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cm10 and cationic surfaces of q10 proteinchip arrays  (Ciphergen inc)

 
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    Structured Review

    Ciphergen inc cm10 and cationic surfaces of q10 proteinchip arrays
    Classification results
    Cm10 And Cationic Surfaces Of Q10 Proteinchip Arrays, supplied by Ciphergen inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/proteinchip+array+cm10/wcx+2/pmc03494530-212-13-21
    Average 90 stars, based on 1 article reviews
    cm10 and cationic surfaces of q10 proteinchip arrays - by Bioz Stars, 2026-10
    90/100 stars

    Images

    1) Product Images from "A critical assessment of SELDI-TOF-MS for biomarker discovery in serum and tissue of patients with an ovarian mass"

    Article Title: A critical assessment of SELDI-TOF-MS for biomarker discovery in serum and tissue of patients with an ovarian mass

    Journal: Proteome Science

    doi: 10.1186/1477-5956-10-45

    Classification results
    Figure Legend Snippet: Classification results

    Techniques Used:

    Pairwise comparisons between tumors of low malignant potential and hierarchical clustering of tissue data. Table with pairwise comparisons between mucinous and serous tumors of low malignant potential, cancer and benign tumor tissue. The number of upregulated (+) and downregulated (−) peaks is given for each comparison. Hierarchical clustering of CM10 tissue data. Clustering of 84 tissue samples using complete linkage and Pearson correlation distance on the 62 peaks that were differentially expressed (adjusted p-value < 0.05) between cancer, low malignant potential (divided in mucinous and serous), and benign tumor. The Z-score is calculated on the columns by subtracting the mean expression value of a column from each of the values and then dividing the resulting values by the standard deviation of the column. Color in the heat maps, therefore, indicates the relative expression level, with red being higher and blue lower than the mean expression value. The vertical side bar indicates the sample type: benign (red), mucinous LMP (green), serous LMP (purple), cancer (blue).
    Figure Legend Snippet: Pairwise comparisons between tumors of low malignant potential and hierarchical clustering of tissue data. Table with pairwise comparisons between mucinous and serous tumors of low malignant potential, cancer and benign tumor tissue. The number of upregulated (+) and downregulated (−) peaks is given for each comparison. Hierarchical clustering of CM10 tissue data. Clustering of 84 tissue samples using complete linkage and Pearson correlation distance on the 62 peaks that were differentially expressed (adjusted p-value < 0.05) between cancer, low malignant potential (divided in mucinous and serous), and benign tumor. The Z-score is calculated on the columns by subtracting the mean expression value of a column from each of the values and then dividing the resulting values by the standard deviation of the column. Color in the heat maps, therefore, indicates the relative expression level, with red being higher and blue lower than the mean expression value. The vertical side bar indicates the sample type: benign (red), mucinous LMP (green), serous LMP (purple), cancer (blue).

    Techniques Used: Expressing, Standard Deviation

    Comparison of detected peaks in serum and tissue
    Figure Legend Snippet: Comparison of detected peaks in serum and tissue

    Techniques Used:

    Related Articles

    Software:

    Article Title: Differential expression of proteomics models of colorectal cancer, colorectal benign disease and healthy controls
    Article Snippet: .. Experiments were performed using SELDI-TOF-MS instrument, chip WCX2, and the corresponding analytical software of Ciphergen-Protein-Chipsoftware 5.1 (Ciphergen Biosystems Inc, Fremont, CA). .. The reagents such as acetonitrile (HPLC grade), trifluoroacetic acid (TFA), sodium acetate (250 g), SPA ground substance, CHAPS, TRIS-HCL, DL-dithiothreitol (DTT) and urea, were bought from the Sigma-Aldrich Company (St. Louis, MO).

    other:

    Article Title: Detection and identification of NAP-2 as a biomarker in hepatitis B-related hepatocellular carcinoma by proteomic approach
    Article Snippet: Protein profiling of serum samples was performed using the eight-spot format WCX2 (weak cationic exchange) ProteinChip Arrays (Ciphergen Biosystems, Fremont, CA, USA).

    Article Title: Interest of major serum protein removal for Surface-Enhanced Laser Desorption/Ionization – Time Of Flight (SELDI-TOF) proteomic blood profiling
    Article Snippet: Denaturated samples were then mixed with 100 μL of binding buffer (100 mM Ammonium Acetate pH4, 0.1% Triton) for application on CM10 (weak cation exchange) ProteinChip (Ciphergen, Fremont, CA).

    Article Title: Discovery and identification of potential biomarkers of papillary thyroid carcinoma
    Article Snippet: ProteinChip Biosystems (Ciphergen PBS II plus SELDI-TOFMS) and WCX2 chip were purchased from Ciphergen Biosystems (USA).

    Biomarker Discovery:

    Article Title: Performance of a genetic algorithm for mass spectrometry proteomics
    Article Snippet: .. The low resolution dataset, DS1, was obtained from a ProteinChip Biomarker System-II (PBS-II) surface-enhanced laser desorption ionization time-of-flight (SELDI-TOF) instrument produced by Ciphergen Biosystems, Inc. of Fremont, CA, USA using a WCX2 ProteinChip array, also produced by Ciphergen. ..

