EMBO/SourceData huggingface dataset:
Figure legend: "D HXT2 mRNA travels on the nuclear envelope into the bud during mitosis after glucose shift. Stills of time lapse movies. HXT2 mRNA was visualized using the MS2-GFP system. Under glucose shift conditions HXT2 mRNA is mostly localized to the bud together with the nucleus. Under glucose rich conditions HXT2 mRNA moves mostly independent of the nucleus. Cyan: Nup84-mCherry; white arrowhead: HXT2 mRNA-MS2 + MCP-GFP."
NCBI gene IDs:
"HXT2: 855023"
Figure legend: "HXT2 only strains grow faster than the other HXT only strain. Growth was assessed 2-3 days after incubation at 30°C."
NCBI gene IDs:
"HXT2: 855023"
Figure legend: "D Quantification of competition assay. qPCR with primers against either HXT1, 2, 3 or 4 was performed. HXT gene abundance was normalized against actin."
NCBI gene IDs:
"actin: 
HXT1: 856494"
Figure legend: "E Strains that lack HXT2 grow slower when coming from quiescence compared to WT."
NCBI gene IDs:
"HXT2: 855023"
Figure legend: "F Tagging the HXT2 mRNA with U1A stem loops leads to its artificial enrichment in the bud in 96% of cells independently of the cell cycle. Arrows point to examples of HXT2-U1A mRNA in the bud early and late in the cell cycle."
NCBI gene IDs:
"U1A: 
HXT2: 855023"
Figure legend: "G Cells that always enrich HXT2 mRNA in the bud have a growth advantage in the first hours when coming from quiescence compared to WT or cells that only express HXT2."
NCBI gene IDs:
"HXT2: 855023"
Figure legend: "H Daughter cells do not retain a memory of the previous stress situation encountered by their mothers. Cells were re-fed after starvation and analyzed for enrichment of HXT2 mRNA via FISH at different time points."
NCBI gene IDs:
"HXT2: 855023"
Figure legend: "(a) MEFs stably expressing EGFP-tagged wild-type (WT) or T240R mutant forms of Parkin as well as FLAG-tagged VAP-A were incubated in the absence or presence of CCCP (30 μM) for 24 h, fixed, permeabilized and subjected to immunofluorescence analysis with antibodies to FKBP38, to FLAG (M2) and to cytochrome c. The fluorescence of EGFP was also monitored directly."
NCBI gene IDs:
"Parkin: 50873"
Figure legend: "(b) MEFs stably expressing FLAG-Parkin and EGFP-tagged forms of FKBP38, Omp25, Omp25/FKBP38 or FKBP38/Omp25 were treated with CCCP (30 μM) for 4 h, fixed, permeabilized and subjected to immunofluorescence analysis with antibodies to cytochrome c and to FLAG (rabbit polyclonal). The fluorescence of EGFP was also monitored directly. Scale bar, 10 μm."
NCBI gene IDs:
"FKBP38: 14232
Omp25: 24071"
Figure legend: "(c) MEFs stably expressing mCherry-tagged Parkin and EGFP-tagged forms of FKBP38, Omp25, Omp25/FKBP38 or FKBP38/Omp25 were incubated in the absence or presence of CCCP (30 μM) for 24 h and then subjected to immunoblot analysis."
NCBI gene IDs:
"FKBP38: 14232
Omp25: 24071"
Figure legend: "(a) MEFs stably expressing FLAG-Parkin and either EGFP-Bcl-2 or EGFP-Bcl-xL were incubated in the absence or presence of CCCP (30 μM) for 24 h and then subjected to immunoblot analysis."
NCBI gene IDs:
"Bcl-2: 12043
Bcl-xL: 12048"
Figure legend: "(c) MEFs stably expressing FLAG-Parkin and EGFP-tagged forms of Bcl-2, Bcl-xL, Bcl-2/xL or Bcl-xL/2 were incubated in the absence or presence of CCCP (30 μM) for 4 h, fixed, permeabilized and subjected to immunofluorescence analysis with antibodies to cytochrome c and to FLAG (rabbit polyclonal). The fluorescence of EGFP was also monitored directly. (d) Higher-magnification views of the boxed areas in c. Scale bar (c,d), 10 μm."
