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10.15252/embr.201948483 | MicroRNA-195 controls MICU1 expression and tumor growth in ovarian cancer | 2020 | Figure 4 | <sd-panel> <h2 id="figure-4.-mir-195-regulates-clonal-growth-by-targeting-micu1">Figure 4. miR-195 regulates clonal growth by targeting MICU1</h2> <p><strong>(A&B)</strong> Stable cell lines for CP20 and OVCAR4 expressing GFP-miR-195 or non-target miR-GFP were generated using lentiviral mediated transduction and we... | https://api.sourcedata.io/file.php?figure_id=34626 | [
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10.15252/embr.201948483 | MicroRNA-195 controls MICU1 expression and tumor growth in ovarian cancer | 2020 | Figure 5 | <sd-panel> <p><strong>Figure 5. miR-195 expression determines <em>in vivo</em> tumor growth</strong></p> <p><strong>(A)</strong> Female athymic mice were injected subcutaneously with either CP20 GFP-miR-CTL or CP20- GFP-miR-195 cells. Mice injected with the miR-195 expressing cells (miR-195) had significantly smaller t... | https://api.sourcedata.io/file.php?figure_id=34628 | [
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23933751 | 10.1038/nn.3489 | The Parkinson's disease–linked proteins Fbxo7 and Parkin interact to mediate mitophagy | 2013 | figf1 | <p>(<b>a</b>) Diagram of Fbxo7 isoforms 1 and 2, showing the location of functional domains and the Parkinson's disease–associated mutations. (<b>b</b>) Coimmuno-precipitation (IP) of Fbxo7-HA and Flag-Parkin in whole-cell lysates from U2OS cells over-expressing both proteins. IB, immunoblot. Molecular mass markers are... | https://api.sourcedata.io/file.php?figure_id=3709 | [
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23933751 | 10.1038/nn.3489 | The Parkinson's disease–linked proteins Fbxo7 and Parkin interact to mediate mitophagy | 2013 | figf2 | <p>(<b>a</b>) Fbxo7 relocates from the cytosolic to the mitochondrial fractions of HEK293T cells treated with CCCP (10 μM). IB, immunoblot. (<b>b</b>) Fbxo7 levels are increased in Flag-Parkin complexes immunoprecipitated (IP) from the mitochondrial fraction of HEK293T cells transfected with Flag-Parkin and untagged Fb... | https://api.sourcedata.io/file.php?figure_id=3710 | [
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23933751 | 10.1038/nn.3489 | The Parkinson's disease–linked proteins Fbxo7 and Parkin interact to mediate mitophagy | 2013 | figf3 | <p>(<b>a</b>,<b>b</b>) Overexpression of Fbxo7 by <i>da-GAL4</i> (<i>da>Fbxo7</i>) suppresses climbing (<b>a</b>) and flight (<b>b</b>) defects of <i>parkin</i> mutants. (<b>c</b>) Overexpression of Fbxo7 also suppresses dopaminergic (DA) neurodegeneration <i>parkin</i> mutants. (<b>d</b>–<b>f</b>) Top and middle panel... | https://api.sourcedata.io/file.php?figure_id=3711 | [
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23933751 | 10.1038/nn.3489 | The Parkinson's disease–linked proteins Fbxo7 and Parkin interact to mediate mitophagy | 2013 | figf4 | <p>(<b>a</b>) Coimmunoprecipitation (IP) of PINK1-Myc and Flag-Fbxo7 in whole-cell lysates from U2OS cells overexpressing both proteins. IB, immunoblot. (<b>b</b>) Coimmunoprecipitation of PINK1-Myc with full-length and two N-terminally deleted Flag-Fbxo7 forms. PINK1-Myc is detected at low levels in complex with Flag-... | https://api.sourcedata.io/file.php?figure_id=3712 | [
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23933751 | 10.1038/nn.3489 | The Parkinson's disease–linked proteins Fbxo7 and Parkin interact to mediate mitophagy | 2013 | figf5 | <p>(<b>a</b>) PINK1 localization at the mitochondria was assessed by immunocytochemistry in SH-SY5Y cells transfected with PINK1-HA plus scrambled (scr) or Fbxo7 siRNA following 1 or 3 h treatment with CCCP (10 μM). Cells were scored visually for the colocalization of PINK1-HA with complex Vβ subunit (CxVβ), a mitochon... | https://api.sourcedata.io/file.php?figure_id=3713 | [
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... | |
23933751 | 10.1038/nn.3489 | The Parkinson's disease–linked proteins Fbxo7 and Parkin interact to mediate mitophagy | 2013 | figf6 | <p>(<b>a</b>,<b>b</b>) Ubiquitination of Mfn1 following treatment with CCCP (10 μM) is reduced in the mitochondrial fraction of both SH-SY5Y cells stably expressing <i>Fbxo7</i> short hairpin RNA (Fbxo7 KD) compared to an empty vector control line (<b>a</b>) and in patient fibroblasts with homozygous R378G mutation com... | https://api.sourcedata.io/file.php?figure_id=3714 | [
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... | |
23933751 | 10.1038/nn.3489 | The Parkinson's disease–linked proteins Fbxo7 and Parkin interact to mediate mitophagy | 2013 | figf7 | <p>(<b>a</b>) Treatment with CCCP (10 μM) results in an increase in LC3-II in the mitochondrial but not the cytosolic fraction of cells stably expressing the empty shRNA vector (control), and this is delayed in stable Fbxo7 knockdown (KD) SH-SY5Y cells. (<b>b</b>) As in <b>a</b>, an accumulation of LC3-II was observed ... | https://api.sourcedata.io/file.php?figure_id=3715 | [
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10.15252/embj.2020107485 | Regulated splicing of large exons is linked to phase-separation of vertebrate transcription factors | 2021 | Figure 2 | <h2 id="figure-2.-srsf3-overrides-splicing-suppressive-activity-of-hnrnp-k">Figure 2. SRSF3 overrides splicing-suppressive activity of hnRNP K</h2><ol type="A"> <li> <p>Enrichment of RBP-RNA interaction sites in the SRSF3-dependent large constitutive exons (S3-LCEs). Fraction of S3-LCEs in exons having eCLIP peaks in 3... | https://api.sourcedata.io/file.php?figure_id=43326 | [
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10.15252/embj.2020107485 | Regulated splicing of large exons is linked to phase-separation of vertebrate transcription factors | 2021 | Figure 3 | <h2 id="figure-3.-interactome-analysis-for-srsf3-and-hnrnp-k">Figure 3. Interactome analysis for SRSF3 and hnRNP K</h2><ol type="A"> <li> <p>Schematic diagram of the identification of protein complexes associated with SRSF3 and hnRNP K. Nuclei were extracted from HEK 293 cells overexpressing FLAG-tagged SRSF3 (3XFLAG-S... | https://api.sourcedata.io/file.php?figure_id=43328 | [
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10.15252/embj.2020107485 | Regulated splicing of large exons is linked to phase-separation of vertebrate transcription factors | 2021 | Figure 4 | <h2 id="figure-4.-the-srsf3hnrnp-k-axis-regulates-global-selection-of-polyadenylation-sites">Figure 4. The SRSF3-hnRNP K axis regulates global selection of polyadenylation sites</h2><ol type="A"> <li> <p>Scatter plots of percent distal polyA site usage indices (PDUIs) in control cells (siCont), <em>Srsf3</em>-silenced ... | https://api.sourcedata.io/file.php?figure_id=43330 | [
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10.15252/embj.2020107485 | Regulated splicing of large exons is linked to phase-separation of vertebrate transcription factors | 2021 | Figure 6 | <h2 id="figure-6.-srsf3-silencing-disrupts-transcription-assemblies">Figure 6. <em>Srsf3</em> silencing disrupts transcription assemblies</h2><ol type="A"> <li> <p>Representative transcriptional factor genes containing the SRSF3-dependent exons. Edges show protein-protein interaction (PPI) as annotated within the STRIN... | https://api.sourcedata.io/file.php?figure_id=43334 | [
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10.15252/embj.2019103420 | Re-equilibration of imbalanced NAD metabolism ameliorates the impact of telomere dysfunction | 2020 | Figure 2 | <sd-panel> <p><strong>Figure 2. CD38 depletion ameliorates dysregulated NAD metabolism in DC cells.</strong></p> <ol type="A"> <li> <p>Quantitative RT-PCR and immunoblots of the expression of CD38 and SARM1 in DC and age-matched health control fibroblasts. All values are presented as mean ± SD of three replicates in qu... | https://api.sourcedata.io/file.php?figure_id=34896 | [
