Summary of Study ST000241

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR000194. The data can be accessed directly via it's Project DOI: 10.21228/M89W2D This work is supported by NIH grant, U2C- DK119886.


This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST000241
Study TitleCyclobutene- and cyclobutane-functionalized fatty acids as novel biochemical probes of structure and function in HepG2 cells
Study TypeLipid analysis novel C18 fatty acid anologues in complex lipids
Study SummaryHuman hepatoma HepG2 cells (American Type Culture Collection; HB-8065) were grown in 75 ml tissue cell culture flasks in Eagle's minimal essential medium (EMEM) augmented with 10% fetal bovine serum at 37°C in a humidified atmosphere with 5% CO2. For treatment with fatty acids or analogues, the cells were seeded at a density of 2 × 106 cells in a T25-cm2 flask for 24 h. Each FA or analogue was added to the culture medium as a fatty acid-bovine serum albumin (BSA) complex (2.5:1, FA:BSA) to give the desired final concentration. The controls in these experiments were HepG2 cells with BSA alone. After 24 h treatment, the media was collected, cells were rinsed twice with PBS and cells were harvested for analysis. To each cell suspension prior to lipid extraction a standard mixture of 25 µg C15:0 PE, C17:0 PC and C71:1 TAG was added as standards. Extraction of lipids was performed according to the Folch method. For metabolomics analysis, the lipid extracts were resuspended in chloroform/methanol, 2:1 (v/v).All analyses were carried out using an Agilent 1200 Series HPLC, ACE 5 C8-300 column (2.1 x 100 mm) and linear gradient elution at a flow rate of 0.1 mL/min. Mobile phase A and B consisted of 0.1% formic acid; 10 mM ammonium acetate in H2O and 0.1% formic acid; 10 mM ammonium acetate in ACN/isopropanol (50/50; v/v), respectively. The injection volume was 4 µL. Separation of metabolites was achieved at the following gradient: T=0 min: 30% B; T=1 min: 30% B; T=25 min: 100% B; T=45 min: 100% B; T=47 min: 30% B; and T=60 min: 30% B (re-equilibration). The HPLC system was directly coupled to a Bruker Soalrix 70 Hybrid FTMS instrument equipped with electrospray ionization source (ESI) (Bruker Daltonics). The system was controlled by HyStar v. software. MS data was collected with resolving power of 78,000 (at m/z 400) in positive or negative mode under following conditions: a capillary voltage of (+/-) 4,500 V and an end plate offset of -500 V. The dry temperature was set at 180°C. Dry gas flow was maintained 4 L/min. Acquisition range was 244-1,800 m/z with 0.2 s ion accumulation time. LC-MS data was converted into mzXML format using CompassXport v. 3.0.6 and processed by mzMine v.2.10 [25] or XCMS data analysis software. Data processing involved mass detection, chromatographic peak detection and deconvolution, isotopic peaks grouping, normalization and peak alignment. Metabolite data were mean-centered and unit-variance scaled to remove the offsets and adjust the importance of high and low abundance metabolites to an equal level. Significantly altered metabolites were defined by a fold change (FC) >2 and p<0.05. Principal component analysis (PCA) and hierarchical clustering analysis (HCA) of signature metabolites altered in compounds treated cells compared to control were performed in the Metaboanalyst web portal (
University of Nebraska-Lincoln
LaboratoryDiRusso Black FATTT Lab
Last NameDiRusso
First NameConcetta
AddressDepartment of Biochemistry, University of Nebraska-Lincoln, N241 Beadle Center 1901 Vine St.
Phone402-472-6504 or 402-613-9293
Submit Date2015-09-09
Num Groups8
Total Subjects24+24=48
Study Comments8 groups in triplicate ran in both negative and positive mode
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2017-07-10
Release Version1
Concetta DiRusso Concetta DiRusso application/zip

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Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Concentration (uM) Treatment_compound
SA011136Control10 BSA
SA011137Control30 BSA
SA011138Control20 BSA
SA011139FAC3500 CB-cis
SA011140FAC2500 CB-cis
SA011141FAC1500 CB-cis
SA011142FAT3500 CB-trans
SA011143FAT2500 CB-trans
SA011144FAT1500 CB-trans
SA011145CKC2500 CK-cis
SA011146CKC3500 CK-cis
SA011147CKC1500 CK-cis
SA011148CKT3500 CK-trans
SA011149CKT2500 CK-trans
SA011150CKT1500 CK-trans
SA011151KC2500 K-cis
SA011152KC3500 K-cis
SA011153KC1500 K-cis
SA011154OA2500 Oleic acid
SA011155OA3500 Oleic acid
SA011156OA1500 Oleic acid
SA011157PA3500 Palmitic acid
SA011158PA1500 Palmitic acid
SA011159PA2500 Palmitic acid
Showing results 1 to 24 of 24