
NCBI gene IDs:
"LINC00493: 388789"
Figure legend: "(G) RNA levels of SMIM26  were determined by qRT-PCR in PABPC4  knockdown cells. Data are shown as mean ± SEM of three biological replicates. Unpaired two-tailed Student's t-test. n.s, nonsignificant. Bars, SEM."
NCBI gene IDs:
"PABPC4: 8761
SMIM26: 388789"
Figure legend: "(I) Knocking down PABPC4  could not significantly alter the degradation half-life  of SMIM26  protein. Data are shown as mean ± SEM of three biological replicates."
NCBI gene IDs:
"PABPC4: 8761"
Figure legend: "(J) RNC  of SMIM26  was detected in HEK293T  and ACHN  cells transfected with anti-PABPC4  siRNAs. Unpaired two-tailed Student's t-test, ***P &lt; 0.001. Data are shown as mean ± SEM of three biological replicates."
NCBI gene IDs:
"PABPC4: 8761
SMIM26: 388789"
Figure legend: "(F) Western blotting showed that mesenchymal  marker of Vimentin  and Fibronectin  was decreased, and  E-cadherin was increased in SMIM26-overexpressing cells."
NCBI gene IDs:
"SMIM26: 388789"
Figure legend: "(J) NOD-SCID mice  were transplanted with ACHN-luci  cells with or without overexpression of SMIM26 via tail vein injection, respectively. Bioluminescent was visualized 5 weeks later by using an IVIS 200 Imaging System. Data are shown as mean ± SD of 5 mice  per group. Unpaired two-tailed Student's t-test, ****P &lt; 0.0001. n.s, nonsignificant."
NCBI gene IDs:
"luci: 
SMIM26: 388789"
Figure legend: "Co-IP  assays were performed to detect the interaction  between SMIM26  and SLC25A11. Lysates from ACHN  cells expressing SMIM26-flag  were  co-immunoprecipitated by anti-flag  antibody (E) SMIM26  and SLC25A11  were detected by western blotting."
NCBI gene IDs:
"flag: 
SMIM26: 388789"
Figure legend: "(K-L) N-ter domain of SMIM26  fused with GFP-flag interacted  with SLC25A11. The N-ter SMIM26-GFP-flag construct was transfected into HEK293T  cells, co-immunoprecipitation  was performed by using anti-flag  antibody (K) and anti-SLC25A11  antibody (L)."
NCBI gene IDs:
"flag: 
GFP: 
SMIM26: 388789"
Figure legend: "(A-B) Immunoblotting  validation of the p-AKT  at Ser473 expression in ACHN  and  769-P  cells with overexpression (A) or knockdown (B) of SMIM26 compared with their corresponding control."
NCBI gene IDs:
"SMIM26: 388789"
Figure legend: "(D) Co-IP assays were performed to detect the interaction  between SMIM26  and AGK  in ACHN  and 769-P cells expressing SMIM26-flag. Lysates were co-immunoprecipitated by anti-flag  antibody. (E) Co-IP  assays were performed to detect the interaction  between SMIM26  and AGK  in ACHN  and 769-P cells expressing SMIM26-flag. Lysates were co-immunoprecipitated  by anti-AGK  antibody."
NCBI gene IDs:
"flag: 
SMIM26: 388789"
Figure legend: "(G) Immunofluorescence  of SMIM26  (purple), AGK  (green) and mitochondrial  (red) in ACHN  cells with or without overexpression of SMIM26. Scale bar, 10 μm. Fluorescence intensity analysis of colocalization  of AGK  and mitochondria  in cells treated with control or SMIM26. ImageJ software was used to analyze the fluorescence colocalization. The red line of statistical analysis centers on the co-location  of AGK  and mitochondria."
NCBI gene IDs:
"SMIM26: 388789"
Figure legend: "The interaction  of AGK  and SLC25A11  was determined by immunoblotting  in ACHN  and 769-P  cells with control or SMIM26  overexpressing (K)"
NCBI gene IDs:
"SMIM26: 388789"
Figure legend: "The interaction  of AGK  and SLC25A11  was determined by immunoblotting  in ACHN  and 769-P cells with control or SMIM26  knockdown (L)."
