Journal: Data in Brief

Article Title: Gene datasets associated with mouse cleft palate

doi: 10.1016/j.dib.2018.03.010

Figure Lengend Snippet: KEGG pathways enriched with a statistically significant number of genes involved in cleft palate.

Article Snippet: Regulation of actin cytoskeleton , Fgf8 Fgfr1 Itgb1 Egfr Itgb6 Pdgfc Sos1 Fgf18 Crk Itgav Fgf10 Rac1 Pdgfrb Fgf9.

Techniques:

Journal: Data in Brief

Article Title: Gene datasets associated with mouse cleft palate

doi: 10.1016/j.dib.2018.03.010

Figure Lengend Snippet: GO biological process terms enriched with a statistically significant number of genes involved in cleft palate.

Article Snippet: Regulation of actin cytoskeleton , Fgf8 Fgfr1 Itgb1 Egfr Itgb6 Pdgfc Sos1 Fgf18 Crk Itgav Fgf10 Rac1 Pdgfrb Fgf9.

Techniques: Cell Differentiation

Journal: Data in Brief

Article Title: Gene datasets associated with mouse cleft palate

doi: 10.1016/j.dib.2018.03.010

Figure Lengend Snippet: GO Molecular Function terms enriched with a statistically significant number of genes involved in cleft palate.

Article Snippet: Regulation of actin cytoskeleton , Fgf8 Fgfr1 Itgb1 Egfr Itgb6 Pdgfc Sos1 Fgf18 Crk Itgav Fgf10 Rac1 Pdgfrb Fgf9.

Techniques: Binding Assay, Protein Binding, Activity Assay, Sequencing

Journal: Data in Brief

Article Title: Gene datasets associated with mouse cleft palate

doi: 10.1016/j.dib.2018.03.010

Figure Lengend Snippet: GO cellular component terms enriched with a statistically significant number of genes involved in cleft palate.

Article Snippet: Regulation of actin cytoskeleton , Fgf8 Fgfr1 Itgb1 Egfr Itgb6 Pdgfc Sos1 Fgf18 Crk Itgav Fgf10 Rac1 Pdgfrb Fgf9.

Techniques:

Journal: Science signaling

Article Title: A computationally identified compound antagonizes excess FGF-23 signaling in renal tubules and a mouse model of hypophosphatemia.

doi: 10.1126/scisignal.aaf5034

Figure Lengend Snippet: Fig. 7. Target engagement assays of the FGF-23 antagonist (Zinc13407541) and the FGF-23 protein. (A) Immunoprecipitation (IP) and immunoblotted (IB) blots are representative of three experiments from cotransfected HEK293T cell lysates. (B and C) Quantification of a-KL and FGFR1 abundance relative to the amount of FGF-23. (D) Protein thermal shift assay in a real-time polymerase chain reaction (PCR) reaction containing fluorescent SYPRO Orange and FGF-23 protein with Zinc13407541 or DMSO control. Data are means ± SD from three independent experiments (n = 3). **P < 0.01, ***P < 0.001; n.s., not significant; one-way ANOVA with Newman-Keuls multiple comparison test.

Article Snippet: Antibody to a-KL (rat mAb KM2076) was purchased from TransGenic Inc. Antibody to FGFR1 (D8E4, #9740) was purchased from Cell Signaling Technologies.

Techniques: Drug discovery, Immunoprecipitation, Thermal Shift Assay, Real-time Polymerase Chain Reaction, Control, Comparison

Journal: Science signaling

Article Title: A computationally identified compound antagonizes excess FGF-23 signaling in renal tubules and a mouse model of hypophosphatemia.

doi: 10.1126/scisignal.aaf5034

Figure Lengend Snippet: Fig. 8. Effects of different doses of the FGF-23 antagonist Zinc13407541 on ERK luciferase reporter activities in the absence and presence of FGF ligands from different FGF subfamilies. (A) Different FGF ligands mediated ERK reporter luciferase activities in the absence or presence of a-KL and/or HS in nontransfected or a-KL–transfected HEK293T cells. (B) Dose-dependent inhibition of a-KL–dependent FGFR-mediated ERK reporter activation by Zinc13407541 in a-KL–transfected HEK293T cells. (C) Dose-dependent inhibition of HS-dependent FGFR-mediated ERK reporter activation by Zinc13407541 in either nontransfected or FGFR1-transfected HEK293T cells. Data are means ± SD from three independent experiments (n = 3). *P < 0.01, ***P < 0.001; one-way ANOVA with Newman-Keuls multiple comparison test.

Article Snippet: Antibody to a-KL (rat mAb KM2076) was purchased from TransGenic Inc. Antibody to FGFR1 (D8E4, #9740) was purchased from Cell Signaling Technologies.

