Peakstat

Manufactured by Human Metabolome Technologies

Sourced in Japan

PeakStat is a software tool developed by Human Metabolome Technologies for data analysis of metabolomics data. It provides automated peak detection and quantification functions for metabolite identification and profiling.

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Lab products found in correlation

Samplestat, by Human Metabolome Technologies (5 mentions) Agilent ce tofms system, by Agilent Technologies (1 mentions) Internal standard solution, by Human Metabolome Technologies (1 mentions) Jmp 7, by SAS Institute (1 mentions) Prism 5, by GraphPad (1 mentions) H3304 1002, by Human Metabolome Technologies (1 mentions) 5 kda cutoff filter, by Merck Group (1 mentions) Micro smash ms 100r, by TOMY (1 mentions)

5 protocols using peakstat

Metabolomic Analysis of 3T3-L1 Cells

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Confluent 3T3-L1 cells in 90-mm tissue culture dishes were incubated for 3 h with 10 mL of DMEM-MG containing 0.1% (v/v) DMSO or 20 μM DIF-1, DIF-1(3M), or CP-DIF-1; the assay was performed in duplicate. The culture media were removed, and the cells were washed with 10 mL per dish of 5% (w/v) mannitol solution and then 2 mL of the same solution. The cells were collected by scraping in methanol (1.3 mL/well) containing 10 μM internal standard solution (Human Metabolome Technologies, Tokyo, Japan) and transferred into eight centrifugation tubes. Ionic metabolites were analyzed by capillary electrophoresis time-of-flight mass spectrometry (Agilent CE-TOFMS system; Agilent Technologies, Waldbronn, Germany) as described previously [23 (link),54 (link),55 (link),56 (link),57 (link)]. Relative quantification data for the identified metabolites were used for hierarchical cluster analysis (HCA) and principal component analysis (PCA) performed with the proprietary software, PeakStat and SampleStat (Human Metabolome Technologies), respectively, to produce a metabolome heat map and a metabolome pathway-map.

Kubohara Y., Homma Y., Shibata H., Oshima Y, & Kikuchi H. (2021). Dictyostelium Differentiation-Inducing Factor-1 Promotes Glucose Uptake, at Least in Part, via an AMPK-Dependent Pathway in Mouse 3T3-L1 Cells. International Journal of Molecular Sciences, 22(5), 2293.

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Comprehensive Metabolomic Profiling by CE-MS

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Metabolome analysis was performed as a service by Human Metabolome Technologies, Inc. (Yamagata, Japan). Targeted 1200 free metabolites in the blood were quantified in the plasma fraction by capillary electrophoresis mass spectrometry (CE-MS) as described previously [41 (link),42 (link)]. All samples were analysed in triplicate, and the mean value was used for analysis. Hierarchical cluster analysis and principal component analysis (PCA) analyses were performed using PeakStat and SampleStat, the proprietary statistical analysis software developed by Human Metabolome Technologies, Inc. Metabolic pathways and metabolic profiling were analysed using the Kyoto Encyclopedia of Genes and Genomes (KEGG) database (available in the public domain at www.genome.jp/kegg) and the Human Metabolome Database (HMDB; hmdb.ca), respectively.

Usui N., Iwata K., Miyachi T., Takagai S., Wakusawa K., Nara T., Tsuchiya K.J., Matsumoto K., Kurita D., Kameno Y., Wakuda T., Takebayashi K., Iwata Y., Fujioka T., Hirai T., Toyoshima M., Ohnishi T., Toyota T., Maekawa M., Yoshikawa T., Maekawa M., Nakamura K., Tsujii M., Sugiyama T., Mori N, & Matsuzaki H. (2020). VLDL-specific increases of fatty acids in autism spectrum disorder correlate with social interaction. EBioMedicine, 58, 102917.

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Metabolomic Analysis of Cellular Samples

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For the metabolome analyses, PCA was conducted by using SampleStat (version 3.14; Human Metabolome Technologies), and hierarchical clustering analysis was conducted by PeakStat (version 3.18, Human Metabolome Technologies). Each metabolite was compared by Welch's t test. Other statistical calculations comparing the results between two groups for FACS, glutathione, and Western blot analyses were conducted by Student's t test using GraphPad Prism (version 5.0; GraphPad Software, La Jolla, CA,
http://www.graphpad.com).

Sato Y., Kobayashi H., Higuchi T., Shimada Y., Ida H, & Ohashi T. (2016). Metabolomic Profiling of Pompe Disease‐Induced Pluripotent Stem Cell‐Derived Cardiomyocytes Reveals That Oxidative Stress Is Associated with Cardiac and Skeletal Muscle Pathology. Stem Cells Translational Medicine, 6(1), 31-39.

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Metabolomic Analysis of Biological Samples

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Data were analyzed using SampleStat (Human Metabolome Technologies Inc., Tsuruoka, Japan) for Principal Component Analysis (PCA), PeakStat (Human Metabolome Technologies) for Hierarchical Cluster Analysis (HCA), JMP 7.0 (SAS Institute Inc., Cary, NC, USA) and Graph Pad Prism 5.01 (GraphPad Software Inc., San Diego, CA). Values are expressed as means with standard deviation (SD). Variables between or among groups were compared using Mann-Whitney U test or One-way ANOVA with Bonferroni’s multiple comparisons test. Relationships between factors were evaluated using Spearman’s test. P values < 0.05 were considered statistically significant.

Matsuura Y., Yamashita A., Zhao Y., Iwakiri T., Yamasaki K., Sugita C., Koshimoto C., Kitamura K., Kawai K., Tamaki N., Zhao S., Kuge Y, & Asada Y. (2017). Altered glucose metabolism and hypoxic response in alloxan-induced diabetic atherosclerosis in rabbits. PLoS ONE, 12(4), e0175976.

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Islet Metabolite Extraction and Profiling

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Approximately 5 mg of frozen isolated islets were plunged into 450 mL of 50% acetonitrile/Milli-Q water containing internal standards (H3304-1002; Human Metabolome Technologies, Inc., Tsuruoka, Japan) at 0°C to inactivate enzymes. The tissue was homogenized twice at 1,500 rpm for 120 s using a tissue homogenizer (Micro Smash MS100R; Tomy Digital Biology Co., Ltd., Tokyo, Japan), and the homogenate was centrifuged at 2,300g and 4°C for 5 min. Subsequently, 400 mL of the upper aqueous layer was centrifugally filtered through a 5-kDa cutoff filter (Millipore, Billerica, MA) at 9,100g and 4°C for 120 min to remove proteins. The filtrate was centrifugally concentrated and resuspended in 25 mL of Milli-Q water for capillary electrophoresis mass spectrometry analysis. Metabolome measurements were carried out through a facility service at Human Metabolome Technologies, Inc. Hierarchical cluster analysis was performed using the software PeakStat and SampleStat (Human Metabolome Technologies, Inc.). Detected metabolites were plotted on metabolic pathway maps using Visualization and Analysis of Networks containing Experimental Data (VANTED) software (26) .

Omori K., Nakamura A., Miyoshi H., Yamauchi Y., Kawata S., Takahashi K., Kitao N., Nomoto H., Kameda H., Cho K.Y., Terauchi Y, & Atsumi T. (2021). Glucokinase Inactivation Paradoxically Ameliorates Glucose Intolerance by Increasing β-Cell Mass in db/db Mice. Diabetes, 70(4).

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