NCBI gene IDs:
"SMIM26: 388789"
Figure legend: "A) Left: Representative current traces from wildtype NavMs channels showing the first 0.1 s of 0.5 s activations from -180 mV holding potential recorded with the indicated extracellular cations. Right: Resulting current-voltage profiles profiles, where current magnitudes were normalized to the maximum inward current measured in the sodium condition.B) Left: Representative current traces from mutant channel E178D (as in A). Right: Resulting current-voltage profiles (error ± SEM; n = 6-9 for NavMs; n = 4-8 for E178D)."
NCBI gene IDs:
"NavMs: "
Figure legend: "B Similar to (A), but using HeLa  cells untreated or treated with GCN2  siRNA 48 h before treatment with indicated concentrations of HF  for 5 h. C Similar to (A), but with high HF  concentrations. Data information: Representative results of at least three independent experiments are shown in each panel."
NCBI gene IDs:
"GCN2: 440275"
Figure legend: "B Representative immunoblots  of indicated proteins in lysates from HeLa cells after 5 h treatment with indicated concentrations of HF. C Similar to (B), but using HeLa  cells untreated or treated with GCN2  siRNA 48 h before treatment with indicated concentrations of HF. Data information: Representative results of at least three independent experiments are shown in each panel."
NCBI gene IDs:
"GCN2: 440275"
Figure legend: "C Newly synthesized proteins in 4KO or 4KO+GCN2 MEF  cells treated with 12.5 or 200 nM HF."
NCBI gene IDs:
"GCN2: 440275"
Figure legend: "D Newly synthesized proteins in eIF2αS/S and eIF2αA/A MEF  cells treated with 12.5 or 200 nM HF."
NCBI gene IDs:
"eIF2α: 229317"
Figure legend: "E Newly synthesized proteins in eIF2αS/S and eIF2αA/A MEF cells treated with indicated concentrations of Tm for 2.5 or 5 h."
NCBI gene IDs:
"eIF2α: 229317"
Figure legend: "F Newly synthesized proteins in HeLa  cells untreated or treated with GCN2  siRNA 48 h before treatment with indicated concentrations of HF."
NCBI gene IDs:
"GCN2: 440275"
Figure legend: "I Newly synthesized proteins in HeLa  cells untreated or treated with GCN2  siRNA 48 h before treatment with indicated concentrations of histidinol (His) or borrelidin  (Bor)."
NCBI gene IDs:
"GCN2: 440275"
Figure legend: "A Representative immunofluorescence for  PH3 (green), combined with DAPI staining (white), of E14.5 wildtype (WT) and 11B mouse dorsolateral neocortex  rostrally. B Representative  immunofluorescence for pVim (yellow), combined with DAPI staining (white), of E14.5 WT and 11B mouse dorsolateral neocortex rostrally. Boxes (50 µm x 65 µm) in (B) indicate areas that are shown at higher magnification in (B'). Arrow, pVim+ BP with basal process (mitotic bRG); notched arrowheads, basal process; arrowhead, pVim+ BP without basal process (mitotic bIP). C-E Quantification of PH3+ APs (C), PH3+  BPs (D) and pVim+ bRG (E left) and  bIPs (E right) in a 200 µm-wide field of E14.5 WT (white) and 11B   (black) mouse dorsolateral neocortex rostrally. Note the difference in ordinate scales in (E). F Data information: Images are single optical sections Scale bars, 50 µm 10 µm Data are the mean of 6-19 (WT) and 6-26 (11B) littermate embryos, which were derived from 3-9 separate litters. Error bars indicate SD, two-tailed unpaired Student's t-test, * P &lt; 0.05; ** P &lt; 0.01 P = 0.0269 (D); P = 0.0302 (E, left); P = 0.0139 (E, right)"
NCBI gene IDs:
"11B: 89839"
Figure legend: "F Representative immunofluorescence for  Pax6 (cyan) and Tbr2 (magenta), combined with DAPI staining (white), of E14.5 WT and 11B mouse dorsolateral neocortex rostrally. Boxes (25 µm x 25 µm) in (F) indicate areas that are shown at higher magnification in (F'). Outlined by dashed white lines, Pax6+ &amp; Tbr2+ BP; outlined by solid white lines, Pax6+ &amp; Tbr2- BP. G-K Quantification of Pax6+ &amp; Tbr2- cells in VZ  (G), Pax6+ &amp; Tbr2+ cells in VZ  (H), Pax6+ &amp; Tbr2- cells in SVZ and IZ (I),  Pax6+ &amp; Tbr2+ cells in SVZ and IZ (J) and  Pax6- &amp; Tbr2+ cells in SVZ and  IZ  (K) in a 200 µm-wide field of E14.5 WT (white) and 11B (black) mouse dorsolateral neocortex rostrally. L Data information:  Images are Z projections of 4 optical sections Scale bars, 50 µm 10 µm Data are the mean of 6-19 (WT) and 6-26 (11B) littermate embryos, which were derived from 3-9 separate litters. Error bars indicate SD, two-tailed unpaired Student's t-test, * P &lt; 0.05; ** P &lt; 0.01 P = 0.0281 (I); P = 0.0088 (J); P = 0.0014 (K)"