Techniques: Luciferase, Transfection, Inhibition, Activation Assay, Comparison

Journal: Science signaling

Article Title: A computationally identified compound antagonizes excess FGF-23 signaling in renal tubules and a mouse model of hypophosphatemia.

doi: 10.1126/scisignal.aaf5034

Figure Lengend Snippet: Fig. 9. The effects of the FGF-23 antagonist (Zinc13407541) on FGF23-induced signaling in primary tubule cell cultures. (A and B) Western blot analysis of FGFR1/ a-KL signaling (A) and the quantification of phosphorylated ERK abundance relative to that of total ERK (B) in cultured mouse primary tubule cells. (C to F) Quantitative real-time reverse transcription (RT)–PCR analysis of total Cyp27b1, Cyp24a1, Npt2a, and NCC transcripts in cultured mouse primary tubule cells. Data are means ± SD from three independent experiments (n = 3). *P < 0.05, **P < 0.01, ***P < 0.001; one-way ANOVA with Newman-Keuls multiple comparison test.

Article Snippet: Antibody to a-KL (rat mAb KM2076) was purchased from TransGenic Inc. Antibody to FGFR1 (D8E4, #9740) was purchased from Cell Signaling Technologies.

Techniques: Western Blot, Cell Culture, Reverse Transcription, Reverse Transcription Polymerase Chain Reaction, Comparison

Journal: medRxiv

Article Title: Polymorphism in IFNAR contributes to glucocorticoid response and outcome in ARDS and COVID-19

doi: 10.1101/2022.03.10.22272123

Figure Lengend Snippet: (A ) STAT1 expression in the lung after 4-day culture in the presence of IFN beta with or without hydrocortisone (HC). ( B) pSTAT1 expression in the same specimens as in A. ( C) Example photomicrographs showing higher STAT2 expression in a TT patient than in a CT patient and the effect of HC on its nuclear translocation. Most STAT2 remains in the cytoplasm of the CT patients, whereas nuclear expression is prominent in the TT patient. Indicated insets are shown in the bottom row. Arrows. ( D ) Combined results of all patients noting that two CT samples are excluded in the data as the patients were already under glucocorticoid treatment at the time of sample acquisition. Ns, not significant; *P<0.05; **P<0.01; and ***P<0.001

Article Snippet: The first stage antibodies were anti-alpha chain of the IFN alpha/beta receptor (St John’s Laboratory STJ112765) that was used 1:2000 and 1:5000 and anti-Stat1 (1:400, 9175S), anti-pStat1(1:100, 9167S) and anti-Stat2 (1:200, 72604S) all from Cell Signalling.

Techniques: Expressing, Translocation Assay

Journal: PLOS ONE

Article Title: A secreted proteomic footprint for stem cell pluripotency

doi: 10.1371/journal.pone.0299365

Figure Lengend Snippet: Secreted proteins significantly changed in both RNA and protein abundances in both Rebl.PAT and Man-13 cell lines.

Article Snippet: Gels were transferred using the IBlot2 Gel Transfer device (Thermo #IB21001), using iBlot 2 Transfer stacks (nitrocellulose membrane, Thermo #IB23001).Cells were analysed by immunoblotting using the following antibodies: 1/200 Mouse anti-Chromogranin A (Novus Biologicalis, NBP2-44774); 1/100 Rabbit anti-COCH (Abcam, ab170266); 1/500 mouse anti-FGFR1 (R&D systems, MAB658); 1/1000 rabbit anti-Follistatin (Abcam, ab157471); 1/1000 rabbit anti-Entactin/NID1 (Abcam, ab133686); 1:1000 rabbit anti-Neuronal Pentaxtrin 2 (Abcam, ab191563); 1/1000 rabbit anti-Neurotensin (Abcam, ab172114); 1/300 rabbit anti-Olfactomedin-like 3 (Abcam, ab111712); 1/500 mouse anti-Semaphorin 3A (R&D, MAB1250); 1/500 mouse anti-Secreted Frizzled Related Protein 2 (R&D, MAB6838).

Techniques:

Journal: PLOS ONE

Article Title: A secreted proteomic footprint for stem cell pluripotency

doi: 10.1371/journal.pone.0299365

Figure Lengend Snippet: Equal quantities of protein from media supernatant from cells cultured as described in were run on Western blot and probed with antibodies for an E8-enriched marker protein (CHGA, NID1, SEMA3 or NPTX3) and an E6-enriched marker protein (COCH, FGFR1, Follistatin or OLFML3). Membranes were imaged using LICOR Odyssey system.

Article Snippet: Gels were transferred using the IBlot2 Gel Transfer device (Thermo #IB21001), using iBlot 2 Transfer stacks (nitrocellulose membrane, Thermo #IB23001).Cells were analysed by immunoblotting using the following antibodies: 1/200 Mouse anti-Chromogranin A (Novus Biologicalis, NBP2-44774); 1/100 Rabbit anti-COCH (Abcam, ab170266); 1/500 mouse anti-FGFR1 (R&D systems, MAB658); 1/1000 rabbit anti-Follistatin (Abcam, ab157471); 1/1000 rabbit anti-Entactin/NID1 (Abcam, ab133686); 1:1000 rabbit anti-Neuronal Pentaxtrin 2 (Abcam, ab191563); 1/1000 rabbit anti-Neurotensin (Abcam, ab172114); 1/300 rabbit anti-Olfactomedin-like 3 (Abcam, ab111712); 1/500 mouse anti-Semaphorin 3A (R&D, MAB1250); 1/500 mouse anti-Secreted Frizzled Related Protein 2 (R&D, MAB6838).

Techniques: Cell Culture, Western Blot, Marker