Journal: International Journal of Molecular Sciences

Article Title: Differential Expression of Peroxisomal Proteins in Distinct Types of Parotid Gland Tumors

doi: 10.3390/ijms22157872

Figure Lengend Snippet: Peroxisomal ether lipid and cholesterol synthesis in PMA. The mRNA expression by real-time PCR analysis of ( A ) Agps (** p = 0.0018), ( B ) Hmgcr (* p = 0.0235) and Pmvk (* p = 0.0478) are expressed lower while Gnpat (*** p = 0.0004) ( A ), Hmgcs, Idi (* p = 0.0155), Fdps (* p = 0.0257) and Sqs (** p = 0.0059) ( B ) are expressed higher in PMA than in healthy tissue. (Explanation of the notations: The number of asterices signifies the degree of significance of the p -value, while # means not significant.)

Article Snippet: Alkylglycerone-phosphate synthase (AGPS) , Mouse, monoclonal , 78 kDa , 1:1000 , 1:500 , Santa cruz, Cat no: sc-374201.

Techniques: Expressing, Real-time Polymerase Chain Reaction

Journal: International Journal of Molecular Sciences

Article Title: Differential Expression of Peroxisomal Proteins in Distinct Types of Parotid Gland Tumors

doi: 10.3390/ijms22157872

Figure Lengend Snippet: List of antibodies used for the detection of peroxisomal proteins in the parotid gland.

Article Snippet: Alkylglycerone-phosphate synthase (AGPS) , Mouse, monoclonal , 78 kDa , 1:1000 , 1:500 , Santa cruz, Cat no: sc-374201.

Techniques: Molecular Weight, Phospho-proteomics, Marker

Journal: International Journal of Molecular Sciences

Article Title: Differential Expression of Peroxisomal Proteins in Distinct Types of Parotid Gland Tumors

doi: 10.3390/ijms22157872

Figure Lengend Snippet: List of the human primers used for qPCR analyses.

Article Snippet: Alkylglycerone-phosphate synthase (AGPS) , Mouse, monoclonal , 78 kDa , 1:1000 , 1:500 , Santa cruz, Cat no: sc-374201.

Techniques:

Journal: Nature Cell Biology

Article Title: PEX39 facilitates the peroxisomal import of PTS2-containing proteins

doi: 10.1038/s41556-025-01711-z

Figure Lengend Snippet: a , Depiction of protein–protein interactions for Yjr012c and C6ORF226, per BioGRID and BioPlex , , respectively. The circles represent proteins and the arrows point from purified proteins to interactors. For Yjr012c, only interactions found in at least two independent studies were considered. For C6ORF226, the combined interactome from HCT116 and HEK293T cells is shown. b , Domain analysis and alignment of Yjr012c and C6ORF226. Probabilities of disorder were determined using IUPred2A . c , Quantitative proteomic analysis of Pex18 complexes that were affinity purified from soluble fractions of wild-type and Pex18-TPA-expressing yeast grown in oleic acid medium ( n = 3). The enrichment of proteins in Pex18 complexes and Q values were determined using the rank-sum method . Peroxins and PTS2-containing proteins are labelled and/or marked by black dots. The dashed lines indicate a Q -value threshold of 0.05 and a fold-enrichment of 64. d , Immunoblots of anti-FLAG immunoprecipitates prepared from HCT116 cells expressing the indicated proteins. HA denotes the detection of HA-tagged proteins. The dashed lines indicate where different lanes of the same membrane were brought together. For the PHYH, ACAA1 and AGPS blots, solid and open red arrowheads indicate mature and precursor forms of these proteins, respectively. An asterisk indicates a non-specific band. The control protein β-actin (ACTB) should be absent from immunoprecipitates. e , Immunoblots of anti-FLAG immunoprecipitates prepared from HEK293T cells expressing the indicated proteins. The control protein calnexin (CANX) should be absent from immunoprecipitates. The annotation of the immunoblots is otherwise the same as for d . f , Immunoblots of anti-FLAG immunoprecipitates prepared from HEK293T cells expressing FLAG-HA-eGFP or Hs PEX39-FLAG-HA. An asterisk indicates a non-specific band. g , Native PAGE and autoradiography of [ 35 S]H 6 PEX7 pre-incubated with the recombinant proteins GST- Hs PEX39, H 6 PHYH and H 6 PEX5(1–324), as indicated. The in-gel positions of PEX7 alone, lysate haemoglobin and the complexes PEX7– Hs PEX39 (hashtag), PEX7–PHYH– Hs PEX39 (ampersand) and PEX7–PEX5–PHYH– Hs PEX39 (dollar sign) are indicated. The autoradiograph and corresponding Ponceau S-stained membrane are shown. α, α-helix; IP, immunoprecipitate.