NCBI gene IDs:
"11B: 89839"
Figure legend: "L-N, Sequential  BrdU-EdU labelling.  BrdU was injected into pregnant mice  at E13.5, i.e. 24 hr before sacrifice at E14.5, and EdU was injected into the same pregnant mice 0.5 hr before sacrifice at E14.5. (L) Representative immunofluorescence for BrdU (magenta), combined with  EdU staining (cyan) and DAPI staining (white), of E14.5 WT and 11B mouse dorsolateral neocortex rostrally. (M, N) Quantification of BrdU+ &amp; EdU+ cells (M) and the percentage of BrdU+ cells that are  BrdU+ &amp; EdU+ (N) in VZ  and SVZ  in a 200 µm-wide field of E14.5 WT (white) and 11B (black) mouse dorsolateral neocortex rostrally. Data information: Data are the mean of 6-19 (WT) and 6-26 (11B) littermate embryos, which were derived from 3-9 separate litters. Error bars indicate SD, two-tailed unpaired Student's t-test, * P &lt; 0.05; ** P &lt; 0.01 P = 0.0049 (M, SVZ); P = 0.0323 (N, SVZ).  "
NCBI gene IDs:
"11B: 89839"
Figure legend: "H Representative  immunofluorescence for Tbr1 (cyan), Ctip2 (magenta) and Satb2 (green), combined with DAPI staining (white), of E18.5 WT and 11B mouse neocortex at the position where cortical thickness was measured (A, red lines). I Quantification of zone thickness of E18.5 WT (white) and 11B (black) mouse neocortex  at the position where cortical thickness was measured (A, red lines). J Data information:  Images are single optical sections Scale bar, 20 µm Data are the mean of 7 (WT) and 8-12 (11B) littermate embryos, which were derived from 4 separate litters. Error bars indicate SD. Two-way ANOVA, followed by Bonferroni's multiple comparisons test (B-D); two-tailed unpaired Student's t-test P = 0.0287 (I, IZ); P = 0.0039"
NCBI gene IDs:
"11B: 89839"
Figure legend: "A Dorsal  view of adult wildtype (WT) and 11B mouse brain at P56. Orange lines illustrate the measurements of neocortex width and  length; red lines illustrate the measurements of neocortex area. B, C Quantification of neocortex width, length and area. D Data information: Scale bar, 1 mm Data are the mean of 8 (WT) and 8 (11B) adult littermate mice. Error bars indicate SD, two-tailed unpaired Student's t-test , * P &lt; 0.05, ** P &lt; 0.01, **** P &lt; 0.0001. P &lt; 0.0001 (B,  neocortex width); P &lt; 0.0001 (C)"
NCBI gene IDs:
"11B: 89839"
Figure legend: "G, H Representative immunofluorescence for Ctip2 (magenta), Satb2 (green) and Brn2 (yellow), combined with DAPI staining (white), of P56 adult WT and 11B mouse neocortex  at the position where cortical thickness was measured (D, red lines). Data information: Images are single optical sections Scale bar, 20 µm"
NCBI gene IDs:
"11B: 89839"
Figure legend: "IntelliCage was used to evaluate the memory flexibility of adult 11B mice. Four separate sessions were carried out: (i) 5 WT males together with 5 11B males; (ii) 5 other WT males together with 5 other 11B males; (iii) 5 WT females together with 7 11B females; (iv) 4 other WT females together with 8 other 11B females. Data are the mean of the total 10 males (WT), 10 males  (11B), 9  females (WT) and 15 females  (11B) adult littermate  mice. Data points were obtained at consecutive days, error bars indicate SD. (A, B) Quantification of the discrimination error rate in the first 100 visits during the drinking phase of the acquisition stage of adult wildtype (WT) and 11B mice (male, A; female, B) in the IntelliCage. Overall place learning performance of WT and 11B mice was analysed using two-way ANOVA followed by Fisher's LSD test; all data points during the acquisition phase were included. For males (A), WT vs. 11B, P &gt; 0.05; data over time, **** P &lt; 0.0001; interaction, P &gt; 0.05. For females (B), WT vs. 11B, P &gt; 0.05; data over time, **** P &lt; 0.0001; interaction, P &gt; 0.05. Note that (i) the two male sessions and the two female sessions yielded essentially the same results, and (ii) not shown in panels the two separate male  sessions yielded essentially the same results, and the two separate female  sessions yielded essentially the same results."
