Journal: Cell Metabolism

Article Title: Dynamic Cardiolipin Synthesis Is Required for CD8 + T Cell Immunity

doi: 10.1016/j.cmet.2020.11.003

Figure Lengend Snippet:

Article Snippet: TaqMan Gene expression Assay, Assay ID: Mm04225274_s1 Gene Symbol: ND1 FAM-MGB , Applied Biosystem , Cat#4331182.

Techniques: Virus, Control, Recombinant, Staining, Isolation, Cell Isolation, Reverse Transcription, Bicinchoninic Acid Protein Assay, Gene Expression, Plasmid Preparation, Software

Journal: Advanced Science

Article Title: Mistranslation Drives Alterations in Protein Levels and the Effects of a Synonymous Variant at the Fibroblast Growth Factor 21 Locus

doi: 10.1002/advs.202004168

Figure Lengend Snippet: RPLP0 abundance determined effects of rs838133 on translation efficiency. a)Multivariate analysis of the tRNA expression patterns using t‐SNE. Three groups of tRNAs (C1, C2, and C3) are highlighted. b)Heatmap of quantification of change in abundance of transcription of 28 tRNA‐associated genes in Huh7 cells stably expressing the A and G alleles of rs838133 of FGF21 analyzed by TaqMan Array and in GEO: GSE32504 and GSE39036, respectively. This showed a unique upregulation in RPLP0 in A allele‐expressing cells c) that was confirmed by RT‐PCR, d) with no changes in other RPLP proteins (RPLP1 and RPLP2). e) The normalized fraction of RPLP0 transcripts associating with actively translating ribosomes was higher in the minor (A) allele compared to the major (G) allele. f) Hierarchical clustering of tRNAs based on their relative changes in abundance upon RPLP0 inhibition by siRNA. RPLP0 inhibition by siRNA decreases FGF21 protein level measured by ELISA g) in cell lysates and h) secreted in medium and i) in active ribosomes in the (A) allele cells restoring it to levels comparable to that in (G) cells. Values of three independent replicates are represented by vertical bars and are mean ± SEM; * p < 0.05 using the student t ‐test or one‐way ANOVA; multiple comparisons were by Bonferroni correction, as appropriate.

Article Snippet: Assay ID: Hs99999902_m1 Gene Symbol: RPLP0 , Thermo Fisher , 4331182.

Techniques: Expressing, Stable Transfection, Reverse Transcription Polymerase Chain Reaction, Inhibition, Enzyme-linked Immunosorbent Assay

Journal: Advanced Science

Article Title: Mistranslation Drives Alterations in Protein Levels and the Effects of a Synonymous Variant at the Fibroblast Growth Factor 21 Locus

doi: 10.1002/advs.202004168

Figure Lengend Snippet: Key resources table

Article Snippet: Assay ID: Hs99999902_m1 Gene Symbol: RPLP0 , Thermo Fisher , 4331182.

Techniques: Virus, Recombinant, Enzyme-linked Immunosorbent Assay, TaqMan SNP Genotyping Assay, Software, Transfection

Journal: Journal of Cellular Biochemistry

Article Title: Targeting PKC-Mediated Signal Transduction Pathways Using Enzastaurin to Promote Apoptosis in Acute Myeloid Leukemia-Derived Cell Lines and Blast Cells

doi: 10.1002/jcb.23090

Figure Lengend Snippet: Patient Characteristics

Article Snippet: Statistical analysis was performed with Sigma Stat computer software (SSPS, Chicago, IL). table ft1 table-wrap mode="anchored" t5 TABLE II caption a7 Common name Symbol Chromosome location ABI assay ID PKC α PRKCA 17q22-q23.2 Hs00176973_m1 PKC β PPP2R1B 16p11.2 Hs00176998_m1 PKC δ PPP2R2A 3p21.31 Hs00178914_m1 PKC ε PPP2R5A 2p21 Hs00178455_m1 β-2-microglobulin B2M 15q21-q22.2 Hs99999907_m1 ABL1 ABL1 9q34.1 Hs00245445_m1 Open in a separate window List of PKC Genes and ABL1 and B2M Control Analyzed Using Real-Time PCR With Applied Biosystems (ABI) Taqman Assays

Techniques:

Journal: Journal of Cellular Biochemistry

Article Title: Targeting PKC-Mediated Signal Transduction Pathways Using Enzastaurin to Promote Apoptosis in Acute Myeloid Leukemia-Derived Cell Lines and Blast Cells

doi: 10.1002/jcb.23090

Figure Lengend Snippet: List of PKC Genes and ABL1 and B2M Control Analyzed Using Real-Time PCR With Applied Biosystems (ABI) Taqman Assays