NCBI gene IDs:
"Bcl-2: 12043
Bcl-xL,: 12048"
Figure legend: "(a) MEFs stably expressing EGFP-FKBP38(N402K) and FLAG-Parkin were incubated in the absence or presence of CCCP (30 μM) for 4 h, fixed, permeabilized and subjected to immunofluorescence analysis with antibodies to cytochrome c and to FLAG (rabbit polyclonal). The fluorescence of EGFP-FKBP38(N402K) was also monitored directly. Higher-magnification views of the boxed areas are shown in the right panels of each set."
NCBI gene IDs:
"FKBP38: 14232"
Figure legend: "(b) MEFs stably expressing EGFP-FKBP38(N402K), mCherry-FKBP38 and FLAG-Parkin were incubated in the absence or presence of CCCP (30 μM) for 4 h, fixed, permeabilized and subjected to immunofluorescence analysis with antibodies to FLAG (M2). The fluorescence of EGFP-FKBP38(N402K) and mCherry-FKBP38 was also monitored directly."
NCBI gene IDs:
"FKBP38: 14232"
Figure legend: "(c) MEFs stably expressing FLAG-Parkin and either EGFP-FKBP38 or EGFP-FKBP38(N402K) were incubated in the absence or presence of CCCP (30 μM) for 24 h and then subjected to immunoblot analysis. (d) Densitometric quantitation of EGFP fusion protein abundance in immunoblots similar to those in (c). Data are expressed relative to the corresponding control value (CCCP 0 h) and are means±s.d., from three independent experiments. **P0.01 (Student's t test)."
NCBI gene IDs:
"FKBP38: 14232"
Figure legend: "(e) MEFs stably expressing EGFP-Bcl-2(H235R) and FLAG-Parkin were incubated in the absence or presence of CCCP (30 μM) for 4 h, fixed, permeabilized and subjected to immunofluorescence analysis with antibodies to cytochrome c and to FLAG (rabbit polyclonal). The fluorescence of EGFP-Bcl-2(H235R) was also monitored directly. Higher-magnification views of the boxed areas are shown in the right panels of each set."
NCBI gene IDs:
"Bcl-2: 12043"
Figure legend: "(g) HeLa cells stably expressing FLAG-Parkin were transiently transfected with vectors for KikGR-FKBP38ΔN47 or KikGR-FKBP38ΔN47(N402K), exposed to UV, incubated in the absence or presence of CCCP (10 μM) for 4 h, and then monitored for red and green KikGR fluorescence. Scale bar (a,b,e,g), 10 μm."
NCBI gene IDs:
"FKBP38: 23770
Parkin: 5071"
Figure legend: "(a) Wild-type (Mfn2+/+) and Mfn2 knockout (Mfn2-/-) MEFs stably expressing mCherry-Parkin were incubated in the absence or presence of CCCP (30 μM) for 4 h, fixed, permeabilized and subjected to immunofluorescence analysis with antibodies to FKBP38 and to cytochrome c. The fluorescence of mCherry-Parkin was also monitored directly."
NCBI gene IDs:
"Mfn2: 170731"
Figure legend: "(f) Wild-type (Fkbp38+/+) and Fkbp38 knockout (Fkbp38−/−) MEFs stably expressing FLAG-Parkin and either EGFP or EGFP-FKBP38 were incubated in the absence or presence of CCCP (30 μM) for 24 h and then stained with allophycocyanin (APC)-labelled annexin V and propidium iodide (PI) for flow cytometric analysis of the percentage of apoptotic cells (annexin V+ and PI+ cells). Data are means±s.d., from three independent experiments."