Article Snippet: Immunoblot analysis was performed with antibodies against ACAA1 (HPA007244; Sigma–Aldrich; diluted 1/2,000), ACOX1 (ab184032; Abcam; diluted 1/2,000), AGPS (described previously ; diluted 1/3,000), Hs PEX13 ( PAB22801 ; Abnova; diluted 1/2,000), PHYH (12858-1-AP; Proteintech; diluted 1/1,000) and TUBA4A (T6199; Sigma–Aldrich; diluted 1/2,000).

Techniques: Protein-Protein interactions, Purification, Affinity Purification, Expressing, Western Blot, Membrane, Control, Clear Native PAGE, Autoradiography, Incubation, Recombinant, Staining

Journal: Nature Cell Biology

Article Title: PEX39 facilitates the peroxisomal import of PTS2-containing proteins

doi: 10.1038/s41556-025-01711-z

Figure Lengend Snippet: a , Growth of the indicated yeast strains in oleic acid medium. pPEX39 is a plasmid containing Scpex39 under the control of its endogenous promoter. The data represent means ± s.d. ( n = 4). b , Immunoblots of cellular fractions from wild-type and Scpex39 Δ yeast. A post-nuclear supernatant (PNS) was prepared from cells grown in oleic acid medium and further separated into a cytosolic supernatant (S) and organellar pellet (OP). c , Quantification of the subcellular distribution of proteins using the band intensities of the immunoblots shown in b and Extended Data Fig. . For each protein, the summed intensities of the cytosolic supernatant and organelles were set to 100%. The data represent means ± s.e.m. ( n = 2 for Pex3 and n = 3 for the rest). Statistical significance was determined by unpaired, two-tailed t -test. d , Fluorescence microscopy of Pot1-mNeonGreen in control, Scpex39 Δ and pex7 Δ yeast grown in oleic acid medium. Peroxisomes were visualized with Pex3-mScarlet. Scale bar, 1 μm. e , Quantitative proteomic analysis of wild-type and Scpex39 Δ yeast ( n = 4). Proteins quantified in at least three biological replicates are shown, except for Sc Pex39 (quantified in one replicate). PTS2-containing proteins and additional peroxisomal proteins are indicated by yellow and black circles, respectively. Multiple-testing-adjusted P values were determined using the limma approach (moderated two-tailed t -test) and Benjamini–Hochberg method. The dashed line indicates an adjusted P value threshold of 0.05. f , Immunoblot analysis of control and HsPEX39 -KO CAKI-2 and NCI-H1792 cells. Precursor ACAA1 and AGPS were undetectable. CANX and citrate synthase (CS) were used as loading controls. g , Quantification of mature and precursor PHYH in HsPEX39 -KO cells using the band intensities of immunoblots prepared per f . Mature/precursor ratios were divided by the mean value of the corresponding control. The data represent means ± s.e.m. ( n = 3). Statistical significance was determined by unpaired, two-tailed t -test. h , Immunoblot analysis of PEX7 -KD ( PEX7 -knockdown) and HsPEX39 -KO CAKI-2 cells. The dashed lines indicate where different lanes of the same membrane were brought together. An asterisk indicates a non-specific band. In f and h , the solid and open red arrowheads indicate mature and precursor forms, respectively. ER, endoplasmic reticulum; l.e., long exposure; s.e., short exposure.

Article Snippet: Immunoblot analysis was performed with antibodies against ACAA1 (HPA007244; Sigma–Aldrich; diluted 1/2,000), ACOX1 (ab184032; Abcam; diluted 1/2,000), AGPS (described previously ; diluted 1/3,000), Hs PEX13 ( PAB22801 ; Abnova; diluted 1/2,000), PHYH (12858-1-AP; Proteintech; diluted 1/1,000) and TUBA4A (T6199; Sigma–Aldrich; diluted 1/2,000).