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10.15252/embj.2019103420 | Re-equilibration of imbalanced NAD metabolism ameliorates the impact of telomere dysfunction | 2020 | Figure 3 | <sd-panel> <p><strong>Figure 3. G3 <em>Tert</em><sup>-/-</sup> mice display defects in the NAD metabolism.</strong></p> <p>A, B Intracellular NAD levels and immunoblots of the expression of NAD consuming related proteins and their activities in brain tissues from 6-month- old G1 and G3 <em>Tert<sup>-/-</sup></em> femal... | https://api.sourcedata.io/file.php?figure_id=34897 | [
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10.15252/embj.2019103420 | Re-equilibration of imbalanced NAD metabolism ameliorates the impact of telomere dysfunction | 2020 | Figure 4 | <sd-panel> <p><strong>Figure 4. NAD intervention impacts mitochondrial parameters of DC fibroblasts.</strong></p> <p>A Representative immunoblots of the expression of PGC1-1α in DC cells treated with vehicle or 3 mM NR. Quantification of the indicated proteins is from three immunoblots.</p> <p>B-D Cellular and mitochon... | https://api.sourcedata.io/file.php?figure_id=34898 | [
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10.15252/embj.2019103420 | Re-equilibration of imbalanced NAD metabolism ameliorates the impact of telomere dysfunction | 2020 | Figure 5 | <sd-panel> <p><strong>Figure 5. Impaired mitophagy process in DC fibroblasts is improved by NR supplementation.</strong></p> <ol type="A"> <li> <p>Representative images of mitophagy showing co-localization between the mitophagy dye (red) and the lysosome dye (green) in DC and control fibroblasts treated with vehicle or... | https://api.sourcedata.io/file.php?figure_id=34899 | [
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10.15252/embj.2019103420 | Re-equilibration of imbalanced NAD metabolism ameliorates the impact of telomere dysfunction | 2020 | Figure 6 | <sd-panel> <p><strong>Figure 6. NR supplementation reduces telomeric oxidative DNA lesions and TIF formation in DC cells.</strong></p> <p>A PCR amplification efficiency at the telomere in the mock- and FPG-treated DC and age-matched healthy control fibroblasts supplemented with vehicle or 3 mM NR. All values are presen... | https://api.sourcedata.io/file.php?figure_id=34900 | [
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10.15252/embj.2019103420 | Re-equilibration of imbalanced NAD metabolism ameliorates the impact of telomere dysfunction | 2020 | Figure 7 | <sd-panel> <p><strong>Figure 7. NAD intervention improves the proliferative capacity and suppresses cellular senescence and SASP in DC fibroblasts.</strong></p> <p>A Cumulative population doubling analysis of the proliferation of representative scramble and CD38 knockdown DC fibroblasts or DC fibroblasts treated with v... | https://api.sourcedata.io/file.php?figure_id=34901 | [
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25837623 | 10.1371/journal.pbio.1002114 | Regulation of protein quality control by UBE4B and LSD1 through p53-mediated transcription. | 2015 | Fig 1 |
<title>Identification and characterization of a robust suppressor that ameliorates the locomotion defects in the <italic>C</italic>. <italic>elegans</italic> model of SOD1-associated ALS.</title>
<p>(<bold>A</bold>) Workflow of the suppressor screen identifying mutant <italic>C</italic>. <italic>elegans</italic> (red)... | https://api.sourcedata.io/file.php?figure_id=4336 | [
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"text": "SOD1",
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... | |
25837623 | 10.1371/journal.pbio.1002114 | Regulation of protein quality control by UBE4B and LSD1 through p53-mediated transcription. | 2015 | Fig 2 |
<title>Suppression of neurodegeneration associated with diverse misfolded proteins in invertebrate models by <italic>ufd-2</italic> and <italic>spr-5</italic> loss-of-function mutations.</title>
<p>(<bold>A</bold>) Top: schematic drawing depicts pan-neuronal expression of YFP in head and ventral neurons in the context... | https://api.sourcedata.io/file.php?figure_id=4337 | [
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25837623 | 10.1371/journal.pbio.1002114 | Regulation of protein quality control by UBE4B and LSD1 through p53-mediated transcription. | 2015 | Fig 3 |
<title>UBE4B and LSD1 double-knockdown accelerates SOD1<sup>G85R</sup> protein degradation.</title>
<p>(<bold>A</bold>) Western blots of cell lysates derived from mock (CTRL), single UBE4B or LSD1, or double UBE4B and LSD1 knockdowns. Supernatant (S) and pellet (P) fractions were probed with indicated antibodies. Whil... | https://api.sourcedata.io/file.php?figure_id=4338 | [
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... | |
25837623 | 10.1371/journal.pbio.1002114 | Regulation of protein quality control by UBE4B and LSD1 through p53-mediated transcription. | 2015 | Fig 4 |
<title>UBE4B and LSD1 knockdown activates transcription mediated by p53.</title>
<p>(<bold>A</bold>) Venn diagram of upstream activators (z-score ≥ 2) that are differentially activated in single—UBE4B or LSD1—knockdowns and double UBE4B and LSD1 knockdowns, compared with the control. Activation state of an upstream re... | https://api.sourcedata.io/file.php?figure_id=4339 | [
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25837623 | 10.1371/journal.pbio.1002114 | Regulation of protein quality control by UBE4B and LSD1 through p53-mediated transcription. | 2015 | Fig 5 |
<title>UBE4B and LSD1 double knockdown activates both proteasomes and autophagy.</title>
<p>(<bold>A</bold>) Increased protein levels of proteasome subunits upon the UBE4B and LSD1 double knockdown in HEK293T cells. (<bold>B</bold>) The UBE4B and LSD1 single or double knockdowns increase the proteasomal degradation of... | https://api.sourcedata.io/file.php?figure_id=4340 | [
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... | |
25837623 | 10.1371/journal.pbio.1002114 | Regulation of protein quality control by UBE4B and LSD1 through p53-mediated transcription. | 2015 | Fig 6 |
<title>p53 promotes the clearance of misfolded SOD1 mutant proteins.</title>
<p>(<bold>A</bold>) p53 small molecule activators Tenovin-1 and CP-31398 reduce the levels of misfolded SOD1 proteins, as determined by the SOD1<sup>G85R</sup> solubility assay in HEK293 cells. Increasing concentrations of the p53 activators ... | https://api.sourcedata.io/file.php?figure_id=4341 | [
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... | |
25837623 | 10.1371/journal.pbio.1002114 | Regulation of protein quality control by UBE4B and LSD1 through p53-mediated transcription. | 2015 | Fig 7 |
<title>Enhanced protein quality control by the knockdown of UBE4B and LSD1 depends on p53.</title>
<p>(<bold>A</bold>) Left: p53 knockdown reverses the enhanced clearance of SOD1<sup>G85R</sup> proteins conferred by the UBE4B and LSD1 double knockdown. Total amounts of shRNAs were adjusted to be equal with nontargetin... | https://api.sourcedata.io/file.php?figure_id=4342 | [
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23361001 | 10.1038/ncomms2400 | Selective escape of proteins from the mitochondria during mitophagy | 2013 | f1 | <p>(<b>a</b>) MEFs stably expressing EGFP-<named-entity id="named-entity-451">Parkin</named-entity> were exposed to <named-entity id="named-entity-452">CCCP</named-entity> (30 μM) for the indicated times and then subjected to immunoblot analysis (IB) with antibodies to the indicated proteins. The asterisk indicates a n... | https://api.sourcedata.io/file.php?figure_id=3295 | [
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23361001 | 10.1038/ncomms2400 | Selective escape of proteins from the mitochondria during mitophagy | 2013 | f2 | <p>(<b>a</b>,<b>c</b>) MEFs (<b>a</b>) or HeLa cells (<b>c</b>) stably expressing <named-entity id="named-entity-460">FLAG</named-entity>-<named-entity id="named-entity-461">Parkin</named-entity> and either EGFP-<named-entity id="named-entity-462">VAP-A</named-entity> or HA-<named-entity id="named-entity-463">VAP-A</na... | https://api.sourcedata.io/file.php?figure_id=3296 | [