NCBI gene IDs:
"Fkbp38: 14232
FKBP38: 14232
Parkin: 50873"
Figure legend: "PTPδ-tdTomato protein is detected in tau-positive axonal compartments, but not in MAP2-positive dendritic compartments in cultured neurons (entorhinal cortex + hippocampus; 1:2 mixture; days in vitro or DIV 24) derived from Ptprd-/- mouse embryos. Note that the tdTomato signals envelop, but not overlap with, MAP2-delineated dendrites, although this does not necessarily suggest that tdTomato signals not in dendrites. Scale bars, 10 μm in main images and 2 μm in enlarged images."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "Presynaptic PTPδ-tdTomato clusters colocalize more strongly with PSD-95 clusters (excitatory postsynaptic marker) relative to gephyrin (inhibitory postsynaptic marker) clusters in cultured neurons (entorhinal cortex + hippocampus; DIV24) derived from Ptprd-/- mouse embryos. See Fig EV1F for the quantification of the results. Scale bars, 10 μm in main images and 2 μm in enlarged images."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "Gene dose-dependent reductions in PTPδ protein levels in whole brains of Ptprd+/- (HT) and Ptprd-/- (KO) mice relative to Ptprd+/+ (WT) mice (P21), shown by immunoblot analyses. Note that the C-terminal antibody also detects a non-specific band of similar size indicated by an asterisk, possibly either PTPσ or LAR."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "Suppressed basal excitatory synaptic transmission in the Ptprd-/- hippocampal SLM layer, but not SO or SR layer (2 months; male), as shown by the I/O ratio (n = 14 slices from 5 mice [WT-SO], 14, 5 [KO-SO], 11, 4 [WT-SR], 12, 5 [KO-SR], 14, 6 [WT-SLM], 12, 6 [KO-SLM], mean ± SEM, *p &lt; 0.05; **p &lt; 0.01, two-way repeated-measures/RM ANOVA, Holm-Sidak post-hoc multiple comparisons test). (F, H, and J) Normal presynaptic release in the Ptprd-/- hippocampal SLM, SO, and SR layers (P22-27; male), as shown by the PPF ratio (n = 13 slices from 5 mice [WT-SO], 13, 5 [KO-SO], 10,4 [WT-SR], 12, 5 [KO-SR], 15, 6 [WT-SLM], 14, 6 [KO-SLM], mean ± SEM, ns, not significant, two-way RM ANOVA)."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "Decreased PSD density, but not PSD length, thickness, or perforation (%), in the Ptprd-/- SLM (P21; male), revealed by EM. Arrows in panel K indicate PSDs."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "Decreased PSD density, but not PSD length, thickness, or perforation (%), in the Ptprd-/- SLM (P21; male), revealed by EM. Arrows in panel K indicate PSDs. (n = 18 images from 3 mice [WT and KO], ***p &lt; 0.001, ns, not significant, Student's t-test for L, O-R, Mann-Whitney U test for M, N). Scale bar, 500 nm."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "Decreased density of presynaptic nerve terminals but normal area of nerve terminals and normal density of presynaptic vesicles in the Ptprd-/- SLM (P21; male), revealed by EM. (n = 3 mice [WT and KO], mean ± SEM, ***p &lt; 0.001, ns, not significant, Student's t-test)."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "A volcano plot of proteins that showed significant up- or downregulation of pTyr levels (absolute fold change &gt; 1.5, p &lt; 0.05) in the whole brain of Ptprd-/- mice (P21). Note that IL1RAPL1 is the protein with the strongest decrease in pTyr levels. (n = 3 for WT and 3 for KO). See Dataset EV1, 'Phosphoscan Results' tab for a full list of significantly changed proteins."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "Decreased pTyr levels, but normal total levels of IL1RAPL1 protein, in the Ptprd-/- brain (P21-27), as revealed by immunoprecipitation of IL1RAPL1 from whole-brain lysates followed by immunoblotting for total IL1RAPL1 protein and pTyr levels (4G10 antibody)."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "Decreased levels of synaptic IL1RAPL1 protein in the Ptprd-/- brain (P21-27), as revealed by immunoblotting of crude synaptosomal (P2), synaptic plasma membrane (SPM), and PSD (PSD II) fractions. Analysis of immunoblots reveal significant decrease of IL1RAPL1 in the SPM and PSD fractions of Ptprd-/- brain samples. (n = 3 mice [WT and KO] for each fraction [P2, SPM, and PSD], mean ± SEM, **p&lt;0.01, Student's t-test)."