Techniques: Plasmid Preparation, Control, Western Blot, Two Tailed Test, Fluorescence, Microscopy, Knockdown, Membrane

Journal: Nature Cell Biology

Article Title: PEX39 facilitates the peroxisomal import of PTS2-containing proteins

doi: 10.1038/s41556-025-01711-z

Figure Lengend Snippet: a , Quantification of mature ACAA1, mature AGPS, PEX7, and PEX5 in HsPEX39 -knockout cells using band intensities of immunoblots prepared per Fig. . Loading-control intensities were used to normalize protein abundance across samples and the normalized abundances were then divided by the mean value of the corresponding control cells. The names of quantified proteins are shown on the bottom. Precursor forms of ACAA1 and AGPS were undetectable and thus not quantified. Data are mean ± standard error of the mean (SEM) (n = 3), and P values were calculated using unpaired, two-tailed t-tests. b , Immunoblot analysis of cells generated via lentiviral transduction of Cas9 and multiple independent sgRNAs against HsPEX39 (sg HsPEX39 _1-3) or a negative control sgRNA against the AAVS1 gene (sg AAVS1 ) in the CAKI-2 and NCI-H1792 cell lines. Note that the residual Hs PEX39 signal in these cells is because not all cells in the population will have complete loss of the protein. Solid and open red arrowheads indicate mature and precursor forms, respectively. Precursor forms of ACAA1 and AGPS were undetectable. CANX is a loading control. Short and long exposures are denoted s.e. and l.e., respectively. c , Immunoblots of whole-cell (Cell), cytosolic (Cyto), and organellar (Org) fractions prepared from the CAKI-2 cells expressing sg AAVS1 (negative control) or sg HsPEX39 _1 described in b . Solid and open red arrowheads indicate mature and precursor forms, respectively. The cellular fractions that RPS6KB1 and CANX are markers for are indicated in parentheses.

Article Snippet: Immunoblot analysis was performed with antibodies against ACAA1 (HPA007244; Sigma–Aldrich; diluted 1/2,000), ACOX1 (ab184032; Abcam; diluted 1/2,000), AGPS (described previously ; diluted 1/3,000), Hs PEX13 ( PAB22801 ; Abnova; diluted 1/2,000), PHYH (12858-1-AP; Proteintech; diluted 1/1,000) and TUBA4A (T6199; Sigma–Aldrich; diluted 1/2,000).

Techniques: Knock-Out, Western Blot, Control, Quantitative Proteomics, Two Tailed Test, Generated, Transduction, Negative Control, Expressing

Journal: Oncology reports

Article Title: Role and mechanism of the alkylglycerone phosphate synthase in suppressing the invasion potential of human glioma and hepatic carcinoma cells in vitro.

doi: 10.3892/or.2014.3189

Figure Lengend Snippet: Figure 1. Expression level of AGPS in different clones of stably transfected glioma and hepatic carcinoma cells. (A) Western blot assay showed a decreased AGPS expression in stable AGPS-knockdown human glioma U87 and hepatic carcinoma HepG2 cell lines (shRNA#1 and shRNA#1) com pared with the parent and negative groups. β-actin was used as an internal control. (B) The LC-MS/MS and enzyme immunoassay assay showed a decreased cellular expression of LPA, LPAe and PGE2 in AGPS-knockdown human glioma U87 and hepatic carcinoma HepG2 cell lines (shRNA#1 and shRNA#1) compared with the parent and negative groups. Bars, mean ± SD. #P>0.05 compared to the control group, * P<0.05 compared to the control group, n=10.

Article Snippet: AGPS shRNA plasmid and empty vector plasmid (Santa Cruz) were transfected into the cells using the Transfection Reagent (Biomiga) according to the manufacturer's instructions.