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23361001 | 10.1038/ncomms2400 | Selective escape of proteins from the mitochondria during mitophagy | 2013 | f3 | <p>(<b>a</b>) MEFs stably expressing EGFP-tagged wild-type (WT) or T240R mutant forms of <named-entity id="named-entity-472">Parkin</named-entity> as well as <named-entity id="named-entity-473">FLAG</named-entity>-tagged <named-entity id="named-entity-474">VAP-A</named-entity> were incubated in the absence or presence ... | https://api.sourcedata.io/file.php?figure_id=3297 | [
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23361001 | 10.1038/ncomms2400 | Selective escape of proteins from the mitochondria during mitophagy | 2013 | f4 | <p>(<b>a</b>) Domain organization of <named-entity id="named-entity-493">FKBP38</named-entity>, <named-entity id="named-entity-494">Omp25</named-entity> and the chimeric proteins <named-entity id="named-entity-495">Omp25</named-entity>/<named-entity id="named-entity-496">FKBP38</named-entity> and <named-entity id="name... | https://api.sourcedata.io/file.php?figure_id=3298 | [
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23361001 | 10.1038/ncomms2400 | Selective escape of proteins from the mitochondria during mitophagy | 2013 | f5 | <p>(<b>a</b>) MEFs stably expressing <named-entity id="named-entity-520">FLAG</named-entity>-<named-entity id="named-entity-521">Parkin</named-entity> and either EGFP-<named-entity id="named-entity-522">Bcl-2</named-entity> or EGFP-<named-entity id="named-entity-523">Bcl-x<sub>L</sub></named-entity> were incubated in t... | https://api.sourcedata.io/file.php?figure_id=3299 | [
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23361001 | 10.1038/ncomms2400 | Selective escape of proteins from the mitochondria during mitophagy | 2013 | f7 | <p>(<b>a</b>) MEFs stably expressing EGFP-<named-entity id="named-entity-537">FKBP38</named-entity>(N402K) and <named-entity id="named-entity-538">FLAG</named-entity>-<named-entity id="named-entity-539">Parkin</named-entity> were incubated in the absence or presence of <named-entity id="named-entity-540">CCCP</named-en... | https://api.sourcedata.io/file.php?figure_id=3301 | [
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23361001 | 10.1038/ncomms2400 | Selective escape of proteins from the mitochondria during mitophagy | 2013 | f8 | <p>(<b>a</b>) Wild-type (<i><named-entity id="named-entity-572">Mfn2</named-entity></i><super>+/+</super>) and <i><named-entity id="named-entity-573">Mfn2</named-entity></i> knockout (<i><named-entity id="named-entity-574">Mfn2</named-entity></i><super>–/–</super>) MEFs stably expressing mCherry-<named-entity id="named... | https://api.sourcedata.io/file.php?figure_id=3302 | [
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30446498 | 10.15252/emmm.201808861 | Rescuing ocular development in an anophthalmic pig by blastocyst complementation | 2018 | Figure 1 | <sd-panel><p><strong>Figure 1. Generation of <sd-pretag id="sdPretag79349800sm" type="geneprod" role="component">E44</sd-pretag> chimeric porcine fetus <em>in vivo</em> by complementation of <em>MITF</em><sup>L247S/L247S</sup> <sd-pretag id="sdPretag2065220650sm" type="organism" role="component">embryos</sd-pretag> w... | https://api.sourcedata.io/file.php?figure_id=23580 | [
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30446498 | 10.15252/emmm.201808861 | Rescuing ocular development in an anophthalmic pig by blastocyst complementation | 2018 | Figure 2 | <sd-panel><p><strong>Figure 2. Allogenic contribution and rescue RPEs in the E44 chimeric fetus.</strong></p><p> (A) Representative microscopic appearances of the <sd-pretag id="sdPretag1413052602sm" type="tissue" role="component">retina</sd-pretag> and <sd-pretag id="sdPretag1017085490sm" type="cell_tissue" role="co... | https://api.sourcedata.io/file.php?figure_id=23582 | [
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30446498 | 10.15252/emmm.201808861 | Rescuing ocular development in an anophthalmic pig by blastocyst complementation | 2018 | Figure 3 | <sd-panel><p><strong>Figure 3. Characterized porcine <sd-pretag id="sdPretag1005027746sm" type="cell" role="component">RPE</sd-pretag> cells derived from E60 chimeric fetus by complementation of Bama <em>MITF</em><sup>L247S/L247S</sup> <sd-pretag id="sdPretag1253736785sm" type="organism" role="component">embryos</sd-... | https://api.sourcedata.io/file.php?figure_id=23584 | [
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30446498 | 10.15252/emmm.201808861 | Rescuing ocular development in an anophthalmic pig by blastocyst complementation | 2018 | Figure 4 | <sd-panel><p><strong>Figure 4. Generation of a full-term chimeric piglet from Bama <em>MITF</em><sup>L247S/L247S</sup> cloned and <sd-pretag id="sdPretag2027047403sm" type="geneprod" role="intervention">Bama</sd-pretag><sd-pretag id="sdPretag1597574091sm" type="geneprod" role="reporter"> GFP</sd-pretag>-labeled clone... | https://api.sourcedata.io/file.php?figure_id=23586 | [
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30446498 | 10.15252/emmm.201808861 | Rescuing ocular development in an anophthalmic pig by blastocyst complementation | 2018 | Figure 5 | <sd-panel><p><strong>Figure 5. The <sd-pretag id="sdPretag899255035sm" type="cell" role="component">RPEs</sd-pretag> and corneal <sd-pretag id="sdPretag2129102321sm" type="cell" role="component">epithelial cells</sd-pretag> are <sd-pretag id="sdPretag1802481748sm" type="geneprod" role="reporter">GFP</sd-pretag>-labe... | https://api.sourcedata.io/file.php?figure_id=23588 | [
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10.1101/2020.01.31.929042 | The novel coronavirus 2019 (2019-nCoV) uses the SARS-coronavirus receptor ACE2 and the cellular protease TMPRSS2 for entry into target cells | 2020 | Fig. 1. | <sd-panel> <p>2019-nCoV-S and SARS-S facilitates entry into a similar panel of mammalian cell lines.Analysis of 2019-nCoV-S expression (A) and pseudotype incorporation (B) by Western blot. Representative blots from three experiments are shown. ß-Actin (cell lysates) and VSV-M (particles) served as loading controls. (C)... | https://api.sourcedata.io/file.php?figure_id=31469 | [
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10.1101/2020.01.31.929042 | The novel coronavirus 2019 (2019-nCoV) uses the SARS-coronavirus receptor ACE2 and the cellular protease TMPRSS2 for entry into target cells | 2020 | Fig. 2. | <sd-panel> <p>2019-nCoV-S utilizes ACE2 as cellular receptor.(A) The S protein of 2019-nCoV clusters phylogenetically with S proteins of known bat-associated betacoronaviruses (see also SI Figure 1 for more details). (B) Alignment of the receptor binding motif of SARS-S with corresponding sequences of bat-associated be... | https://api.sourcedata.io/file.php?figure_id=31470 | [
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10.1101/2020.01.31.929042 | The novel coronavirus 2019 (2019-nCoV) uses the SARS-coronavirus receptor ACE2 and the cellular protease TMPRSS2 for entry into target cells | 2020 | Fig. 3. | <sd-panel> <p>2019-nCoV-S employs TMPRSS2 for S protein priming.Ammonium chloride (A), E64d (CatB/L inhibitor) (B) and/or camostat (TMPRSS2 inhibitor) (B) were added to the indicated target cells before transduction with pseudotypes bearing the indicated glycoproteins. (C) 293T cells transiently expressing ACE2 alone o... | https://api.sourcedata.io/file.php?figure_id=31471 | [
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10.15252/embj.2019103181 | RNA m6A methylation regulates sorafenib-resistance in liver cancer through FOXO3-mediated autophagy | 2020 | Figure 1 | <sd-panel> <p><strong>Figure 1. METTL3 was down-regulated in the sorafenib-resistant HCCs.</strong></p> <p>A Gene enrichments analysis on differentially expressed genes between sorafenib-sensitive and sorafenib-resistant human liver tumors.</p> <p>B Venn diagrams show overlapped genes in signaling pathways response to ... | https://api.sourcedata.io/file.php?figure_id=32446 | [