    Article Title: Micronutrients attenuate progression of prostate cancer by elevating the endogenous inhibitor of angiogenesis, Platelet Factor-4
    Article Snippet: Serum (20 μL) was fractionated by anion-exchange chromatography adopted from the Expression Difference Mapping (EDM) Serum Fractionation protocol (Ciphergen, Fremont, CA) in a 96-well format filter plate. .. Expression difference mapping (EDM) on ProteinChip arrays was carried out using carboxymethyl ProteinChip arrays (CM10 ProteinChip arrays; Ciphergen, Fremont, CA) and readings were performed using the Protein Biology System IIC (PBSIIC) processed with the ProteinChip Software Biomarker Edition ® , Version 3.2.0 (Ciphergen, Fremont, CA). ..

    Produced:

    Article Title: Performance of a genetic algorithm for mass spectrometry proteomics
    Article Snippet: .. The low resolution dataset, DS1, was obtained from a ProteinChip Biomarker System-II (PBS-II) surface-enhanced laser desorption ionization time-of-flight (SELDI-TOF) instrument produced by Ciphergen Biosystems, Inc. of Fremont, CA, USA using a WCX2 ProteinChip array, also produced by Ciphergen. ..

    Expressing:

    Article Title: Micronutrients attenuate progression of prostate cancer by elevating the endogenous inhibitor of angiogenesis, Platelet Factor-4
    Article Snippet: Serum (20 μL) was fractionated by anion-exchange chromatography adopted from the Expression Difference Mapping (EDM) Serum Fractionation protocol (Ciphergen, Fremont, CA) in a 96-well format filter plate. .. Expression difference mapping (EDM) on ProteinChip arrays was carried out using carboxymethyl ProteinChip arrays (CM10 ProteinChip arrays; Ciphergen, Fremont, CA) and readings were performed using the Protein Biology System IIC (PBSIIC) processed with the ProteinChip Software Biomarker Edition ® , Version 3.2.0 (Ciphergen, Fremont, CA). ..



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    Image Search Results


    Classification results

    Journal: Proteome Science

    Article Title: A critical assessment of SELDI-TOF-MS for biomarker discovery in serum and tissue of patients with an ovarian mass

    doi: 10.1186/1477-5956-10-45

    Figure Lengend Snippet: Classification results

    Article Snippet: Protein profiles of serum and tissue samples were generated using anionic surfaces of CM10 and cationic surfaces of Q10 ProteinChip arrays (Ciphergen Biosystems Inc., Fremont, CA.).

    Techniques:

    Pairwise comparisons between tumors of low malignant potential and hierarchical clustering of tissue data. Table with pairwise comparisons between mucinous and serous tumors of low malignant potential, cancer and benign tumor tissue. The number of upregulated (+) and downregulated (−) peaks is given for each comparison. Hierarchical clustering of CM10 tissue data. Clustering of 84 tissue samples using complete linkage and Pearson correlation distance on the 62 peaks that were differentially expressed (adjusted p-value < 0.05) between cancer, low malignant potential (divided in mucinous and serous), and benign tumor. The Z-score is calculated on the columns by subtracting the mean expression value of a column from each of the values and then dividing the resulting values by the standard deviation of the column. Color in the heat maps, therefore, indicates the relative expression level, with red being higher and blue lower than the mean expression value. The vertical side bar indicates the sample type: benign (red), mucinous LMP (green), serous LMP (purple), cancer (blue).

    Journal: Proteome Science

    Article Title: A critical assessment of SELDI-TOF-MS for biomarker discovery in serum and tissue of patients with an ovarian mass

    doi: 10.1186/1477-5956-10-45

    Figure Lengend Snippet: Pairwise comparisons between tumors of low malignant potential and hierarchical clustering of tissue data. Table with pairwise comparisons between mucinous and serous tumors of low malignant potential, cancer and benign tumor tissue. The number of upregulated (+) and downregulated (−) peaks is given for each comparison. Hierarchical clustering of CM10 tissue data. Clustering of 84 tissue samples using complete linkage and Pearson correlation distance on the 62 peaks that were differentially expressed (adjusted p-value < 0.05) between cancer, low malignant potential (divided in mucinous and serous), and benign tumor. The Z-score is calculated on the columns by subtracting the mean expression value of a column from each of the values and then dividing the resulting values by the standard deviation of the column. Color in the heat maps, therefore, indicates the relative expression level, with red being higher and blue lower than the mean expression value. The vertical side bar indicates the sample type: benign (red), mucinous LMP (green), serous LMP (purple), cancer (blue).

    Article Snippet: Protein profiles of serum and tissue samples were generated using anionic surfaces of CM10 and cationic surfaces of Q10 ProteinChip arrays (Ciphergen Biosystems Inc., Fremont, CA.).

    Techniques: Expressing, Standard Deviation

    Comparison of detected peaks in serum and tissue

    Journal: Proteome Science

    Article Title: A critical assessment of SELDI-TOF-MS for biomarker discovery in serum and tissue of patients with an ovarian mass

    doi: 10.1186/1477-5956-10-45

    Figure Lengend Snippet: Comparison of detected peaks in serum and tissue

    Article Snippet: Protein profiles of serum and tissue samples were generated using anionic surfaces of CM10 and cationic surfaces of Q10 ProteinChip arrays (Ciphergen Biosystems Inc., Fremont, CA.).

    Techniques: