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: Data in Brief

Article Title: Data set on a study of gene expression in peripheral samples to identify biomarkers of severity of allergic and nonallergic asthma

doi: 10.1016/j.dib.2016.12.035

Figure Lengend Snippet: List of the 94 genes studied.

Article Snippet: SOS1 , son of sevenless homolog 1 (Drosophila) , 2 , SOS1-Hs00362308_m1.

Techniques: Selection, Clinical Proteomics, Immunopeptidomics, Binding Assay, Ubiquitin Proteomics, Activation Assay

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Article Title: Osteoblast-Derived ECM1 Promotes Anti-Androgen Resistance in Bone Metastatic Prostate Cancer.

doi: 10.1002/advs.202407662

Figure Lengend Snippet: Figure 4. ECM1 recruits GRB2 and SOS1 to the membrane to activate the MAPK signaling pathway. A) Affinity purification MS analysis of ECM1 interaction complexes in C4-2B cells (left). Representative mass spectra of GRB2 and SOS1 peptides (right). B) IP analysis detected the interaction between ECM1 and GRB2 as well as SOS1 in C4-2B cells with ECM1 (200 ng mL−1) treatment. C) IF staining and quantification of GRB2, SOS1, and DiI in C4-2B cells treated with Veh (PBS) or ECM1 (200 ng mL−1). Pearson R value greater than 0.5 indicated co-localization of the two proteins (Scale bar, 5 μm). D,E) WB analysis of GRB2 and SOS1 protein expression in whole lysis (WL) and membrane proteins from C4-2B cells treated with increasing concentrations of ECM1 (0, 200, 400, 800 ng mL−1), or with the addition of either DMEM or CM. GAPDH was used as a loading control for whole lysis, and PMCA1 for membrane proteins. F) IP detection of the interaction between ECM1 and GRB2 as well as SOS1 in C4-2B cells treated with CM. G) IF staining and quantification of GRB2, SOS1, and DiI in C4-2B cells treated with DMEM or CM. Pearson R value greater than 0.5 indicated co-localization of the two proteins (Scale bar, 5 μm). H,I) WB analysis of MEK, p-MEK, ERK1/2, and p-ERK1/2 expression in the indicated C4-2B cells treated with or without ECM1 (200 ng mL−1). ns, not significant; *, P < 0.05; **, P < 0.01; ***, P < 0.001; ****, P < 0.0001.

Article Snippet: Subsequently, cells were respectively incubated overnight at 4 °C with primary antibodies including ECM1 Rabbit pAb (Proteintech; 11521-1-AP, 1:250), ENO1 Mouse mAb (Thermo Fisher Scientific; MA5-47393, 1:2000), GRB2 Rabbit pAb (Proteintech; 10254-2-AP, 1:50) or SOS1 Rabbit pAb (Proteintech; 55041-1-AP, 1:100).

Techniques: Membrane, Staining, Expressing, Lysis, Control

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Article Title: Osteoblast-Derived ECM1 Promotes Anti-Androgen Resistance in Bone Metastatic Prostate Cancer.

doi: 10.1002/advs.202407662

Figure Lengend Snippet: Figure 5. Phosphorylated ENO1 bridges ECM1 with GRB2 and SOS1 at the membrane. A) Representative mass spectra of ENO1 peptide. B) IP analysis detected the interaction between ECM1 and ENO1 in C4-2B cells. C) IF staining and quantification of ENO1 and ECM1 in C4-2B cells. Pearson R value greater than 0.5 indicated co-localization of the two proteins (Scale bar, 5 μm). D) Proximity ligation assay (PLA) analysis of the interaction between ECM1-Flag and ENO1 (Scale bar, 10 μm). E) IP assays of the interaction between ENO1 and GRB2 as well as SOS1 in C4-2B cells in the presence or absence of ECM1 (200 ng mL−1). F) IP analysis detected the interaction between ECM1 and GRB2 as well as SOS1 in the indicated C4-2B cells

Article Snippet: Subsequently, cells were respectively incubated overnight at 4 °C with primary antibodies including ECM1 Rabbit pAb (Proteintech; 11521-1-AP, 1:250), ENO1 Mouse mAb (Thermo Fisher Scientific; MA5-47393, 1:2000), GRB2 Rabbit pAb (Proteintech; 10254-2-AP, 1:50) or SOS1 Rabbit pAb (Proteintech; 55041-1-AP, 1:100).