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10.15252/embj.2019103181 | RNA m6A methylation regulates sorafenib-resistance in liver cancer through FOXO3-mediated autophagy | 2020 | Figure 2 | <sd-panel> <p><strong>Figure 2. Knockdown of METTL3 enhanced sorafenib-resistance in HCC.</strong></p> <p>A-B Clonogenic survival of METTL3-knockdown (A) and METTL3-overexpression (B) in normal liver cell line WRL68 cells for 7 days in normoxia condition (21% O<sub>2</sub>) and quantification of clusters in A-1 and B-1... | https://api.sourcedata.io/file.php?figure_id=32447 | [
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10.15252/embj.2019103181 | RNA m6A methylation regulates sorafenib-resistance in liver cancer through FOXO3-mediated autophagy | 2020 | Figure 3 | <sd-panel> <p><strong>Figure 3. METTL3-dependent sorafenib-resistance in HCC was mediated by promoting autophagy in HCC.</strong></p> <p><strong>A Electron micrographs of METTL3-knockdown SMMC-7721 cells under hypoxia for 48 h.</strong></p> <p><strong>B-D Protein levels of LC3 I/II in</strong> METTL3-knockdown SMMC-772... | https://api.sourcedata.io/file.php?figure_id=32448 | [
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10.15252/embj.2019103181 | RNA m6A methylation regulates sorafenib-resistance in liver cancer through FOXO3-mediated autophagy | 2020 | Figure 4 | <sd-panel> <p><strong>Figure 4. RNA m<sup>6</sup>A-Seq identified FOXO3 as a downstream target of METTL3-mediated m<sup>6</sup>A modification under hypoxia.</strong></p> <p><strong>A Gene Set Enrichment Analysis (GSEA) output images of cellular response to stress pathways displaying a correlation of differentially regu... | https://api.sourcedata.io/file.php?figure_id=32449 | [
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10.15252/embj.2019103181 | RNA m6A methylation regulates sorafenib-resistance in liver cancer through FOXO3-mediated autophagy | 2020 | Figure 5 | <sd-panel> <p><strong>Figure 5. Overexpression of FOXO3 rescued the m<sup>6</sup>A-dependent sorafenib-sensitivity under hypoxia by inhibiting autophagy.</strong></p> <p>A Validation of biomarker genes related to autophagy in FOXO3-knockdown Bel-7402 cells by RT-PCR.</p> <p>B Protein level of FOXO3 in naïve HepG-2 and ... | https://api.sourcedata.io/file.php?figure_id=32450 | [
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10.15252/embj.2019103181 | RNA m6A methylation regulates sorafenib-resistance in liver cancer through FOXO3-mediated autophagy | 2020 | Figure 6 | <sd-panel> <p><strong>Figure 6. METTL3-depletion significantly enhanced sorafenib-resistance via the METTL3/FOXO3 axis <em>in vivo</em>.</strong></p> <p><strong>A Depletion of METTL3 in Hepa1-6 cells by CRISPR-Cas9 knockout enhanced sorafenib-resistance in vivo.</strong></p> <p><strong>B-C Growth curve (B) and tumor we... | https://api.sourcedata.io/file.php?figure_id=32451 | [
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10.15252/embj.2019103181 | RNA m6A methylation regulates sorafenib-resistance in liver cancer through FOXO3-mediated autophagy | 2020 | Figure 7 | <sd-panel> <p><strong>Figure 7. METTL3-depletion significantly enhanced sorafenib-resistance in HCC patient-derived xenografts.</strong></p> <p><strong>A Graphic illustration of two human liver cancer PDXs mouse model based sorafenib (SOR) treatment regimen.</strong></p> <p><strong>B-D <em>In vivo</em> analyses of tumo... | https://api.sourcedata.io/file.php?figure_id=32452 | [
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23925298 | 10.1038/ncomms3267 | The TFEB orthologue HLH-30 regulates autophagy and modulates longevity in Caenorhabditis elegans | 2013 | f1 | <p>(<b>a</b>) Nuclear localization of <named-entity id="named-entity-335">HLH-30</named-entity> was visualized by fluorescence microscopy in day 1 adult wild-type (WT) (upper panel) and <i><named-entity id="named-entity-336">glp-1</named-entity>(e2141)</i> (lower panel) animals expressing <named-entity id="named-entity... | https://api.sourcedata.io/file.php?figure_id=3328 | [
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23925298 | 10.1038/ncomms3267 | The TFEB orthologue HLH-30 regulates autophagy and modulates longevity in Caenorhabditis elegans | 2013 | f2 | <p>(<b>a</b>) Nuclear localization of <named-entity id="named-entity-362">HLH-30</named-entity> was quantified in day 1 adult animals expressing <named-entity id="named-entity-363">HLH-30</named-entity>::GFP. Animals were fed bacteria expressing control or <i><named-entity id="named-entity-364">tor</named-entity></i> d... | https://api.sourcedata.io/file.php?figure_id=3329 | [
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23925298 | 10.1038/ncomms3267 | The TFEB orthologue HLH-30 regulates autophagy and modulates longevity in Caenorhabditis elegans | 2013 | f3 | <p>Lifespan analyses of (<b>a</b>) WT (N2) and (<b>b</b>) germline-less <i><named-entity id="named-entity-373">glp-1</named-entity>(e2141)</i> animals raised at the non-permissive temperature (25 °C) and fed bacteria expressing control or <i><named-entity id="named-entity-374">hlh-30</named-entity></i> dsRNA from day 1... | https://api.sourcedata.io/file.php?figure_id=3330 | [
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23925298 | 10.1038/ncomms3267 | The TFEB orthologue HLH-30 regulates autophagy and modulates longevity in Caenorhabditis elegans | 2013 | f4 | <p>(<b>a</b>) Expression of <i><named-entity id="named-entity-382">hlh-30</named-entity></i> was measured by quantitative PCR (qPCR) in day 1 adult WT (N2), <i><named-entity id="named-entity-383">eat-2</named-entity>(ad1116)</i> (dietary restriction, DR), <i><named-entity id="named-entity-384">daf-2</named-entity>(e137... | https://api.sourcedata.io/file.php?figure_id=3331 | [
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10.15252/embj.2019103629 | Polarized sorting of Patched enables cytoneme-mediated Hedgehog reception in the Drosophila wing disc | 2020 | Figure 1 | <sd-panel> <p><strong>Figure 1. The SNARE proteins Synaptobrevin (Syb) and Synaptotagmin (Syt1) are located at receiving cytonemes.</strong></p> <p><strong>A)</strong> GFP tagged Syb protein expressed in Hh-receiving cells co-localizes with endogenous immuno-labelled Ptc along the apico-basal axis (3D reconstruction). ... | https://api.sourcedata.io/file.php?figure_id=31953 | [
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10.15252/embj.2019103629 | Polarized sorting of Patched enables cytoneme-mediated Hedgehog reception in the Drosophila wing disc | 2020 | Figure 2 | <sd-panel> <p><strong>Figure 2. Polarized Ptc vesicle fusion to basolateral membranes is SNARE complex dependent:</strong></p> <p><strong>A)</strong> Ptc protein distribution in a wing disc (3D reconstitution) under down-regulation of the SNARE proteins Syb and Syt1 in the dorsal compartment (D), keeping the ventral co... | https://api.sourcedata.io/file.php?figure_id=31954 | [
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10.15252/embj.2019103629 | Polarized sorting of Patched enables cytoneme-mediated Hedgehog reception in the Drosophila wing disc | 2020 | Figure 3 | <sd-panel> <p><strong>Figure 3. Patched traffics from the apical to the basal side of the wing disc through Multi Vesicular Bodies</strong>:</p> <p>A) Electron Microscopy imaging of wing discs expressing the UAS-Ptc-GFP construct for 24 hours in receiving cells using Ptc-Gal4; TubGal80<sup>ts</sup>. Left panel shows ar... | https://api.sourcedata.io/file.php?figure_id=31956 | [
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"type": "geneprod",
... | ||
