Summary of study ST000087

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000079. The data can be accessed directly via it's Project DOI: 10.21228/M82S3K This work is supported by NIH grant, U2C- DK119886.

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Study IDST000087
Study TitleA study of changes in lipid metabolism of ovarian cancer cells co-cultured with adipocytes: GC-TOF MS analysis
Study Typetimecourse study
Study SummaryThis West Coast Metabolomics Center pilot and feasibility project was granted to Ernst Lengyel  (University of Chicago). The biology of ovarian cancer (OvCa) is clearly distinct from that of most epithelial tumors, in that hematogenous metastases are rare, and ovarian tumors remain confined to the peritoneal cavity. The omentum, a large pad of fat tissue (20x13x3cm) covering the bowel, is the most common site of OvCa metastasis. It consists primarily of adipocytes, which become the principal microenvironment for the OvCa cells. The underlying hypothesis for this application is that, in the presence of adipocytes, the metabolism of OvCa cells is reprogramed and shifts towards lipid utilization, which provides energy that facilitates tumor growth and metastasis. Preliminary results suggest that primary human omental adipocytes secrete cytokines which promote the metastasis of OvCa cells to the omentum and their subsequent invasion. Once metastasis has occurred, OvCa cells induce lipolysis in omental adipocytes, and use the energy derived from these lipids to proliferate. To study the metabolic changes in the tumor microenvironment we have established a 3D organotypic culture of the human omentum using primary human cells established from patient tissue. Metabolic studies will be performed on adipocytes and OvCa cells individually, on conditioned media and on adipocytes and OvCa cells co-cultured in our 3D model, with the goal of arriving at a comprehensive analysis of primary metabolites and lipids in the tumor microenvironment. In the current investigation, untargeted analysis of primary metabolites and complex lipids were conducted on adipocytes and OvCa cells individually, on conditioned media and on adipocytes and OvCa cells co-cultured in our 3D model. Analysis of oxylipins was conducted on conditioned media. To gain better understanding of the dynamic regulation of metabolic pathways we will also perform metabolic flux analysis using labeled cells (13C-glucose, 13C-glutamine) in the 3D culture model. The primary objective of this study is to gain insight into the dynamic interactions between OvCa cells and human adipocytes with the anticipation of elucidating targets of therapeutic intervention. 
Institute
University of California, Davis
DepartmentGenome and Biomedical Sciences Facility
LaboratoryWCMC Metabolomics Core
Last NameFiehn
First NameOliver
Address1315 Genome and Biomedical Sciences Facility 451 Health Sciences Drive Davis, CA 95616
Emailofiehn@ucdavis.edu
Phone(530) 754-8258
Submit Date2014-06-11
Num Groups2
Total Subjects14
Study CommentsLipidomics profiles for study
For the co-culture Human Adipocytes were grown in presence of SKOV3ip1 ovarian cancer cells
For control samples the adipocytes were grown in the absence of SKOV3ip1 ovarian cancer cells
---
Exp design 2 x 14
Final result is obtained by merging results from both files and applying dilution factor.
Reason was high TG concentration in positive mode only
Raw Data File (Positive Mode_TGs) (dilution1)
Raw Data File (Positive Mode_Non-TGs) (dilution2)
Raw Data AvailableYes
Raw Data File Type(s)binary files .peG,.cdf, .txt files
Uploaded File Size5.1 G
Analysis Type DetailGC-MS
Release Date2014-09-18
Release Version1
Oliver Fiehn Oliver Fiehn
https://dx.doi.org/10.21228/M82S3K
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000079
Project DOI:doi: 10.21228/M82S3K
Project Title:A study of changes in lipid metabolism of ovarian cancer cells co-cultured with adipocytes
Project Type:timecourse study
Project Summary:A study of changes in lipid metabolism of ovarian cancer cells co-cultured with adipocytestimecourse studyThis West Coast Metabolomics Center pilot and feasibility project was granted to Ernst Lengyel  (University of Chicago). The biology of ovarian cancer (OvCa) is clearly distinct from that of most epithelial tumors, in that hematogenous metastases are rare, and ovarian tumors remain confined to the peritoneal cavity. The omentum, a large pad of fat tissue (20x13x3cm) covering the bowel, is the most common site of OvCa metastasis. It consists primarily of adipocytes, which become the principal microenvironment for the OvCa cells. The underlying hypothesis for this application is that, in the presence of adipocytes, the metabolism of OvCa cells is reprogramed and shifts towards lipid utilization, which provides energy that facilitates tumor growth and metastasis. Preliminary results suggest that primary human omental adipocytes secrete cytokines which promote the metastasis of OvCa cells to the omentum and their subsequent invasion. Once metastasis has occurred, OvCa cells induce lipolysis in omental adipocytes, and use the energy derived from these lipids to proliferate. To study the metabolic changes in the tumor microenvironment we have established a 3D organotypic culture of the human omentum using primary human cells established from patient tissue. Metabolic studies will be performed on adipocytes and OvCa cells individually, on conditioned media and on adipocytes and OvCa cells co-cultured in our 3D model, with the goal of arriving at a comprehensive analysis of primary metabolites and lipids in the tumor microenvironment. In the current investigation, untargeted analysis of primary metabolites and complex lipids were conducted on adipocytes and OvCa cells individually, on conditioned media and on adipocytes and OvCa cells co-cultured in our 3D model. Analysis of oxylipins was conducted on conditioned media. To gain better understanding of the dynamic regulation of metabolic pathways we will also perform metabolic flux analysis using labeled cells (13C-glucose, 13C-glutamine) in the 3D culture model. The primary objective of this study is to gain insight into the dynamic interactions between OvCa cells and human adipocytes with the anticipation of elucidating targets of therapeutic intervention.
Institute:University of California, Davis
Department:Genome and Biomedical Sciences Facility
Laboratory:WCMC Metabolomics Core
Last Name:Fiehn
First Name:Oliver
Address:1315 Genome and Biomedical Sciences Facility,451 Health Sciences Drive, Davis, CA 95616
Email:ofiehn@ucdavis.edu
Phone:(530) 754-8258
Funding Source:NIH U24DK097154