NCBI gene IDs:
"Ptprd: 19266"
Figure legend: "Normal levels of the PTPδ protein in whole-brain lysates of Ptprd-meA-/- mice (P21-27), which contrasts with the Ptprd-/- brain, where PTPδ protein is undetectable."
NCBI gene IDs:
"meA: 17255
Ptprd: 19266"
Figure legend: "Strongly decreased levels of tyrosine-phosphorylated PTPδ protein in whole-brain lysates of Ptprd-meA-/- mice (P21-27), as shown by the immunoprecipitation of IL1RAPL1 protein from whole-brain lysates followed by immunoblotting for total and tyrosine-phosphorylated PTPδ protein."
NCBI gene IDs:
"meA: 17255
Ptprd: 19266"
Figure legend: "Decreased levels of synaptic IL1RAPL1 protein in the Ptprd-meA-/- brain (P21-27), as revealed by immunoblotting P2, SPM, and PSD (PSD II) fractions. Analysis of immunoblots reveal significant decrease of IL1RAPL1 in the SPM and PSD fractions of Ptprd-meA-/- brain samples. (n = 3 mice [Ptprd-meA+/+ and Ptprd-meA-/-] and [P2, SPM, and PSD], mean ± SEM, *p&lt;0.05, ***p &lt; 0.001, Student's t-test). Note that, while unchanged in the P2 and SPM fractions, PTPδ is significantly decreased in the PSD of Ptprd-meA-/- samples."
NCBI gene IDs:
"meA: 17255
Ptprd: 19266"
Figure legend: "Decreased basal excitatory synaptic transmission in the hippocampal SLM region of Ptprd-meA-/- mice, as shown by the I/O ratio at the TA-SLM pathway (P20-24). (n = 15 slice from 5 mice [Ptprd-meA+/+], 12, 4 [Ptprd-meA-/-], mean ± SEM, *p &lt; 0.05; ***p&lt;0.001, two-way RM ANOVA with Holm-Sidak test)."
NCBI gene IDs:
"meA: 17255
Ptprd: 19266"
Figure legend: "Normal presynaptic release in the hippocampal SLM region of Ptprd-meA-/- mice, as shown by the PPF ratio at the TA-SLM pathway (P20-24). (n = 15 slice from 5 mice [Ptprd-meA+/+] and 13, 4 [Ptprd-meA-/-], mean ± SEM, ns, not significant, two-way RM ANOVA)."
NCBI gene IDs:
"meA: 17255
Ptprd: 19266"
Figure legend: "Hyperactivity of Ptprd-/- mice (2.5-4 months) in Laboras cages observed during light-off and light-on periods were strongly mimicked by Emx1-cKO mice, but more weakly by Viaat-cKO mice and not at all by Camk2a-cKO mice. Note also that immobility, a measure that better reflects sleep behavior, showed similar changes among different mouse lines. (n = 14 mice [WT], 14 [global KO], 16 [Emx1-cWT], 16 [Emx1-cKO], 11 [Viaat-cWT], 13 [Viaat-cKO], 18 [Camk2a-cWT] and 13 [Camk2a-cKO], mean ± SEM, *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001; ns, not significant, two-way RM ANOVA with Holm-Sidak test)."
NCBI gene IDs:
"Camk2a: 12322
Emx1: 13796
Ptprd: 19266
Viaat: 22348"
Figure legend: "Hyperactive behavior and decreased immobility of Ptprd-meA-/- mice (2.5-4 months) in Laboras cages observed during light-off periods and light-on periods, similar to Ptprd-/- mice. (n = 7 mice for Ptprd-meA+/+ and 7 mice for Ptprd-meA-/-, mean ± SEM, *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ns, not significant, two-way RM ANOVA with Holm-Sidak test)."