10.15252/embj.2019103629 | Polarized sorting of Patched enables cytoneme-mediated Hedgehog reception in the Drosophila wing disc | 2020 | Figure 4 | <sd-panel> <p><strong>Figure 4. Basal polarization of the Ptc receptor through MVB requires the ESCRT complex:</strong></p> <p><strong>A)</strong> 3D reconstructions of immuno-labelled endogenous Ptc of wing discs in wild type condition and after RNAi expression for different ESCRT complex components. All RNAis' expres... | https://api.sourcedata.io/file.php?figure_id=31958 | [
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10.15252/embj.2019103629 | Polarized sorting of Patched enables cytoneme-mediated Hedgehog reception in the Drosophila wing disc | 2020 | Figure 5 | <sd-panel> <p><strong>Figure 5. Ptc basal vesicles are enriched with extracellular vesicle markers:</strong></p> <p><strong>A)</strong> Confocal image of wing disc expressing the human tetraspanin CD63-GFP expressed in the Hh receiving cells colocalizing with Ptc (Bac.Ptc-cherry) in vesicle-like structures (yellow arro... | https://api.sourcedata.io/file.php?figure_id=31960 | [
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"unipr... | ||
10.15252/embj.2019103629 | Polarized sorting of Patched enables cytoneme-mediated Hedgehog reception in the Drosophila wing disc | 2020 | Figure 6 | <sd-panel> <p><strong>Figure 6. Excess of HA tagged Tsp96F blocks Ptc MVBs polarized exocytosis: A)</strong> 3D reconstruction of wing disc immuno-labelled for endogenous Ptc and dorsally over-expressing the Tsp96F-HA construct, keeping the ventral side of the disc in wild type condition as internal control. Note the d... | https://api.sourcedata.io/file.php?figure_id=31962 | [
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... | ||
10.15252/embj.2019103629 | Polarized sorting of Patched enables cytoneme-mediated Hedgehog reception in the Drosophila wing disc | 2020 | Figure 7 | <sd-panel> <p><strong>Figure 7. Ptc is secreted in extracellular vesicles from wing disc cultured cells: A)</strong> Ptc is mainly secreted in small EVs (P100K) from Cl8 cells.</p> <p><strong>B)</strong> Large EVs (lEVs), small EVs (sEVs) and very small EVs (vsEVs) were analysed in triplicate by Western blotting. Note ... | https://api.sourcedata.io/file.php?figure_id=31963 | [
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... | ||
10.15252/embj.2019103629 | Polarized sorting of Patched enables cytoneme-mediated Hedgehog reception in the Drosophila wing disc | 2020 | Figure 8 | <sd-panel> <p><strong>Figure 8. ESCRT machinery and SNARE-mediated exocytosis are required for Ptc exposure at basal membrane:</strong></p> <p><strong>A)</strong> Projection images of three confocal sections (1 μm) at the basal side of wing discs expressing the Bac constructs for Hh-GFP and Ptc-cherry, used to analyse ... | https://api.sourcedata.io/file.php?figure_id=31964 | [
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10.15252/embj.2019103629 | Polarized sorting of Patched enables cytoneme-mediated Hedgehog reception in the Drosophila wing disc | 2020 | Figure 9 | <sd-panel> <p><strong>Figure 9. Hindering traffic and basal exocytosis of Ptc results in flattening of the Hh signalling gradient:</strong></p> <p><strong>A)</strong> Confocal images at the lateral plane showing the immunostaining of the medium threshold Hh target Collier (Col) of wild type wing discs and discs after i... | https://api.sourcedata.io/file.php?figure_id=31965 | [
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25515659 | 10.15252/embj.201489279 | Spontaneous development of hepatocellular carcinoma with cancer stem cell properties in PR-SET7-deficient livers. | 2015 | Figure 1 | <p>PR-SET7 is required for proper liver organogenesis during embryonic development
<list list-type="simple"><list-item><p>A
Representative pictures of embryos at 18.5 days postcoitum (E18.5) and hematoxylin and eosin staining of whole-mount embryo sections from <italic>PR-SET7</italic><sup><italic>loxp</italic></sup>/... | https://api.sourcedata.io/file.php?figure_id=7604 | [
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"ext_tax_names": "Mus musculus",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "67956",
"original_type": "gene",
"role": "intervention",
"text": "PR-SET7",
"type": "geneprod... | |
25515659 | 10.15252/embj.201489279 | Spontaneous development of hepatocellular carcinoma with cancer stem cell properties in PR-SET7-deficient livers. | 2015 | Figure 2 | <p>Postnatal inactivation of PR-SET7 in hepatocytes leads to cell death
<list list-type="simple"><list-item><p>A
Macroscopic appearance of livers in 120-day-old (P120) wild-type (WT) and <italic>PR-SET7</italic><sup><italic>loxp</italic></sup>/<italic>Alb-Cre</italic> (KO) mice. Note, small adenomatous foci in KO live... | https://api.sourcedata.io/file.php?figure_id=7605 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "67956",
"ext_tax_ids": "10090",
"ext_tax_names": "Mus musculus",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "67956",
"original_type": "gene",
"role": "intervention",
"text": "PR-SET7",
"type": "geneprod... | |
25515659 | 10.15252/embj.201489279 | Spontaneous development of hepatocellular carcinoma with cancer stem cell properties in PR-SET7-deficient livers. | 2015 | Figure 3 | <p>PR-SET7-deficient hepatocytes die via necrosis in a cell division-dependent manner
<list list-type="simple"><list-item><p>A
Electronmicroscopic images of cells containing enlarged nuclei in P120 <italic>PR-SET7</italic><sup><italic>ΔHepA</italic></sup> livers and normal hepatocytes in control littermates (WT). Whit... | https://api.sourcedata.io/file.php?figure_id=7606 | [
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"ext_tax_names": "Mus musculus",
"mapping_source": "ncbi_gene",
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"ncbi_gene_id": "67956",
"original_type": "gene",
"role": "intervention",
"text": "PR-SET7",
"type": "geneprod... | |
25515659 | 10.15252/embj.201489279 | Spontaneous development of hepatocellular carcinoma with cancer stem cell properties in PR-SET7-deficient livers. | 2015 | Figure 4 | <p>Compensatory proliferation of neighboring hepatocytes and ductal progenitor cells in FGF7 signal-containing microenvironment
<list list-type="simple"><list-item><p>A, B
Immunohistological staining of liver sections from P120 <italic>PR-SET7</italic><sup><italic>ΔHepA</italic></sup> mice and control littermates (WT)... | https://api.sourcedata.io/file.php?figure_id=7607 | [
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"ext_tax_names": "Mus musculus",
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"original_type": "gene",
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"text": "PR-SET7",
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25515659 | 10.15252/embj.201489279 | Spontaneous development of hepatocellular carcinoma with cancer stem cell properties in PR-SET7-deficient livers. | 2015 | Figure 5 |
<p>ROS accumulation, STAT3 activation and late-onset spontaneous development of hepatocellular carcinoma in <italic>PR-SET7</italic><sup><italic>ΔHepA</italic></sup> mice
<list list-type="simple"><list-item><p>A
Analysis of reactive oxygen species (ROS) accumulation in frozen liver sections from 120-day-old (P120) an... | https://api.sourcedata.io/file.php?figure_id=7608 | [
{
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25515659 | 10.15252/embj.201489279 | Spontaneous development of hepatocellular carcinoma with cancer stem cell properties in PR-SET7-deficient livers. | 2015 | Figure 6 | <p>Hepatocellular carcinoma in P240 PR-SET7-deficient mice is composed of cells expressing hepatic progenitor cell markers
<list list-type="simple"><list-item><p>A, B
Immunohistological staining of liver sections from P240 <italic>PR-SET7</italic><sup><italic>ΔHepA</italic></sup> mice and control littermates (WT) with... | https://api.sourcedata.io/file.php?figure_id=7609 | [
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"text": "PR-SET7",
"type": "geneprod... | |
