Summary of Study ST000361
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 PR000287. The data can be accessed directly via it's Project DOI: 10.21228/M8Z310 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000361 |
| Study Title | Characterization and Plasticity of the Metabolome in Peripheral Cells in Bipolar I Disorder |
| Study Type | Broad Spectrum LCMS |
| Study Summary | Patients with Bipolar I Disorder (BPI) and matched non-affected controls were recruited. Males and females from all races and ethnicities between the ages of 19-65 participated in the research. Skin biopsies were obtained and fibroblasts were isolated from each of these biopsies. A total of 1 x 〖10〗^7 fibroblasts cells were used for metabolomics. Cell pellets were flash frozen in liquid nitrogen and shipped on dry ice to the NIH Eastern Regional Comprehensive Metabolomic Resource Core at RTI International in North Carolina. Metabolomics will be determined using a broad spectrum metabolomics protocol by RTI |
| Institute | University of North Carolina |
| Department | Discovery Sciences |
| Laboratory | Sumner Lab |
| Last Name | Sumner |
| First Name | Susan |
| Address | Eastern Regional Comprehensive Metabolomics Resource Core, UNC Nutrition Research Institute, 500 Laureate Way, Kannapolis, NC, 28081 |
| susan_sumner @unc.edu | |
| Phone | 704-250-5066 |
| Submit Date | 2016-03-05 |
| Num Groups | 2 |
| Total Subjects | 18 |
| Num Males | 7 |
| Num Females | 11 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Waters) |
| Analysis Type Detail | LC-MS |
| Release Date | 2017-03-03 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000287 |
| Project DOI: | doi: 10.21228/M8Z310 |
| Project Title: | Characterization and Plasticity of the Metabolome in Peripheral Cells in Bipolar I Disorder |
| Project Type: | Broad Spectrum LCMS |
| Project Summary: | Bipolar disorder is a serious condition characterized by severe and debilitating elevations and depressions in mood and energy (1). Bipolar I disorder (BPI) is a particularly severe phenotype which is generally defined as having periods of abnormal moods ranging from “highs,” (mania or hypomania), to “lows” (depression), alternating with periods of relatively normal moods. Key problems in treating bipolar disorder relate to the fact that the pathophysiology of the disorder remains elusive; as a result, there are currently no laboratory tests for diagnosis, to aid treatment decisions, or to predict treatment responses. Recent advances in the study of bipolar disorder increasingly implicate mitochondrial and bioenergetic dysfunction as a common feature of the pathophysiology of the disorder (2). Shifts in metabolism from mitochondrial oxidative phosphorylation toward glycolysis have been observed in the brains of bipolar patients experiencing depressive mood states (3). Increased oxidative stress has also been shown in postmortem brain from bipolar patients (4), and in cultured peripheral fibroblasts from patients with major depression (5). However, little is known about the inherent metabolic state of peripheral cells during bipolar disorder, which may reflect the overall metabolic profile of the individual and may also impact the supply of nutrients to the brain. We propose to characterize the baseline metabolomic profiles of peripheral cells in cultured fibroblasts from patients with BPI and matched non-affected controls. Patients with Bipolar I Disorder (BPI) and matched non-affected controls were recruited. Males and females from all races and ethnicities between the ages of 19-65 participated in the research. Skin biopsies were obtained and fibroblasts were isolated from each of these biopsies. A total of 1 x 〖10〗^7 fibroblasts cells were used for metabolomics. Cell pellets were flash frozen in liquid nitrogen and shipped on dry ice to the NIH Eastern Regional Comprehensive Metabolomic Resource Core at RTI International in North Carolina. Metabolomics will be determined using a broad spectrum metabolomics protocol by RTI. |
| Institute: | University of Alabama, Birmingham |
| Department: | School of Medicine |
| Laboratory: | Department of Pathology |
| Last Name: | Landar |
| First Name: | Aimee |
| Address: | BMR2 506 901 9th St South, Birmingham AL 35205 |
| Email: | landar@uab.edu |
| Phone: | 205-975-9507 |
| Funding Source: | NIH, Common Fund, Pilot and Feasibility |
Subject:
| Subject ID: | SU000382 |
| Subject Type: | human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Age Or Age Range: | 27-61 years |
| Gender: | male/female |
| Human Race: | caucasian, hispanic, african american |