Techniques: Expressing, Clone Assay, Stable Transfection, Transfection, Western Blot, Knockdown, shRNA, Control, Liquid Chromatography with Mass Spectroscopy, Enzyme-linked Immunosorbent Assay

Journal: Oncology reports

Article Title: Role and mechanism of the alkylglycerone phosphate synthase in suppressing the invasion potential of human glioma and hepatic carcinoma cells in vitro.

doi: 10.3892/or.2014.3189

Figure Lengend Snippet: Figure 2. Effect of AGPS on adhesion, invasion and cell cycle of glioma and hepatic carcinoma cells. (A) MTS assay revealed a decreased adhesion ability in AGPS-knockdown human glioma U87 and hepatic carcinoma HepG2 cell lines (shRNA#1 and shRNA#1) compared with parent and negative groups. Bars, mean ± SD. #P>0.05 compared to the control group, *P<0.05 compared to the control group, n=10. (B) The invasiveness assay revealed a decreased invasiveness ability in AGPS-knockdown human glioma U87 and hepatic carcinoma HepG2 cell lines (shRNA#1 and shRNA#1) compared with parent and negative groups. Bars, mean ± SD. #P>0.05 compared to the control group, *P<0.05 compared to the control group, n=3. (C) The flow cytometry assay revealed a G0/G1 phase arrest in AGPS-knockdown human glioma U87 and hepatic carcinoma HepG2 cell lines (shRNA#1 and shRNA#1) compared with parent and negative groups. Bars, mean ± SD. # P>0.05 compared to the control group, *P<0.05 compared to the control group, n=3.

Article Snippet: AGPS shRNA plasmid and empty vector plasmid (Santa Cruz) were transfected into the cells using the Transfection Reagent (Biomiga) according to the manufacturer's instructions.

Techniques: MTS Assay, Knockdown, shRNA, Control, Flow Cytometry

Journal: Oncology reports

Article Title: Role and mechanism of the alkylglycerone phosphate synthase in suppressing the invasion potential of human glioma and hepatic carcinoma cells in vitro.

doi: 10.3892/or.2014.3189

Figure Lengend Snippet: Figure 3. Effect of AGPS on the expression of invasion-related genes of glioma and hepatic carcinoma cells in vitro. (A) Western blot assay showed an increased protein expression of E-cadherin and a decreased protein expression of CD44, MMP-2/9 and cyclin D1 in AGPS-knockdown human glioma U87 and hepatic carcinoma HepG2 cell lines (shRNA#1 and shRNA#1) compared with parent and negative groups. β-actin was used as an internal control. (B) RT-PCR assay showed an increased mRNA expression of E-cadherin and a decreased mRNA expression of CD44, MMP-2/9 and cyclin D1 in AGPS-knockdown human glioma U87 and hepatic carcinoma HepG2 cell lines (shRNA#1 and shRNA#1) compared with parent and negative groups. GAPDH was used as an internal control for loading. Bars, mean ± SD. #P>0.05 compared to the control group, *P<0.05 compared to the control group, n=10.

Article Snippet: AGPS shRNA plasmid and empty vector plasmid (Santa Cruz) were transfected into the cells using the Transfection Reagent (Biomiga) according to the manufacturer's instructions.

Techniques: Expressing, In Vitro, Western Blot, Knockdown, shRNA, Control, Reverse Transcription Polymerase Chain Reaction

Journal: Oncology reports

Article Title: Role and mechanism of the alkylglycerone phosphate synthase in suppressing the invasion potential of human glioma and hepatic carcinoma cells in vitro.

doi: 10.3892/or.2014.3189

Figure Lengend Snippet: Figure 4. Effect of AGPS on the signaling pathway of glioma and hepatic carcinoma cells in vitro. (A) Western blot assay showed a decreased phosphorylation of both MEK and ERK in AGPS-knockdown human glioma U87 and hepatic carcinoma HepG2 cell lines (shRNA#1 and shRNA#1) compared with parent and negative groups. Furthermore, total MEK and ERK levels remained unchanged. β-actin was used as an internal control. (B) Report gene assay showed a decreased transcriptional activity of Twist, AP-1, and Snail in AGPS-knockdown human glioma U87 and hepatic carcinoma HepG2 cell lines (shRNA#1 and shRNA#1) compared with parent and negative groups. Bars, mean ± SD. #P>0.05 compared to the control group, *P<0.05 compared to the control group, n=10.

Article Snippet: AGPS shRNA plasmid and empty vector plasmid (Santa Cruz) were transfected into the cells using the Transfection Reagent (Biomiga) according to the manufacturer's instructions.