25515659 | 10.15252/embj.201489279 | Spontaneous development of hepatocellular carcinoma with cancer stem cell properties in PR-SET7-deficient livers. | 2015 | Figure 7 | <p>Quantitative assessment and xenograft tumor formation potential of progenitor-derived carcinoma cells
<list list-type="simple"><list-item><p>A
P240 <italic>PR-SET7</italic><sup><italic>ΔHepA</italic></sup> liver sections were double-stained with A6 and Sox9 (upper panel) or CD133 and Sox9 (lower panel). Pie charts ... | https://api.sourcedata.io/file.php?figure_id=7610 | [
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"original_type": "protein",
"role": "assayed",
"text": "CD133",
"type": "geneprod",
"uni... | |
10.15252/embj.2020106188 | TPL-2 kinase induces phagosome acidification to promote macrophage killing of bacteria | 2021 | Figure 1 | <p><strong>Figure 1 - <em>Tpl2</em>[D270A] mutation impairs phagosome maturation</strong></p><p><strong>A.</strong> Phagocytic uptake of fluorescently-labelled latex beads by WT and <em>Tpl2</em>[D270A] (<em>Tpl2</em><sup>D270/D270A</sup>) BMDMs. Intracellular fluorescence was monitored following uptake of AF488 latex ... | https://api.sourcedata.io/file.php?figure_id=39646 | [
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"text": "Tpl2",
"type": "geneprod",
... | ||
10.15252/embj.2020106188 | TPL-2 kinase induces phagosome acidification to promote macrophage killing of bacteria | 2021 | Figure 2 | <p><strong>Figure 2 - <em>Tpl2</em>[D270A] mutation promotes phagosome maturation independently of MAP kinase activation</strong></p><p><strong>A-F.</strong> Experiments were performed using murine BMDMs. <strong>(A)</strong> Intra-phagosomal proteolysis in WT, <em>Nfkb1</em>[SSAA] (<em>Nfkb1</em><sup>SSAA/SSAA</sup>) ... | https://api.sourcedata.io/file.php?figure_id=39647 | [
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... | ||
10.15252/embj.2020106188 | TPL-2 kinase induces phagosome acidification to promote macrophage killing of bacteria | 2021 | Figure 3 | <p><strong>Figure 3 - <em>Tpl2</em>[D270A] mutation alters the protein composition of phagosomes</strong></p><p>WT and <em>Tpl2</em>[D270A] BMDMs were incubated with latex beads for 0.5h. Latex bead phagosomes were purified from <em>Tpl2</em>[D270A] and WT BMDMs and analysed by mass spectrometry. Biological triplicates... | https://api.sourcedata.io/file.php?figure_id=39649 | [
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... | ||
10.15252/embj.2020106188 | TPL-2 kinase induces phagosome acidification to promote macrophage killing of bacteria | 2021 | Figure 4 | <p><strong>Figure 4 - TPL-2 induces phosphorylation of DMXL1, a V-ATPase regulatory protein</strong></p><p><strong>A.</strong> TPL-2-dependent phosphoproteome following phagocytosis of latex beads (0.5 h) was determined by TMT mass spectrometry. Volcano plot representing the significance (-log<sub>10</sub> P-values aft... | https://api.sourcedata.io/file.php?figure_id=39651 | [
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... | ||
10.15252/embj.2020106188 | TPL-2 kinase induces phagosome acidification to promote macrophage killing of bacteria | 2021 | Figure 5 | <p><strong>Figure 5 - <em>Tpl2</em>[D270A] mutation impairs maturation of <em>Staphylococcus aureus</em> phagosomes</strong></p><p><strong>A-K.</strong> BMDMs of the indicated genotypes were infected with YFP-<em>S. aureus</em> (MOI 10) for 1 h. <strong>(A)</strong> Phagocytic uptake (CFU) of YFP-labelled <em>S. aureus... | https://api.sourcedata.io/file.php?figure_id=39652 | [
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"text": "cathepsin L",
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... | ||
26582768 | 10.15252/embr.201540476 | Abo1, a conserved bromodomain AAA-ATPase, maintains global nucleosome occupancy and organization | 2015 | Figure 1 | <p><strong>Figure 1. Impact of Abo1 on transcriptome signatures. </strong></p>
<p><strong>A</strong> Domain architecture of <em>S. pombe </em>bromodomain AAA-ATPases. The D1 and D2 ATPase domains (AAA) are shaded blue and orange, respectively, and the bromodomain (BD) is grey. The percentage similarity to each other an... | https://api.sourcedata.io/file.php?figure_id=5150 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "2543084",
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"ncbi_gene_id": "2543084",
"original_type": "gene",
"role": "intervention",
"text": "abo1",... | |
26582768 | 10.15252/embr.201540476 | Abo1, a conserved bromodomain AAA-ATPase, maintains global nucleosome occupancy and organization | 2015 | Figure 2 | <p><strong>Figure 2. Deletion of </strong><strong><em>abo1</em></strong><strong><em><sup>+</sup></em></strong><strong> results in the perturbation of nucleosomal organization at coding sequences. </strong></p>
<p><strong>A</strong> Normalised cumulative nucleosome (150 ± 30 bp size class) position frequency profiles fo... | https://api.sourcedata.io/file.php?figure_id=5151 | [
{
"ext_dbs": "NCBI gene",
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"ncbi_gene_id": "2543084",
"original_type": "gene",
"role": "intervention",
"text": "abo1",... | |
26582768 | 10.15252/embr.201540476 | Abo1, a conserved bromodomain AAA-ATPase, maintains global nucleosome occupancy and organization | 2015 | Figure 3 | <p><strong>Figure 3. Abo1</strong> <strong>associates</strong><strong> with FACT and</strong> <strong>suppresses</strong><strong> cryptic transcription. </strong></p>
<p><strong>A</strong> Whole cell extracts (WCE) were prepared from the indicated strains, immunoprecipitated (IP) with anti-GFP antibody and subjected to... | https://api.sourcedata.io/file.php?figure_id=5152 | [
{
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"original_type": "gene",
"role": "intervention",
"text": "abo1",... | |
26582768 | 10.15252/embr.201540476 | Abo1, a conserved bromodomain AAA-ATPase, maintains global nucleosome occupancy and organization | 2015 | Figure 4 | <p><strong>Figure 4. Abo1 is required for heterochromatic silencing. </strong></p>
<p><strong>A</strong> The position of <em>ura4</em><em><sup>+</sup></em> reporter alleles in centromere 1 is shown in the top panel. Strains containing the <em>imr::ura4</em><em><sup>+</sup></em> allele were grown to log phase in YE5S me... | https://api.sourcedata.io/file.php?figure_id=5153 | [
{
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"original_type": "gene",
"role": "assayed",
"text": "tlh1",
"... | |
26582768 | 10.15252/embr.201540476 | Abo1, a conserved bromodomain AAA-ATPase, maintains global nucleosome occupancy and organization | 2015 | Figure 5 | <p><strong>Figure 5. Deletion of </strong><strong><em>abo1</em></strong><strong><em><sup>+</sup></em></strong><strong> perturbs centromeric heterochromatin. </strong></p>
<p><strong>A</strong> ChIP analysis was performed on wild type (untagged) and <em>abo1-GFP</em> cells and the resulting DNA analysed by qPCR for cent... | https://api.sourcedata.io/file.php?figure_id=5154 | [
{
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"original_type": "gene",
"role": "intervention",
"text": "abo1",... | |
26582768 | 10.15252/embr.201540476 | Abo1, a conserved bromodomain AAA-ATPase, maintains global nucleosome occupancy and organization | 2015 | Figure 6 | <p><strong>Figure 6. Abo1 represses LTR retrotransposons. </strong></p>
<p><strong>A</strong> RNA was extracted from mid log phase cells and <em>Tf2 </em>mRNA levels were determined by qRT-PCR, normalised to <em>act1</em><sup>+</sup> mRNA and scaled relative to the wild type level. Data are the mean of three independen... | https://api.sourcedata.io/file.php?figure_id=5155 | [
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"text": "abo1",... | |
10.15252/embj.2022111084 | Enzyme-substrate interface targeting by imidazole-based γ-secretase modulators activates γ-secretase and stabilizes its interaction with APP | 2022 | Figure 2 | <sd-panel><p><strong>Figure 2. Ala/Phe mutagenic scanning demonstrates the involvement of the investigated pocket in the regulation of <sd-pretag id="sdPretag1624744959sm" type="geneprod" role="assayed">GSEC</sd-pretag> processivity</strong></p> <p><strong>(A) The graphs depict the <sd-pretag id="sdPretag1890188897sm"... | https://api.sourcedata.io/file.php?figure_id=49473 | [