Techniques: Membrane, Staining, Proximity Ligation Assay

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Article Title: Osteoblast-Derived ECM1 Promotes Anti-Androgen Resistance in Bone Metastatic Prostate Cancer.

doi: 10.1002/advs.202407662

Figure Lengend Snippet: Figure 7. PhAH attenuates ENO1-mediated PCa cell resistance to ENZ. A) Chemical structure of PhAH. B) Ligand interaction diagram (left) and binding amino acid residue sites (right) of the highest-scoring PhAH and ENO1 protein molecular docking complex (RMSD = 1.9977; E_score = −3.9538). C) WB detection of the interaction between ECM1 and ENO1, as well as Tyr phosphorylation of ENO1 following immunoprecipitating ENO1 in C4-2B cells in the presence of ECM1 (200 ng mL−1) with or without PhAH (1 μM). D) IF staining and quantification of GRB2, SOS1, and DiI in C4-2B cells

Article Snippet: Subsequently, cells were respectively incubated overnight at 4 °C with primary antibodies including ECM1 Rabbit pAb (Proteintech; 11521-1-AP, 1:250), ENO1 Mouse mAb (Thermo Fisher Scientific; MA5-47393, 1:2000), GRB2 Rabbit pAb (Proteintech; 10254-2-AP, 1:50) or SOS1 Rabbit pAb (Proteintech; 55041-1-AP, 1:100).

Techniques: Binding Assay, Residue, Phospho-proteomics, Staining

Journal: Advanced science (Weinheim, Baden-Wurttemberg, Germany)

Article Title: Osteoblast-Derived ECM1 Promotes Anti-Androgen Resistance in Bone Metastatic Prostate Cancer.

doi: 10.1002/advs.202407662

Figure Lengend Snippet: Figure 9. Schematic diagram illustrating that increased osteoblast-derived ECM1 from the bone microenvironment of BMPC patients induced by ENZ treatment, interacts with the ENO1 receptor on the prostate cancer cell membrane, further recruiting adapter proteins including GRB2 and SOS1, which activates the downstream MAPK signaling pathway to promote the proliferation of PCa cells and induce anti-androgen resistance.

Article Snippet: Subsequently, cells were respectively incubated overnight at 4 °C with primary antibodies including ECM1 Rabbit pAb (Proteintech; 11521-1-AP, 1:250), ENO1 Mouse mAb (Thermo Fisher Scientific; MA5-47393, 1:2000), GRB2 Rabbit pAb (Proteintech; 10254-2-AP, 1:50) or SOS1 Rabbit pAb (Proteintech; 55041-1-AP, 1:100).

Techniques: Derivative Assay, Membrane

Journal: Biology

Article Title: Multi-Omic Advances in Olive Tree ( Olea europaea subsp. europaea L.) Under Salinity: Stepping Towards ‘Smart Oliviculture’

doi: 10.3390/biology14030287

Figure Lengend Snippet: Summary of genes involved in salt stress response in olive tree.

Article Snippet: In contrast, the absence of variations in Na + /H + antiporter gene SOS1 suggests that changes in its expression do not contribute to the salt stress tolerance of ‘Frantoio’.

Techniques: Biomarker Discovery, Control, Clinical Proteomics, Membrane, Protein-Protein interactions, Transduction, Activity Assay, Transgenic Assay

Journal: Developmental cell

Article Title: Twist1 Activation in Muscle Progenitor Cells Causes Muscle Loss Akin to Cancer Cachexia