Techniques: In Vitro, Western Blot, Phospho-proteomics, Knockdown, shRNA, Control, Gene Assay, Activity Assay

Journal: Oncology Letters

Article Title: Effect of alkylglycerone phosphate synthase on the expression levels of lncRNAs in glioma cells and its functional prediction

doi: 10.3892/ol.2020.11927

Figure Lengend Snippet: Effect of AGPS silencing on the expression levels of AGPS in glioma cells. Western blotting identified significantly downregulated expression levels of AGPS in AGPS-silenced U251 cells. n=3 *P<0.05 vs. control; # P<0.05 vs. shR-AGPS-1 group. shR, short hairpin RNA; AGPS, alkylglycerone phosphate synthase.

Article Snippet: AGPS shRNA lentiviral particles (shR-AGPS-1 and −2 groups; Santa Cruz Biotechnology, Inc.) or empty lentiviral particles used as a negative control (control group; Santa Cruz Biotechnology, Inc.) stably integrated cell lines were established following infection with 8 μg/ml lentiviruses of U251 cells using 5 μg/ml polybrene-containing RPMI-1640 medium.

Techniques: Expressing, Western Blot, Control, shRNA

Journal: Oncology Letters

Article Title: Effect of alkylglycerone phosphate synthase on the expression levels of lncRNAs in glioma cells and its functional prediction

doi: 10.3892/ol.2020.11927

Figure Lengend Snippet: Effect of AGPS silencing on the cellular morphology of U251 cells. (A) Morphological observation under the microscope in AGPS-silenced U251 cells. Magnification, ×100 or ×200. (B) BrdU assay results revealed a significant inhibition over the proliferation of AGPS-silenced U251 cells. n=10. *P<0.05 shR-2 vs. shR-1, # P<0.05 shR-1 vs. control. shR, short hairpin RNA; AGPS, alkylglycerone phosphate synthase; OD, optical density.

Article Snippet: AGPS shRNA lentiviral particles (shR-AGPS-1 and −2 groups; Santa Cruz Biotechnology, Inc.) or empty lentiviral particles used as a negative control (control group; Santa Cruz Biotechnology, Inc.) stably integrated cell lines were established following infection with 8 μg/ml lentiviruses of U251 cells using 5 μg/ml polybrene-containing RPMI-1640 medium.

Techniques: Microscopy, BrdU Staining, Inhibition, Control, shRNA

Journal: Oncology Letters

Article Title: Effect of alkylglycerone phosphate synthase on the expression levels of lncRNAs in glioma cells and its functional prediction

doi: 10.3892/ol.2020.11927

Figure Lengend Snippet: Distribution of differentially expressed lncRNAs and mRNAs identified in AGPS-silenced glioma cells. Heatmap and Venn diagrams of differentially expressed (A) lncRNAs and (B) mRNAs in AGPS-silenced U251 cells. The differential expression of lncRNAs and mRNAs were depicted in the heatmap. Green represents the downregulated expression of lncRNAs/mRNAs and red represents the upregulated expression of lncRNAs/mRNAs. The Venn diagrams represent the shared modified genes between groups. n=3. The scale bar indicates the FC, and (|FC|)>1.2 was used as a threshold. shR, short hairpin RNA; AGPS, alkylglycerone phosphate synthase; lncRNA, long non-coding RNA; FC, fold-change.

Article Snippet: AGPS shRNA lentiviral particles (shR-AGPS-1 and −2 groups; Santa Cruz Biotechnology, Inc.) or empty lentiviral particles used as a negative control (control group; Santa Cruz Biotechnology, Inc.) stably integrated cell lines were established following infection with 8 μg/ml lentiviruses of U251 cells using 5 μg/ml polybrene-containing RPMI-1640 medium.

Techniques: Quantitative Proteomics, Expressing, Modification, shRNA

Journal: Oncology Letters

Article Title: Effect of alkylglycerone phosphate synthase on the expression levels of lncRNAs in glioma cells and its functional prediction

doi: 10.3892/ol.2020.11927

Figure Lengend Snippet: Top 40 differentially expressed lncRNAs in AGPS-silenced human glioma U251 cells.