NCBI gene IDs:
"11B: 89839"
Figure legend: " (A RNA sequencing of CD31 and CD34 double-positive retinal endothelial cells from P5 wild-type mice. (A) RNA levels (FPKM; fragments per kilobase million) of marker genes of endothelial cells (green; CD31 (gene name PECAM1), CD34, von Willebrand Factor (vWF), tyrosine-protein kinase receptor Tie2 (TEK), VE-cadherin (CDH5), endoglin (ENG), CD146 (MCAM) and VEGFR2 (KDR)), astrocytes (blue, GFAP), immune cells (red; T-cells (CD3E), B-cells (CD19), all leucocytes (CD45, PTPRC), and monocytes/macrophages (F4/80, EMR1)), Müller glia cells (orange; aquaporin 4 (AQP4)), neurons (yellow; retinal ganglion cells (RNA binding fox-1 homolog 3, RBFOX3), amacrine cells (parvalbumin, PVALB), bipolar cells (PKC-α, PRKCA), horizontal cell (calbindin, CALB1), photoreceptors (rods, CD73 (NT5E); cones, transducing (GNAT1)), and retinal pigment epithelial cells (magenta; retinal pigment epithelium-specific 65 kDa protein (RPE65). "
NCBI gene IDs:
"EMR1: 13733
F4/80: 13733
AQP4: 11829
aquaporin 4: 11829
CALB1: 12307
calbindin: 12307
CD19: 12478
CD34: 12490
CD3E: 12501
CDH5: 12562
VE-cadherin: 12562
endoglin: 13805
ENG: 13805
GFAP: 14580
GNAT1: 14685
KDR: 16542
VEGFR2: 16542
CD146: 84004
MCAM: 84004
CD73: 23959
NT5E: 23959
CD31: 18613
PECAM1: 18613
PKC-α: 18750
PRKCA: 18750
CD45: 19264
PTPRC: 19264
parvalbumin: 19293
PVALB: 19293
RBFOX3: 52897
RNA binding fox-1 homolog 3: 52897
retinal pigment epithelium-specific 65 kDa protein: 19892
RPE65: 19892
TEK: 21687
tyrosine-protein kinase receptor Tie2: 21687
von Willebrand Factor: 22371
vWF: 22371"
Figure legend: " B) RNA sequencing of CD31 and CD34 double-positive retinal endothelial cells from P5 wild-type mice. (B) RNA levels of VASP (red), EVL (green) and Mena (blue) in the CD31 and CD34 double-positive P5 retinal endothelial cells. Error bars represent SEM; n = 18 animals (36 retinas) from six independent litters; four independent experiments. ***p&lt;0.001, one-way ANOVA with Bonferroni's multi comparison test. "
NCBI gene IDs:
"Mena: 13800
EVL: 14026
VASP: 22323"
Figure legend: " (A) Wild-type and EVL-/- P5 retinas were digested, labelled with CD31-, CD34- and EVL-specific antibodies and analyzed by flow cytometry. Endothelial cells were defined as CD31/CD34-double positive cells (gate indicated in the left panel) and analyzed for EVL expression (middle panel). Mean fluorescence intensity (MFI) of EVL in wild-type (magenta) and EVL-/- (black) cells is shown in the right panel. WT: n=3, EVL-/-: n=2; two retinas per animal. Error bars represent SEM. "
NCBI gene IDs:
"EVL: 14026"
Figure legend: " (B-C) EVL protein expression in sparse/migrating wild-type (WT) and EVL-/- mouse brain endothelial cells (MBEC) and mouse lung endothelial cells (MLEC). Actin was used as loading control. Western blots are representative of three independent experiments. "
NCBI gene IDs:
"EVL: 14026"
Figure legend: " (D) MLEC from wild-type (upper panel) and EVL-/- (lower panel) mice stimulated with 10 ng/ml VEGF were stained for actin (cyan) and EVL (magenta). Asterisks indicate focal adhesions, white arrows indicate filopodia and white arrowheads indicate the leading edge of lamellipodia. Representative images from four independent experiments are shown. Scale bar, 20 µm. "