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... | ||
10.15252/embj.2022111084 | Enzyme-substrate interface targeting by imidazole-based γ-secretase modulators activates γ-secretase and stabilizes its interaction with APP | 2022 | Figure 3 | <sd-panel><p><strong>Figure 3. The investigated pocket plays a key role in GSM III-driven modulation</strong></p> <p><strong>(A)</strong> Aβ profiles generated by WT or mutant PSEN1 MEFs lines treated with 1 µM GSM III. The chemical structure of the bicyclic heterocycle GSM III is depicted. Data are presented as mean ±... | https://api.sourcedata.io/file.php?figure_id=49474 | [
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... | ||
10.15252/embj.2022111084 | Enzyme-substrate interface targeting by imidazole-based γ-secretase modulators activates γ-secretase and stabilizes its interaction with APP | 2022 | Figure 4 | <sd-panel><p><strong>Figure 4. <em>In silico</em> and experimental data propose a binding mode for <sd-pretag id="sdPretag1330560298sm" type="small" role="assayed">imidazole</sd-pretag>-based GSM III</strong></p> <p><strong>(A)</strong> <sd-pretag id="sdPretag1059993503sm" type="geneprod" role="assayed">GSEC</sd-pret... | https://api.sourcedata.io/file.php?figure_id=49475 | [
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... | ||
10.15252/embj.2022111084 | Enzyme-substrate interface targeting by imidazole-based γ-secretase modulators activates γ-secretase and stabilizes its interaction with APP | 2022 | Figure 5 | <sd-panel><p><strong>Figure 5. Experimental and <em>in silico</em> analyses implicate GSEC and APP in drug-target interactions</strong></p> <p><strong>(A-C) (A)</strong> Aβ profiles generated by WT and indicated mutant MEF lines in the presence of vehicle (0.1% DMSO), 1 µM GSM III or (<strong>C</strong>) 1 µM GSM II. D... | https://api.sourcedata.io/file.php?figure_id=49476 | [
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"ext_tax_names": "Homo sapiens",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "351",
"original_type": "gene",
"role": "intervention",
"text": "APP",
"type": "geneprod",
"u... | ||
10.15252/embj.2022111084 | Enzyme-substrate interface targeting by imidazole-based γ-secretase modulators activates γ-secretase and stabilizes its interaction with APP | 2022 | Figure 6 | <sd-panel><p><strong>Figure 6. The pocket filling PSEN 1-V236W mutation mimics key GSM-<sd-pretag id="sdPretag211674711sm" category="assay">GSEC</sd-pretag> interactions and allosterically activates GSEC</strong></p> <p><strong>(A)</strong> <em>In silico</em> data shows that the Trp236 side chain mimics the interactio... | https://api.sourcedata.io/file.php?figure_id=49477 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "5663",
"ext_tax_ids": "9606",
"ext_tax_names": "Homo sapiens",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "5663",
"original_type": "gene",
"role": "intervention",
"text": "PSEN1",
"type": "geneprod",
... | ||
27638855 | 10.15252/embj.201593454 | Evi1 regulates Notch activation to induce zebrafish hematopoietic stem cell emergence | 2016 | Figure 1 | <p><strong>Figure 1</strong><strong>.</strong> <strong><em>evi1 </em></strong><strong>is </strong><strong>expressed in emerging HSPCs and critically regulates definitive hematopoiesis.</strong></p>
<p><strong>A.</strong> Whole mount <em>in situ </em>hybridization (WISH) of <em>evi1 </em>at 20 (left) and 32 (middle) hpf... | https://api.sourcedata.io/file.php?figure_id=9923 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "796537",
"ext_tax_ids": "7955",
"ext_tax_names": "Danio rerio",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "796537",
"original_type": "gene",
"role": "assayed",
"text": "flk1",
"type": "geneprod",
"... | |
27638855 | 10.15252/embj.201593454 | Evi1 regulates Notch activation to induce zebrafish hematopoietic stem cell emergence | 2016 | Figure 2 | <p><strong>Figure</strong><strong> 2</strong><strong>.</strong> <strong>Endothelial Notch signaling is dependent on </strong><strong><em>evi1 </em></strong><strong>expression levels</strong></p>
<p><strong>A</strong><strong>. </strong>WISH of <em>notch1b </em>(upper) and <em>dll4 </em>(lower) in both control (left) and... | https://api.sourcedata.io/file.php?figure_id=9924 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "563920",
"ext_tax_ids": "7955",
"ext_tax_names": "Danio rerio",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "563920",
"original_type": "gene",
"role": "assayed",
"text": "dll4",
"type": "geneprod",
"... | |
27638855 | 10.15252/embj.201593454 | Evi1 regulates Notch activation to induce zebrafish hematopoietic stem cell emergence | 2016 | Figure 3 | <p><strong>Figure </strong><strong>3</strong><strong>.</strong> <strong><em>evi1 </em></strong><strong>regulates HSC emergence from the </strong><strong>V</strong><strong>DA. </strong></p>
<p><strong>A.</strong> Confocal time-lapse live imaging was performed in Tg(<em>c</em><em>-</em><em>myb:GFP;kdrl:mKate-CAAX) </em>e... | https://api.sourcedata.io/file.php?figure_id=9925 | [
{
"ext_dbs": "Uniprot",
"ext_ids": "Q8AXB3",
"ext_tax_ids": "7955",
"ext_tax_names": "Danio rerio",
"mapping_source": "direct",
"mapping_status": "mapped",
"ncbi_gene_id": null,
"original_type": "protein",
"role": "assayed",
"text": "kdrl",
"type": "geneprod",
"unipro... | |
27638855 | 10.15252/embj.201593454 | Evi1 regulates Notch activation to induce zebrafish hematopoietic stem cell emergence | 2016 | Figure 4 | <p><strong>Figure </strong><strong>4</strong><strong>.</strong><strong> Global and tissue-specific activation of Notch</strong> <strong>or</strong> <strong>upstream </strong><strong>Vegf</strong><strong> signaling is sufficient to rescue HSPCs in </strong><strong><em>evi1</em></strong><strong> morphants.</strong></p>
<... | https://api.sourcedata.io/file.php?figure_id=9926 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "30480",
"ext_tax_ids": "7955",
"ext_tax_names": "Danio rerio",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "30480",
"original_type": "gene",
"role": "intervention",
"text": "gata2",
"type": "geneprod",
... | |
27638855 | 10.15252/embj.201593454 | Evi1 regulates Notch activation to induce zebrafish hematopoietic stem cell emergence | 2016 | Figure 5 | <p><strong>Figure 5.</strong> <strong>Endothelial </strong><strong>NICD</strong> <strong>induction </strong><strong>rescues HSC </strong><strong>emergence</strong><strong> from the VDA</strong></p>
<p><strong>A.</strong> Confocal time-lapse live imaging was performed in Tg(<em>c-myb:GFP;</em><em>fli.1:UAS;Gal4:RFP</em>... | https://api.sourcedata.io/file.php?figure_id=9927 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "30619",
"ext_tax_ids": "",
"ext_tax_names": "",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "30619",
"original_type": "gene",
"role": "intervention",
"text": "fli.1",
"type": "geneprod",
"uniprot_ids... | |
27638855 | 10.15252/embj.201593454 | Evi1 regulates Notch activation to induce zebrafish hematopoietic stem cell emergence | 2016 | Figure 6 | <p><strong>Figure 6.</strong> <strong><em>evi1 </em></strong><strong>regulates Notch independent</strong><strong>ly</strong><strong> of the Vegf pathway</strong><strong> and can compensate for Vegf inhibition</strong></p>
<p><strong>A</strong><strong>.</strong> WISH of <em>dll4 </em>(upper) and <em>notch1b </em>(lower)... | https://api.sourcedata.io/file.php?figure_id=9928 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "563920",
"ext_tax_ids": "7955",
"ext_tax_names": "Danio rerio",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "563920",
"original_type": "gene",
"role": "assayed",
"text": "dll4",
"type": "geneprod",
"... | |