Subject:

Subject ID:SU000106
Subject Type:Human cells
Subject Species:Homo sapiens
Taxonomy ID:9606
Genotype Strain:Human Adipocytes
Species Group:Human

Factors:

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

mb_sample_id local_sample_id Treatment Time Point
SA004533S29FHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 18 hours
SA004534S29DHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 18 hours
SA004535S29BHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 18 hours
SA004536S26FHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 18 hours
SA004537S30AHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 18 hours
SA004538S30EHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 18 hours
SA004539S30CHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 18 hours
SA004541S19FHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 4 hours
SA004542S19BHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 4 hours
SA004544S17GHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 4 hours
SA004545S17BHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 4 hours
SA004603S20AHuman Adipocytes grown in the ABSENCE of SKOV3ip1 OvCa Cells (Control) 4 hours
SA004546S26GHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 18 hours
SA004547S29GHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 18 hours
SA004548S30DHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 18 hours
SA004549S29EHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 18 hours
SA004550S30BHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 18 hours
SA004551S29CHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 18 hours
SA004552S30FHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 18 hours
SA004553S19CHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 4 hours
SA004554S19GHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 4 hours
SA004555S17FHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 4 hours
SA004556S17AHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 4 hours
SA004557S17CHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 4 hours
SA004558S20BHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 4 hours
SA004559S19AHuman Adipocytes grown in the PRESENCE of SKOV3ip1 OvCa cells (Co-Culture) 4 hours
SA004575S32EMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 18 hours
SA004576S31GMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 18 hours
SA004577S33BMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 18 hours
SA004578S31AMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 18 hours
SA004579S32CMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 18 hours
SA004581S31DMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 18 hours
SA004582S23CMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 4 hours
SA004583S24FMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 4 hours
SA004584S26CMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 4 hours
SA004585S24AMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 4 hours
SA004586S20GMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 4 hours
SA004587S25BMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 4 hours
SA004588S25GMedia from Human Adipocytes and SKOV3ip1 OvCa Cells Co-Cultured 4 hours
SA004562S33CMedia from Human Adipocytes Culturing Only 18 hours
SA004563S32AMedia from Human Adipocytes Culturing Only 18 hours
SA004564S32FMedia from Human Adipocytes Culturing Only 18 hours
SA004565S31EMedia from Human Adipocytes Culturing Only 18 hours
SA004567S31BMedia from Human Adipocytes Culturing Only 18 hours
SA004568S24BMedia from Human Adipocytes Culturing Only 4 hours
SA004569S25CMedia from Human Adipocytes Culturing Only 4 hours
SA004570S26AMedia from Human Adipocytes Culturing Only 4 hours