doi: 10.1016/j.devcel.2018.05.026

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: REAGENTS or RESOURCES SOURCE IDENTIFIER Antibodies Atrogin1/Fbx32 Abcam ab168372 BrdU Cell Signaling 52925 Cleaved caspase 3 Cell Signaling 9661 Cytokeratin 19 Abcam ab52625 Dystrophin Abcam ab15277 elF3-f Abcam ab64177 MHC Abcam ab71808 Myostatin Abcam ab71808 Myostatin R&D Systems AF788 MuRF1 Cell Signaling 4305 Myc tag Cell Signaling 22765 Smad4 Santa Cruz sc-7966 Smad2 Cell Signaling 5339 pSmad2 Cell Signaling 3108 Twist1 Santa Cruz sc-81417 Pax7 Abcam Ab92317 Chemicals, Peptides, and Recombinant Proteins Activin A R&D Systems 338-AC-050 bFGF Sigma-Aldrich F3685 Collagenase D Sigma-Aldrich 11088858001 Collagenase type 1 Sigma-Aldrich SCR103 Dispase II Sigma-Aldrich 4942078001 D-luciferin Perkin Elmer 122799 JQ1 Sigma-Aldrich SML-1524 Myostatin R&D Systems 788-GB-010 puromycin Sigma-Aldrich P9620 Tamoxifen Sigma-Aldrich T5648 Critical Commercial Assays Activin A ELISA kit R&D Systems DAC00B SURVEYOR Mutation Detection Kit Integrated DNA Technologies 706025 Recombinant DNA Adenovirus-CMV.Cre (Ad.Cre) Baylor College Ad5-CMV-Cre Atrogin1-Luc This study N/A Mstn-Luc This study N/A MuRF1-Luc This study N/A pBABE-puro-mTwist1 Addgene 1783 pGIPZ-sh.Activin Dharmacon EG16323 pGIPZ-sh.control Dharmacon RHS4346 LentiCISPRv2 Addgene 52961 pSpCas9(BB)-2A-Puro (PX459) Addgene 62988 Experimental Models: Cell Lines B16 ATCC CRL-6322 Suit2 ATCC CRL-1687 MiaPaca2 ATCC CRL-1420 CT-26 ATCC CRL-2638 KP2 This study N/A KP1 This study N/A LLC ATCC CRL-1642 Experimental Models: Organisms/Strains CAG-Cre ERT2 Jackson Lab. 004682 CAG-Loxp-CAT-Loxp-Twist1 Jackson Lab. 018543 CAG-Loxp-Stop-Loxp-Luciferase NCI 01XAC Loxp-Stop-Loxp-Kras G12D NCI 01XJ6 NOD/SCID Jackson Lab. 001303 p16Ink4A-Luciferase Dr. Sharpless Burd et al., 2013 Pax7.Cre Jackson Lab. 010530 Pax7.Cre ERT2 Jackson Lab. 012476 Pdx1.Cre NCI 01XL5 Prrx1.Cre Jackson Lab. 005584 MCK.Cre Jackson Lab. 006475 Trp53.Loxp/Loxp Jackson Lab. 008462 Twist1.Loxp/Loxp Dr. Xu Baylor College of Medicine Open in a separate window KEY RESOURCES TABLE CONTACT FOR REAGENT AND RESOURCE SHARING Further information and requests for reagents may be directed to and will be fulfilled by the Lead Contact Azeddine Atfi, rf.mresni@ifta.eniiddeza ; ude.cmu@iftaa EXPERIMENTAL MODEL AND SUBJECT DETAILS Mice All animal experiments were approved by the Institutional Animal Care and Use Committee (IACUC) of the University of Mississippi Medical Center.

Techniques: Recombinant, Enzyme-linked Immunosorbent Assay, Mutagenesis

Journal: Oncology Letters

Article Title: Dysregulation of KRAS signaling in pancreatic cancer is not associated with KRAS mutations and outcome

doi: 10.3892/ol.2017.6946

Figure Lengend Snippet: List of TaqMan gene expression assays used in the study.

Article Snippet: SOS1 , Son of sevenless, Drosophila , homolog 1 , Hs00362316_m1.

Techniques: Gene Expression

Journal: Oncology Letters

Article Title: Dysregulation of KRAS signaling in pancreatic cancer is not associated with KRAS mutations and outcome

doi: 10.3892/ol.2017.6946

Figure Lengend Snippet: Dysregulation of KRAS pathway genes in pancreatic ductal adenocarcinoma tumors in comparison to paired adjacent non-malignant tissues.

Article Snippet: SOS1 , Son of sevenless, Drosophila , homolog 1 , Hs00362316_m1.

Techniques: Comparison