NCBI gene IDs:
"meA: 17255
Ptprd: 19266"
Figure legend: "Increased WAKE duration and decreased NREM duration during the first three hours of the light-on period in Emx1-Cre;Ptprdfl/fl mice (2.5-4 months). (n = 9 mice [Emx1-cWT] and 9 mice [Emx1-cKO], mean ± SEM, *p &lt; 0.05, **p &lt; 0.01, ns, not significant, two-way RM ANOVA with Holm-Sidak test)."
NCBI gene IDs:
"Cre: 2777477
Emx1: 13796
Ptprd: 19266"
Figure legend: "Decreased delta power (normalized to total power) in NREM, but not WAKE, oscillations in Emx1-Cre;Ptprdfl/fl mice (2.5-4 months). Note also the normal theta power (normalized to total power) in REM oscillations in Emx1-Cre;Ptprdfl/fl mice. (n = 9 [Emx1-cWT] and 9 [Emx1-cKO], mean ± SEM, *p &lt; 0.05, **p &lt; 0.01, ns, not significant, two-way RM ANOVA with Holm-Sidak test)."
NCBI gene IDs:
"Cre: 2777477
Emx1: 13796
Ptprd: 19266"
Figure legend: "(D) Increased WAKE duration and decreased NREM duration during the first three hours of the light-on period and decreased REM duration in the first half of the light-on period in Ptprd-meA-/- mice (2.5-4 months). Note also that Ptprd-meA-/- mice also display increased WAKE duration and decreased NREM duration during the light-off period. (n = 8 [Ptprd-meA+/+] and 8 [Ptprd-meA-/-], mean ± SEM, *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ns, not significant, two-way RM ANOVA with Holm-Sidak test)."
NCBI gene IDs:
"meA: 17255
Ptprd: 19266"
Figure legend: "Decreased delta power (normalized to total power) in NREM (both light-off and light-on periods) and WAKE (light-on period) oscillations, and decreased theta power in REM (mainly light-on period) oscillations in Ptprd-meA-/- mice (2.5-4 months). (n = 8 [Ptprd-meA+/+] and 8 [Ptprd-meA-/-], mean ± SEM, *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ns, not significant, two-way RM ANOVA with Holm-Sidak test)."
NCBI gene IDs:
"meA: 17255
Ptprd: 19266"
Figure legend: "(C) Ex vivo lipolysis  assays on Atg7-deficient adipose tissue  explants simulated with isoproterenol  (10µM) for 1-2h (n = 5-6/group). Data are represented as mean ± s.e.m. (C, Two-Way ANOVA."
NCBI gene IDs:
"Atg7: 74244"
Figure legend: "(A) Quantification of Il10  transcript levels in RAW264.7  upon stimulation to epoxy fatty acids (n = 3/group). (B) Quantification of  IL-10 protein levels in the supernatant of RAW264.7 upon stimulation to epoxy fatty acids (n = 3/group). Data are represented as mean ± s.e.m. (A,B) One-Way ANOVA."
NCBI gene IDs:
"Il10: 3586"
Figure legend: "(h) The cellular levels of Ca2+ ions after ligand (C10ORF99) stimulation of  GPR15 in human, mouse, Japanese  quail, painted  turtle. YM.254890 inhibits  Ca2+  ion levels in cells transfected with GPR15 receptors of vertebrates. The fold-change in  calcium levels was calculated based on the fluorescence intensity (excitation and emission wavelengths: 490 and 520 nm, respectively)."
NCBI gene IDs:
"GPR15: 71223
GPR15: 2838"
Figure legend: "(i, j) The cellular levels of  Ca2+ ions after ligand (C10ORF99) stimulation of GPR15 in coelacanth, Asian bony tongue, and their mutants. (k, l) The cellular levels of Ca2+ ions after ligand (C10ORF99) stimulating  GPR15 in Japanese quail and its mutants. The fold-change in  calcium  levels was calculated based on the fluorescence intensity (excitation and emission wavelengths: 490 and 520 nm, respectively)."