| Species Group: | Mammals |
Factors:
Subject type: human; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Group |
|---|---|---|
| SA016011 | Total_Pool_02 | - |
| SA016012 | Total_Pool_01 | - |
| SA016013 | Total_Pool_04 | - |
| SA016014 | Total_Pool_03 | - |
| SA016015 | Total_Pool_05 | - |
| SA016016 | A_0131 | Bipolar |
| SA016017 | A_0276 | Bipolar |
| SA016018 | A_0293 | Bipolar |
| SA016019 | A_0110 | Bipolar |
| SA016020 | A_0245 | Bipolar |
| SA016021 | A_0191 | Bipolar |
| SA016022 | A_0302 | Bipolar |
| SA016023 | B_0312 | Control |
| SA016024 | B_0128 | Control |
| SA016025 | B_0247 | Control |
| SA016026 | B_0061 | Control |
| SA016027 | B_0255 | Control |
| SA016028 | B_0318 | Control |
| SA016029 | B_0183 | Control |
| SA016030 | B_0203 | Control |
| SA016031 | B_0107 | Control |
| SA016032 | B_0182 | Control |
| SA016033 | B_0151 | Control |
| Showing results 1 to 23 of 23 |
Collection:
| Collection ID: | CO000376 |
| Collection Summary: | For extraction, 500 µL of an ice-cold solution of 0.005 mg/mL Tryptohan-d5 in 90:10 Methanol:Chloroform (v/v) was added to the tubes containing the thawed human dermal fibroblasts cell pellets. MagNA Lyser ceramic beads were added to the tubes, and a MagNA Lyser was used to beat the samples for two thirty seconds pulses at 2,000 rpm, placing the samples on cold block for 5 minutes in between pulses. Sonication for five minutes was performed to the beaten cell samples, followed by centrifugation at room temperature and at 16,000 rcf for 4 minutes. A 300 µL aliquot of each experimental cell sample homogenized supernatant was transferred to new pre-labeled 2.0 mL LoBind Eppendorf tubes and stored at -80 °C for one hour. |
| Sample Type: | fibroblasts |
Treatment:
| Treatment ID: | TR000396 |
| Treatment Summary: | NA |
Sample Preparation:
| Sampleprep ID: | SP000389 |
| Sampleprep Summary: | Whole study pooled QC samples were created by combining 175 µL aliquot from each of the study samples into a 20 mL scintillation vial. The QC pooled sample was then vortexed for 30 seconds on an analog vortex mixer. Aliquots, 300 µL, were transferred to five new pre-labeled 2.0 mL LoBind Eppendorf tubes and stored at -80 °C for one hour. Next, the supernatants of the study and whole study pooled QC samples, generated above, were dried overnight using a lyophilizer. The residue was reconstituted in 75 µL of reconstitution buffer ( 95:5 Water:Methanol, v/v) and mixed on a multiple tube vortexer for five minutes at 5,000 rpm. Then, the samples were centrifuged at room temperature at 16,000 rcf for four minutes, and the supernatants were transferred to clean pre-labeled autosampler vials for data acquisition. |
Combined analysis:
| Analysis ID | AN000592 | AN000593 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Waters Acquity | Waters Acquity |
| Column | Waters ACQUITY UPLC HSS T3 | Waters ACQUITY UPLC HSS T3 |
| MS Type | ESI | ESI |
| MS instrument type | QTOF | QTOF |
| MS instrument name | Waters Synapt-G2-Si | Waters Synapt-G2-Si |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | intensity | intensity |
Chromatography:
| Chromatography ID: | CH000424 |
| Chromatography Summary: | UPLC-MS spectra were collected for all samples. UPLC was performed on a Waters Acquity UPLC with an Acquity HSS T3 column (2.1x 100mm x 1.8 µm) at 50 °C using the reversed-phase separation. Water with 0.1% formic acid (mobile phase A) and methanol with 0.1% formic acid (mobile phase B) were used as mobile phases and the metabolites were chromatographically separated using a gradient separation: (see the 3. Sheridan-Mice-Microglia Cells_RP-Metadata and Analytical Metadata.xlsx file for the flow gradient). Mass spectroscopy analysis was performed using a Synapt G2 Si ESI-Q-TOF using a 10 µL injection volume. UPLC-MS data were collected over 70-1000 m/z in both positive and negative modes. |
| Methods Filename: | RTI-RCMRC-RP |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters ACQUITY UPLC HSS T3 |
| Flow Rate: | .4ml/min |
| Injection Temperature: | 8 C |
| Solvent A: | 100% water; 0.1% formic acid |
| Solvent B: | 100% methanol; 0.1% formic acid |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS000528 |
| Analysis ID: | AN000592 |
| Instrument Name: | Waters Synapt-G2-Si |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | RTI-RCMRC-RP-POS |
| MS ID: | MS000529 |
| Analysis ID: | AN000593 |
| Instrument Name: | Waters Synapt-G2-Si |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | NEGATIVE |
| Analysis Protocol File: | RTI-RCMRC-RP-NEG |