SA004571S24GMedia from Human Adipocytes Culturing Only 4 hours
SA004572S23FMedia from Human Adipocytes Culturing Only 4 hours
SA004573S23AMedia from Human Adipocytes Culturing Only 4 hours
SA004574S20CMedia from Human Adipocytes Culturing Only 4 hours
SA004589S33DMedia from SKOV3ip1 OvCa Cells Culturing Only 18 hours
SA004590S31CMedia from SKOV3ip1 OvCa Cells Culturing Only 18 hours
SA004591S31FMedia from SKOV3ip1 OvCa Cells Culturing Only 18 hours
SA004592S32DMedia from SKOV3ip1 OvCa Cells Culturing Only 18 hours
SA004593S32GMedia from SKOV3ip1 OvCa Cells Culturing Only 18 hours
SA004594S32BMedia from SKOV3ip1 OvCa Cells Culturing Only 18 hours
SA004595S30GMedia from SKOV3ip1 OvCa Cells Culturing Only 18 hours
SA004596S20FMedia from SKOV3ip1 OvCa Cells Culturing Only 4 hours
SA004597S24CMedia from SKOV3ip1 OvCa Cells Culturing Only 4 hours
SA004598S25FMedia from SKOV3ip1 OvCa Cells Culturing Only 4 hours
SA004599S25AMedia from SKOV3ip1 OvCa Cells Culturing Only 4 hours
SA004600S23GMedia from SKOV3ip1 OvCa Cells Culturing Only 4 hours
SA004601S23BMedia from SKOV3ip1 OvCa Cells Culturing Only 4 hours
SA004606S26BMedia from SKOV3ip1 OvCa Cells Culturing Only 4 hours
SA004609S34DSKOV3ip1 OvCa cells grown in the ABSENCE of human adipocytes (Control) 18 hours
SA004610S35DSKOV3ip1 OvCa cells grown in the ABSENCE of human adipocytes (Control) 18 hours
SA004611S34FSKOV3ip1 OvCa cells grown in the ABSENCE of human adipocytes (Control) 18 hours
SA004612S35FSKOV3ip1 OvCa cells grown in the ABSENCE of human adipocytes (Control) 18 hours
SA004613S34BSKOV3ip1 OvCa cells grown in the ABSENCE of human adipocytes (Control) 18 hours
SA004614S33GSKOV3ip1 OvCa cells grown in the ABSENCE of human adipocytes (Control) 18 hours
SA004615S35ASKOV3ip1 OvCa cells grown in the ABSENCE of human adipocytes (Control) 18 hours
SA004623S34ESKOV3ip1 OvCa cells grown in the PRESENCE of Human Adipocytes (Co-Culture) 18 hours
SA004624S35ESKOV3ip1 OvCa cells grown in the PRESENCE of Human Adipocytes (Co-Culture) 18 hours
SA004625S35GSKOV3ip1 OvCa cells grown in the PRESENCE of Human Adipocytes (Co-Culture) 18 hours
SA004626S34GSKOV3ip1 OvCa cells grown in the PRESENCE of Human Adipocytes (Co-Culture) 18 hours
SA004627S35BSKOV3ip1 OvCa cells grown in the PRESENCE of Human Adipocytes (Co-Culture) 18 hours
SA004628S34ASKOV3ip1 OvCa cells grown in the PRESENCE of Human Adipocytes (Co-Culture) 18 hours
SA004629S34CSKOV3ip1 OvCa cells grown in the PRESENCE of Human Adipocytes (Co-Culture) 18 hours
Showing results 1 to 79 of 79

Collection:


Treatment:


Sample Preparation:


Combined analysis:

Analysis ID AN000139
Analysis type MS
Chromatography type GC
Chromatography system Agilent 6890N
Column Restek Corporation Rtx-5Sil MS
MS Type EI
MS instrument type GC-TOF
MS instrument name Leco GC-TOF
Ion Mode POSITIVE
Units Peak area

Chromatography:

Chromatography ID:CH000099
Chromatography Summary:GC
Methods Filename:Data_Dictionary_Fiehn_laboratory_GCTOF_MS_primary_metabolism_10-15-2013_general.pdf
Instrument Name:Agilent 6890N
Column Name:Restek Corporation Rtx-5Sil MS
Column Pressure:7.7 PSI (initial condition)
Column Temperature:50 - 330C
Flow Rate:1 ml/min
Injection Temperature:50C ramped to 250C by 12C/s
Sample Injection:0.5l
Oven Temperature:50C for 1 min, then ramped at 20C/min to 330C, held constant for 5 min
Transferline Temperature:230C
Washing Buffer:Ethyl Acetate
Sample Loop Size:30 m length x 0.25 mm internal diameter
Randomization Order:Excel generated
Chromatography Type:GC

MS:

MS ID:MS000115
Analysis ID:AN000139
Instrument Name:Leco GC-TOF
Instrument Type:GC-TOF
MS Type:EI
Ion Mode:POSITIVE
Ion Source Temperature:250°C
Ionization Energy:70eV
Mass Accuracy:Nominal
Source Temperature:250°C
Scanning Range:80-500 Da
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