27638855 | 10.15252/embj.201593454 | Evi1 regulates Notch activation to induce zebrafish hematopoietic stem cell emergence | 2016 | Figure 7 | <p><strong>Figure </strong><strong>7</strong><strong>.</strong> <strong><em>evi1 </em></strong><strong>regulates Notch </strong><strong>signaling </strong><strong>via pAKT</strong><strong>.</strong></p>
<p><strong>A.</strong> Expression of <em>runx1/c-myb</em> in the VDA after treatment with DMSO vehicle control (left)... | https://api.sourcedata.io/file.php?figure_id=9929 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "30519",
"ext_tax_ids": "7955",
"ext_tax_names": "Danio rerio",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "30519",
"original_type": "gene",
"role": "assayed",
"text": "c-myb",
"type": "geneprod",
"u... | |
10.15252/embj.2021107826 | SARS-CoV-2 sensing by RIG-I and MDA5 links epithelial infection to macrophage inflammation | 2021 | Figure 1 | <p><strong>Figure 1.SARS-CoV-2 activates delayed innate immune responses in lung epithelial cells (A-H) Measurements of replication and innate immune induction in Calu-3 lung epithelial cells infected with SARS-CoV-2 at MOIs 0.08, 0.4 and 2 TCID50<sub>VERO</sub>/cell. (A) Replication of SARS-CoV-2 genomic and subgenomi... | https://api.sourcedata.io/file.php?figure_id=41245 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "43740570",
"ext_tax_ids": "2697049",
"ext_tax_names": "Severe acute respiratory syndrome coronavirus 2",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "43740570",
"original_type": "gene",
"role": "assayed",
"t... | ||
10.15252/embj.2021107826 | SARS-CoV-2 sensing by RIG-I and MDA5 links epithelial infection to macrophage inflammation | 2021 | Figure 2 | <p><strong>Figure 2. Peak SARS-CoV-2 replication precedes innate immune activation. (A-I) (A,C) Representative images of</strong> NF-κB <strong>p65 (A) (red) and IRF3 (C) (red) nuclear localisation in mock or SARS-CoV-2 infected (MOI 0.4 TCID50<sub>VERO</sub>/cell) Calu-3 cells at 24 hpi. SARS-CoV-2 N protein (green. (... | https://api.sourcedata.io/file.php?figure_id=41247 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "3434",
"ext_tax_ids": "9606",
"ext_tax_names": "Homo sapiens",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "3434",
"original_type": "gene",
"role": "assayed",
"text": "IFIT1",
"type": "geneprod",
"un... | ||
10.15252/embj.2021107826 | SARS-CoV-2 sensing by RIG-I and MDA5 links epithelial infection to macrophage inflammation | 2021 | Figure 3 | <p><strong>Figure 3. SARS-CoV-2 is sensed by MDA5 and RIG-I. (A-D) Measurement of (A) viral genomic and subgenomic E RNA at 24 hpi, (B) fold induction of CXCL10 from (A), (C) IFIT2 and (D) IL-6 mRNA (qRT-PCR) from (A) after Remdesivir treatment (0.125-5 μM) of SARS-CoV-2 infected Calu-3 cells (MOI 0.04 TCID50/cell) wit... | https://api.sourcedata.io/file.php?figure_id=41249 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "3627",
"ext_tax_ids": "9606",
"ext_tax_names": "Homo sapiens",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "3627",
"original_type": "gene",
"role": "assayed",
"text": "CXCL10",
"type": "geneprod",
"u... | ||
10.15252/embj.2021107826 | SARS-CoV-2 sensing by RIG-I and MDA5 links epithelial infection to macrophage inflammation | 2021 | Figure 4 | <p><strong>Figure 4. NF-κB and JAK/STAT signalling drive innate immune responses. (A-C) Fold induction at 24 hpi of (A) CXCL10, (B) IFIT1 or (C) IL-6 mRNA (qRT-PCR) after Calu-3 infection with SARS-CoV-2 over a range of MOIs (0.004, 0.04, 0.4 TCID50<sub>VERO</sub>/cell) in the presence of 10 μM TPCA-1 or DMSO as shown.... | https://api.sourcedata.io/file.php?figure_id=41251 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "43740570",
"ext_tax_ids": "2697049",
"ext_tax_names": "Severe acute respiratory syndrome coronavirus 2",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "43740570",
"original_type": "gene",
"role": "assayed",
"t... | ||
10.15252/embj.2021107826 | SARS-CoV-2 sensing by RIG-I and MDA5 links epithelial infection to macrophage inflammation | 2021 | Figure 5 | <p><strong>Figure 5. Epithelial responses to SARS-CoV-2 drive macrophage activation (A) Schematic of experimental design. (B-J) Calu-3 cells were transfected with siRNA targeting MAVS or non-targeting control (siCtrl) (B-D) or treated with DMSO vehicle or inhibitors 10 μM TPCA-1 (E-G) or 2 μM Ruxolitinib (Rux) (H-J) as... | https://api.sourcedata.io/file.php?figure_id=41253 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "57506",
"ext_tax_ids": "9606",
"ext_tax_names": "Homo sapiens",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "57506",
"original_type": "gene",
"role": "intervention",
"text": "MAVS",
"type": "geneprod",
... | ||
10.15252/embj.2021107826 | SARS-CoV-2 sensing by RIG-I and MDA5 links epithelial infection to macrophage inflammation | 2021 | Figure 6 | <p><strong>Figure 6. Pre-existing immune activation exacerbates SARS-CoV-2-dependent inflammation. (A) Schematic of experimental design. (B-H) MDM were primed with 100ng/ml LPS for 2h before exposure to SARS-CoV-2 (MOI 0.02 TCID50<sub>VERO</sub>/cell). (B) Expression of genomic and subgenomic viral E RNA at 48 h post e... | https://api.sourcedata.io/file.php?figure_id=41255 | [
{
"ext_dbs": "Uniprot",
"ext_ids": "P01584",
"ext_tax_ids": "9606",
"ext_tax_names": "Homo sapiens",
"mapping_source": "direct",
"mapping_status": "mapped",
"ncbi_gene_id": null,
"original_type": "protein",
"role": "intervention",
"text": "IL-1b",
"type": "geneprod",
... | ||
27113762 | 10.15252/embr.201541643 | SIRT5 promotes IDH2 desuccinylation and G6PD deglutarylation to enhance cellular antioxidant defense | 2016 | Figure 1 | <p><strong>Figure 1. Sirt5 protects cells from oxidative stress. </strong></p><p><strong>(A</strong>) <em>Sirt5</em> deficiency leads to higher ROS levels in MEFs. ROS levels were determined in the indicated MEFs as described in ‘Materials and Methods’. The results are average ± SD of 3 independent experiments **p<0.01... | https://api.sourcedata.io/file.php?figure_id=7260 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "68346",
"ext_tax_ids": "10090",
"ext_tax_names": "Mus musculus",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "68346",
"original_type": "gene",
"role": "intervention",
"text": "Sirt5",
"type": "geneprod",... | |
27113762 | 10.15252/embr.201541643 | SIRT5 promotes IDH2 desuccinylation and G6PD deglutarylation to enhance cellular antioxidant defense | 2016 | Figure 2 | <p><strong>Figure 2. SIRT5 preserves cellular antioxidant capacity partially through activating NADPH-producing G6PD and IDH2</strong></p>
<p><strong>(A)</strong>Knockdown of <em>SIRT5</em> inhibits NADPH production in HEK293T cells. The ratio of [NADPH/NADP<sup>+</sup>] was determined in cell extracts as described in ... | https://api.sourcedata.io/file.php?figure_id=7261 | [
{
"ext_dbs": "NCBI gene",
"ext_ids": "23408",
"ext_tax_ids": "9606",
"ext_tax_names": "Homo sapiens",
"mapping_source": "ncbi_gene",
"mapping_status": "mapped",
"ncbi_gene_id": "23408",
"original_type": "gene",
"role": "intervention",
"text": "SIRT5",
"type": "geneprod",
... | |
27113762 | 10.15252/embr.201541643 | SIRT5 promotes IDH2 desuccinylation and G6PD deglutarylation to enhance cellular antioxidant defense | 2016 | Figure 3 | <p><strong>Figure </strong><strong>3. SIRT5 promotes IDH2 </strong><strong>desuccinylation</strong><strong> and G6PD </strong><strong>deglutarylation</strong><strong> to activate these two enzymes and maintain NADPH homeostasis </strong></p>
<p><strong>(A) </strong>G6PD activity is not regulated by lysine succinylation... | https://api.sourcedata.io/file.php?figure_id=7262 | [
{
"ext_dbs": "Uniprot",
"ext_ids": "P11413",
"ext_tax_ids": "9606",
"ext_tax_names": "Homo sapiens",
"mapping_source": "direct",
"mapping_status": "mapped",
"ncbi_gene_id": null,
"original_type": "protein",
"role": "assayed",
"text": "G6PD",
"type": "geneprod",
"unipr... |
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