NCBI gene IDs:
"GPR15: 102351034
GPR15: 107320109"
Figure legend: "(a-h) The migration of  HEK293 cells expressing  mGPR15, qGPR15,  tGPR15, cGPR15,  aGPR15, and their mutants induced by ligand C10ORF99. Data information: All data shown are generated from at least three technical replicates. Error bars indicate SD (n=3). ***P-value &lt; 0.001; **P-value &lt; 0.01; *P-value &lt; 0.05 (t-test)."
NCBI gene IDs:
"aGPR15: 
cGPR15: 102351034
mGPR15: 71223
qGPR15: 107320109
tGPR15: 101950658"
Figure legend: "(i-p) The migration  of CD4+ cells from GPR15-knockout mice, engineered to express mGPR15, qGPR15, tGPR15, cGPR15, aGPR15, and their mutants induced by ligand C10ORF99. Data information: All data shown are generated from at least three technical replicates. Error bars indicate SD (n=3). ***P-value &lt; 0.001; **P-value &lt; 0.01; *P-value &lt; 0.05 (t-test). Ad-NC represents  adeno-virus-based gene-delivery vector as negative control."
NCBI gene IDs:
"aGPR15: 
cGPR15: 102351034
GPR15: 71223
mGPR15: 71223
qGPR15: 107320109
tGPR15: 101950658"
Figure legend: "(a)  CCR9 expression in the small intestine  (SI) and colon  of Gallus gallus and Lonchura striata. (b) CCR9 expression in the small intestine (SI) and colon of  Chrysemys picta bellii  and Pelodiscus sinensis. (c)  CCR9 expression in the  small intestine  (SI) and colon  of Rana catesbiana Shaw and Rana nigromaculata. (d) GPR15 expression in the small intestine (SI) and colon of Gallus gallus and Lonchura striata. (e) GPR15 expression in the  small intestine  (SI) and colon of Chrysemys picta bellii  and Pelodiscus sinensis. (f)  C10ORF99 expression  in the small intestine (SI) and  colon of Gallus gallus and Lonchura striata. (g)  C10ORF99 expression in the small intestine (SI) and colon of Chrysemys picta bellii  and Pelodiscus sinensis. (h) GPR15 and C10ORF99 expression in the small intestine (SI) and colon of Rana catesbeiana Shaw and Rana nigromaculata. Data information: All data shown are representative of at least three independent technical replicates. Error bars indicate SD (n=3). UD, undetermined, ***P-value &lt; 0.001; **P-value &lt; 0.01; NS: no significance (t-test)."
NCBI gene IDs:
"C10ORF99: 
CCR9: 
GPR15: 
CCR9: 428454
GPR15: 427956"
Figure legend: "(i) GPR15 expression in CD4+ T cell from  chicken small intestine  (SI) and  colon. Data information: All data shown are representative of at least three independent technical replicates. Error bars indicate SD (n=3). UD, undetermined, ***P-value &lt; 0.001; **P-value &lt; 0.01; NS: no significance (t-test)."
NCBI gene IDs:
"GPR15: 427956"
Figure legend: "The expression levels of GPR15,  C10ORF99,  FOXP3 in mice fed with corn, chicken, and mixture of corn plus chicken, commercial food  chow and a positive control (propionate  added to  commercial food  chow) at different times (weanling  mice were defined as w-1) in colonic  tissue were determined by q-RT-PCR. Each symbol or bar represents pooled RNA from colon tissues from three  mice. Data information: All data shown are representative of at least three independent biological replicates.Error bars indicate SD (n=3). ****P-value &lt; 0.0001 ***P-value &lt; 0.001; **P-value &lt; 0.01; *P-value &lt; 0.05; NS: no significance (One-way ANOVA)."