Article Snippet: AGPS shRNA lentiviral particles (shR-AGPS-1 and −2 groups; Santa Cruz Biotechnology, Inc.) or empty lentiviral particles used as a negative control (control group; Santa Cruz Biotechnology, Inc.) stably integrated cell lines were established following infection with 8 μg/ml lentiviruses of U251 cells using 5 μg/ml polybrene-containing RPMI-1640 medium.

Techniques: Control

Journal: Oncology Letters

Article Title: Effect of alkylglycerone phosphate synthase on the expression levels of lncRNAs in glioma cells and its functional prediction

doi: 10.3892/ol.2020.11927

Figure Lengend Snippet: Top 40 differentially expressed mRNAs in AGPS-silenced human glioma U251 cells.

Article Snippet: AGPS shRNA lentiviral particles (shR-AGPS-1 and −2 groups; Santa Cruz Biotechnology, Inc.) or empty lentiviral particles used as a negative control (control group; Santa Cruz Biotechnology, Inc.) stably integrated cell lines were established following infection with 8 μg/ml lentiviruses of U251 cells using 5 μg/ml polybrene-containing RPMI-1640 medium.

Techniques: Control

Journal: Oncology Letters

Article Title: Effect of alkylglycerone phosphate synthase on the expression levels of lncRNAs in glioma cells and its functional prediction

doi: 10.3892/ol.2020.11927

Figure Lengend Snippet: Functional prediction based on long non-coding RNA and mRNA co-expression in AGPS-silenced U251 cells. (A) Classification of KEGG biological functions analysis in AGPS-silenced glioma cells in Biological systems and Cellular functions. (B) Top 20 signaling pathways identified using KEGG signaling pathway enrichment analysis of AGPS-silenced U251 cells. (C) Top 20 biological process terms identified using GO enrichment analysis of AGPS-silenced U251 cells. AGPS, alkylglycerone phosphate synthase; KEGG, Kyoto Encyclopedia of Genes and Genomes; GO, Gene Ontology.

Article Snippet: AGPS shRNA lentiviral particles (shR-AGPS-1 and −2 groups; Santa Cruz Biotechnology, Inc.) or empty lentiviral particles used as a negative control (control group; Santa Cruz Biotechnology, Inc.) stably integrated cell lines were established following infection with 8 μg/ml lentiviruses of U251 cells using 5 μg/ml polybrene-containing RPMI-1640 medium.

Techniques: Functional Assay, Expressing, Protein-Protein interactions

Journal: Oncology Letters

Article Title: Effect of alkylglycerone phosphate synthase on the expression levels of lncRNAs in glioma cells and its functional prediction

doi: 10.3892/ol.2020.11927

Figure Lengend Snippet: Signaling transduction and pathway network of co-expressed lncRNAs and mRNAs in AGPS-silenced U251 cells. (A) Pathway network of co-expressed lncRNAs and mRNAs in AGPS-silenced U251 cells. (B) Global signal transduction network of co-expressed lncRNAs and mRNAs in AGPS-silenced U251 cells. The nodes represent signaling pathways, lncRNAs and mRNAs and the arrows (or edges) represent the interaction/regulation between nodes. Ex, expression; pho, phosphorylation; a, activation; ind(e), indirect effect; b(a), binding/association; ubi, ubiquitination; dep, dephosphorylation; c, compound; s(c), state change; inh, inhibition; lncRNA, long non-coding RNA; AGPS, alkylglycerone phosphate synthase.

Article Snippet: AGPS shRNA lentiviral particles (shR-AGPS-1 and −2 groups; Santa Cruz Biotechnology, Inc.) or empty lentiviral particles used as a negative control (control group; Santa Cruz Biotechnology, Inc.) stably integrated cell lines were established following infection with 8 μg/ml lentiviruses of U251 cells using 5 μg/ml polybrene-containing RPMI-1640 medium.