NCBI gene IDs:
"EVL: 14026"
Figure legend: " (A) Isolectin B4 stained vasculature in whole mount retinas of wild-type (WT) and global EVL-/- mice on postnatal days 3, 5 and 7 (P3, P5, P7) assessed by confocal microscopy. Scale bars 200 µm. "
NCBI gene IDs:
"EVL: 14026"
Figure legend: " (B) Analysis of the radial vascular outgrowth relative to retinal radius and normalized to wild-type littermates. (C) Impact of individual and combined VASP/EVL deletion on sprouting angiogenesis in the postnatal mouse retina at P5 (EVL-deficient animals (E-/-), green; VASP-deficient animals (V-/-), red; VASP/EVL-double deficient animals (EV-/-), orange). "
NCBI gene IDs:
"EVL: 14026
VASP: 22323"
Figure legend: " The retinal vasculature of endothelial cell specific EVL knockout mice (EVLΔEC) and littermate controls (EVLfl/fl) on P5 was analyzed by Isolectin B4 staining. "
NCBI gene IDs:
"EVL: 14026"
Figure legend: " Radial outgrowth of the retinal vasculature; in global EVL-/- mice are shown for comparison; 4 - 5 independent experiments. "
NCBI gene IDs:
"EVL: 14026"
Figure legend: " CD31 and CD34 double positive endothelial cells were isolated from wild-type or EVL-/- P5 retinas by FACS and analyzed by RNA-sequencing. Two independent experiments; in total 18 retinas from WT mice and 18 retinas from EVL-/- mice from three different litters, each. (A) RNA levels (FPKM) of VASP, EVL and Mena in endothelial cells from wild-type or EVL-/- retinas. Error bars represent SEM. "
NCBI gene IDs:
"Mena: 13800
EVL: 14026
VASP: 22323"
Figure legend: " (D) Analysis of mRNA levels of Esm1, Ptgs2 (cyclooxygenase 2), serpine 1 and paxillin in EVL-deficient MLEC relative to WT controls set to 100. n = 3-4 independent experiments, error bars represent SEM, one sample t-test, *p&lt;0.05; **p&lt;0.01. "
NCBI gene IDs:
"Esm1: 71690
EVL: 14026
cyclooxygenase 2: 19225
Ptgs2: 19225
paxillin: 19303
serpine 1: 18787"
Figure legend: " (E) ESM1 protein expression in P5 retinas of wild-type (WT) and global EVL-/- mice. Retinas were fixed and stained with isolectin B4 (IB4, green) to visualize endothelial cells and antibodies directed against the tip cell marker ESM1 (red). Representative images from three independent experiments are shown. Scale bars, 100 µm. "
NCBI gene IDs:
"EVL: 14026"
Figure legend: " (A) Proliferation of WT and EVL-/- MLEC was assessed by BrdU incorporation. The number of BrdU positive cells (red) was normalized to the total number of cells (white). Eight fields of view per condition and genotype for each of 5 independent WT and EVL-/- cell batches; error bars represent SEM; **p&lt;0.01, ***p&lt;0.001, #p=0.171 non-significant vs. Basal EVL-/-, one-way ANOVA with Bonferroni's multi comparison test; scale bar = 50 µm. "
NCBI gene IDs:
"EVL: 14026"
Figure legend: " (B) Cumulative length of CD31-positive sprouts from WT and EVL-/- aortic rings embedded in collagen after 5 days without (basal) or with VEGF stimulation (30 ng/ml). 7 WT and 6 EVL-/- adult animals from three different litters, each; 3 aortic rings per animal and condition; error bars represent SEM; **p&lt;0.01; ***p&lt;0.01; #p=0.543 non-significant vs. basal EVL-/-, one-way ANOVA with Bonferroni's multi comparison test; scale bar, 250 µm."
NCBI gene IDs:
"EVL: 14026"