NCBI gene IDs:
"C10ORF99: 70045
FOXP3: 20371
GPR15: 71223"
Figure legend: "The expression levels of IL-10  in mice fed with corn, chicken, and mixture of corn plus  chicken,  commercial food chow and a positive control (propionate added to  commercial food chow) at different times  (weanling mice were defined as w-1) in  colonic tissue were determined by  q-RT-PCR. Each symbol or bar represents pooled RNA from colon tissues from three  mice. Data information: All data shown are representative of at least three independent biological replicates.Error bars indicate SD (n=3). ****P-value &lt; 0.0001 ***P-value &lt; 0.001; **P-value &lt; 0.01; *P-value &lt; 0.05; NS: no significance (One-way ANOVA)."
NCBI gene IDs:
"IL-10: 16153"
Figure legend: "(i) Luciferase activities of constructs with the mouse C10ORF99   promoter in HEK293  cells. Data information: All data shown are representative of at least three independent biological replicates.Error bars indicate SD (n=3). ****P-value &lt; 0.0001 ***P-value &lt; 0.001; **P-value &lt; 0.01; *P-value &lt; 0.05; NS: no significance (One-way ANOVA)."
NCBI gene IDs:
"C10ORF99: 70045"
Figure legend: "Luciferase activities of constructs with the Japanese quail C10ORF99 promoter in  HEK293 cells. Data information: All data shown are representative of at least three independent biological replicates.Error bars indicate SD (n=3). ****P-value &lt; 0.0001 ***P-value &lt; 0.001; **P-value &lt; 0.01; *P-value &lt; 0.05; NS: no significance (One-way ANOVA)."
NCBI gene IDs:
"C10ORF99: "
Figure legend: "B Forest plots display the hazard ratios of genes at the 17q12 amplicon according to the DFS (top right) and OS (bottom right) of breast cancer patients in the METABRIC dataset. Genes located at the HER2 amplicon were nominated according to hazard-ratio levels (all P-values &lt; 0.01). The HER2 co-amplification percentage of the indicated genes is represented as bar graphs (left)."
NCBI gene IDs:
"HER2: 2064"
Figure legend: "C The frequency of CDK12 amplification in HER2-amplified- and HER2-nonamplified breast cancer. The bar graphs indicate the frequency of HER2 and CDK12 co-amplified cases among the patients with HER2 gene amplification (left). Tables show the percentage of CDK12 amplification in the indicated cohorts (right). Amp, amplification; non-amp, non-amplification."
NCBI gene IDs:
"CDK12: 51755
HER2: 2064"
Figure legend: "D Scatter plot showing the correlation between CDK12 expression and its copy number alteration (CNA) in METABRIC (left). The r value was calculated as the Pearson's correlation coefficient. Box plots showing the mRNA levels of CDK12 in the indicated subtypes from METABRIC (right). P-values were calculated using one-way ANOVA, followed by post-hoc LSD test."
NCBI gene IDs:
"CDK12: 51755"
Figure legend: "E Survival analysis of breast cancer patients according to the expression of CDK12 in METABRIC (top) and KM plotter (bottom) using the Kaplan-Meier method with the log-rank test."
NCBI gene IDs:
"CDK12: 51755"
Figure legend: "A FACS analysis of the percentages of CD44+/CD24−/ESA+ breast CSC-like populations in CDK12-overexpressing ZR-75-30 and HCC-1419 cells and CDK12-siRNA-transfected BT474 and HCC-1954 cells. Top, representative dot plot of CD44-APC versus CD24-PE expression for viable cells (red) and ESA-positive cells (blue) from the viable cells. Bottom, the percentage of CD44+/CD24-/ESA+ cell population (blue dots at lower right quadrant in the plots) was quantified in the indicated cell lines. Mean ± s.d. of three independent samples. P-values were based on two-tailed Student's t-test (ZR-75-30 and HCC-1419 cells) and one-way ANOVA with a post-hoc LSD test (BT474 and HCC-1954 cells). Amp, amplification; non-amp, non-amplification; Trz, trastuzumab."
NCBI gene IDs:
"CDK12: 51755"