Article Snippet: Statistical analysis was performed with Sigma Stat computer software (SSPS, Chicago, IL). table ft1 table-wrap mode="anchored" t5 TABLE II caption a7 Common name Symbol Chromosome location ABI assay ID PKC α PRKCA 17q22-q23.2 Hs00176973_m1 PKC β PPP2R1B 16p11.2 Hs00176998_m1 PKC δ PPP2R2A 3p21.31 Hs00178914_m1 PKC ε PPP2R5A 2p21 Hs00178455_m1 β-2-microglobulin B2M 15q21-q22.2 Hs99999907_m1 ABL1 ABL1 9q34.1 Hs00245445_m1 Open in a separate window List of PKC Genes and ABL1 and B2M Control Analyzed Using Real-Time PCR With Applied Biosystems (ABI) Taqman Assays

Techniques: Real-time Polymerase Chain Reaction

Journal: Journal of Cellular Biochemistry

Article Title: Targeting PKC-Mediated Signal Transduction Pathways Using Enzastaurin to Promote Apoptosis in Acute Myeloid Leukemia-Derived Cell Lines and Blast Cells

doi: 10.1002/jcb.23090

Figure Lengend Snippet: PKC β and PKC δ expression is generally elevated IN AML blast cells compared to normal CD34+ bone marrow cells. Real-time PCR was performed as described in Materials and Methods section. Expression of PRKCA (PKC α), PRKCB (PKC β), PRKCD (PKC δ), and PRKCE (PKC ε) genes are presented as relative to 100 copies of b2M for AML-derived cell lines (A) and as relative to 100 copies of ABL1for CD34+ cells derived from bone marrow from normal donors (N = 6) and blast cells derived from AML patients (N = 75; B). P values were derived as described in Materials and Methods section. Statistically significant differences from expression in normal bone marrow cells (P < 0.05) are marked by “*.”

Article Snippet: Statistical analysis was performed with Sigma Stat computer software (SSPS, Chicago, IL). table ft1 table-wrap mode="anchored" t5 TABLE II caption a7 Common name Symbol Chromosome location ABI assay ID PKC α PRKCA 17q22-q23.2 Hs00176973_m1 PKC β PPP2R1B 16p11.2 Hs00176998_m1 PKC δ PPP2R2A 3p21.31 Hs00178914_m1 PKC ε PPP2R5A 2p21 Hs00178455_m1 β-2-microglobulin B2M 15q21-q22.2 Hs99999907_m1 ABL1 ABL1 9q34.1 Hs00245445_m1 Open in a separate window List of PKC Genes and ABL1 and B2M Control Analyzed Using Real-Time PCR With Applied Biosystems (ABI) Taqman Assays

Techniques: Expressing, Real-time Polymerase Chain Reaction, Derivative Assay

Journal: Physiological Genomics

Article Title: Microarray analysis of aging-associated immune system alterations in the rostral ventrolateral medulla of F344 rats

doi: 10.1152/physiolgenomics.00131.2016

Figure Lengend Snippet: List of immune system genes used for quantitative PCR validation of microarray analysis and their TaqMan assay IDs

Article Snippet: Actb, Hprt1, Ldha , and Rplp1 genes were used as endogenous controls and the geometric average of their Ct values was used to calculate each gene’s ΔCt value ( 1 ). table ft1 table-wrap mode="anchored" t5 Table 1. caption a7 Functional Category Gene Symbol TaqMan Assay ID Complement system C1qa Rn01519903_m1 C1qc(C1qg) Rn01516757_m1 Cd93(C1qr1) Rn00584525_g1 C3 Rn00584525_g1 C4a Rn00566466_m1 Cfd Rn00709527_m1 Cfh Rn01535436_g1 Vwf Rn00590326_m1 Klkb1 Rn01488161_m1 Microglial cells Cd14 Rn00572656_g1 Cd68 Rn01495634_g1 Tlr2 Rn02133647_s1 Cx3cr1 Rn02134446_s1 Trem2 Rn01512170_m1 Fcrl2 Rn01455191_m1 B2m Rn00560865_m1 Endogenous controls Actb Rn00667869_m1 Hprt1 Rn01527840_m1 Ldha Rn00820751_g1 Rplp1 Rn03467157_gH Open in a separate window List of immune system genes used for quantitative PCR validation of microarray analysis and their TaqMan assay IDs Microarray Data Analysis Hybridization signal intensities from microarrays were extracted with Agilent Feature Extraction Software, version 9.5.1.1. (Agilent Technologies) (Gene Expression Omnibus accession number {"type":"entrez-geo","attrs":{"text":"GSE90956","term_id":"90956"}} GSE90956 ).

Techniques: Real-time Polymerase Chain Reaction, Biomarker Discovery, Microarray, TaqMan Assay