Techniques: Transduction, Protein-Protein interactions, Expressing, Phospho-proteomics, Activation Assay, Binding Assay, Ubiquitin Proteomics, De-Phosphorylation Assay, Inhibition

Journal: Oncology Letters

Article Title: Effect of alkylglycerone phosphate synthase on the expression levels of lncRNAs in glioma cells and its functional prediction

doi: 10.3892/ol.2020.11927

Figure Lengend Snippet: Effect of AGPS silencing on the expression levels of tumor-related mRNAs in glioma cells. Reverse transcription-quantitative PCR was used to analyze the mRNA expression levels of tumor-related mRNAs in AGPS-silenced U251 cells. *P<0.05 vs. control group; # P<0.05 vs. shR-AGPS-1 group. COL1A2, collagen I α2; COL6A3, collagen 6 α3; THBS1, thrombospondin-1; FN1, fibronectin 1; SPP1, secreted phosphoprotein 1; ITGA11, integrin subunit α11; VEGFA, vascular endothelial growth factor A; IGF1R, insulin-like growth factor 1 receptor; EGFR, epidermal growth factor receptor; TLN2, Talin 2; PXN, Paxillin; PIK3CA, phosphoinositide 3-kinase α; SHC3, Src homology 2 domain containing transforming protein 3; FGF2, fibroblast growth factor 2; ANGPT2, angiopoietin 2; CSF3, colony stimulating factor 3; IL-7R, interleukin-7 receptor subunit α; PRKAA2, protein kinase AMP-activated α2; DDIT4, DNA damage inducible transcript 4; HSP90B1, heat shock protein 90 kDa β1; CREB5, cyclic AMP-responsive element-binding protein 5; TLR3, Toll-like receptor 3; IL-1B, interleukin-1β; CXCL8, chemokine ligand 8; PTGS2, prostaglandin G/H synthase 2; SDC4, syndecan-4; shRNA, short hairpin RNA; AGPS, alkylglycerone phosphate synthase.

Article Snippet: AGPS shRNA lentiviral particles (shR-AGPS-1 and −2 groups; Santa Cruz Biotechnology, Inc.) or empty lentiviral particles used as a negative control (control group; Santa Cruz Biotechnology, Inc.) stably integrated cell lines were established following infection with 8 μg/ml lentiviruses of U251 cells using 5 μg/ml polybrene-containing RPMI-1640 medium.

Techniques: Expressing, Reverse Transcription, Real-time Polymerase Chain Reaction, Control, Binding Assay, shRNA

Journal: Oncology Letters

Article Title: Effect of alkylglycerone phosphate synthase on the expression levels of lncRNAs in glioma cells and its functional prediction

doi: 10.3892/ol.2020.11927

Figure Lengend Snippet: lncRNA target pathway network in AGPS-silenced U251 cells. The regulatory core pathways of differential lncRNAs were identified using a lncRNA-gene-pathway network, indicating the association between lncRNAs and pathways in AGPS-silenced glioma U251 cells. Red represents the higher Degree values, blue represents the lower Degree values and purple represents the middle Degree values. AGPS, alkylglycerone phosphate synthase; lncRNA, long non-coding RNA.

Article Snippet: AGPS shRNA lentiviral particles (shR-AGPS-1 and −2 groups; Santa Cruz Biotechnology, Inc.) or empty lentiviral particles used as a negative control (control group; Santa Cruz Biotechnology, Inc.) stably integrated cell lines were established following infection with 8 μg/ml lentiviruses of U251 cells using 5 μg/ml polybrene-containing RPMI-1640 medium.

Techniques:

Journal: Scientific Reports

Article Title: Arabinogalactan-proteins of Zostera marina L. contain unique glycan structures and provide insight into adaption processes to saline environments

doi: 10.1038/s41598-020-65135-5

Figure Lengend Snippet: Reactivity of Zostera marina AGPs and their partial hydrolyses (with oxalic acid = Ox; by reduction of uronic acids = UR) with antibodies directed against AGP glycans by ELISA. ( a ) KM1 antibody with E. purpurea AGP and A. sativa AGP as positive controls. ( b ) LM2 and LM6 antibodies. ( c ) oligosaccharides with strong binding affinity to KM1, LM2 and LM6, respectively . ( d ) KM4 antibody with A. sativa AGP as positive control. ( e ) JIM8 and JIM 13 antibodies.

Article Snippet: Studies on Medicago sativa leaves showed an increase of AGPs recognized by the JIM8 antibody in NaCl-treated plants .

Techniques: Enzyme-linked Immunosorbent Assay, Binding Assay, Positive Control