Summary of Study ST002281
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 PR001461. The data can be accessed directly via it's Project DOI: 10.21228/M8W122 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
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.
| Study ID | ST002281 |
| Study Title | Metabolite patterns between isogenic normal hiPSCs and Trisomy hiPSC |
| Study Summary | We wanted to compare metabolites patterns between isogenic normal hiPSCs and Trisomy hiPSCs. All hiPSCs cell lines were generated from same mosaic Down symdrome patient. |
| Institute | Guangdong Provincial People's Hospital |
| Department | Medical Research Center |
| Laboratory | Liu lab |
| Last Name | Liu |
| First Name | Juli |
| Address | Zhongshan 2nd road |
| liujuli@gdph.org.cn | |
| Phone | +8602083827812 |
| Submit Date | 2022-09-09 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | APCI-MS |
| Release Date | 2024-09-13 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001461 |
| Project DOI: | doi: 10.21228/M8W122 |
| Project Title: | Metabolite patterns between isogenic normal hiPSCs and Trisomy hiPSCs |
| Project Summary: | We wanted to compare metabolites patterns between isogenic normal hiPSCs and Trisomy hiPSCs. All hiPSCs cell lines were generated from same mosaic Down symdrome patient. |
| Institute: | Guangdong provincial people's hospital |
| Department: | Medical Research Center |
| Laboratory: | Liu Lab |
| Last Name: | Liu |
| First Name: | Juli |
| Address: | Zhongshan 2nd road |
| Email: | liujuli@gdph.org.cn |
| Phone: | +8602083827812 |
Subject:
| Subject ID: | SU002367 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Cell Strain Details: | Human pluripotent stem cells |
| Species Group: | Mammals |
Factors:
Subject type: Cultured cells; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Genotype | Treatment |
|---|---|---|---|
| SA218473 | HFX3_1074585_CN_blank | blank | negative mode-blank |
| SA218474 | HFX3_1074585_CP_blank | blank | positive mode-blank |
| SA218475 | HFX3_CN1_FZTM220002975-1A_N1 group | isogenic normal hiPSCs (N1) | negative mode-normal |
| SA218476 | HFX3_CP1_FZTM220002975-1A_N1 group | isogenic normal hiPSCs (N1) | positive mode-normal |
| SA218477 | HFX3_CN2_FZTM220002976-1A_N2 group | isogenic normal hiPSCs (N2) | negative mode-normal |
| SA218478 | HFX3_CP2_FZTM220002976-1A_N2 group | isogenic normal hiPSCs (N2) | positive mode-normal |
| SA218479 | HFX3_CN3_FZTM220002977-1A_N3 group | isogenic normal hiPSCs (N3) | negative mode-normal |
| SA218480 | HFX3_CP3_FZTM220002977-1A_N3 group | isogenic normal hiPSCs (N3) | positive mode-normal |
| SA218481 | HFX3_1074585_CN_QC1 | quality control 1 (QC1) | negative mode-quality control 1 (QC1) |
| SA218482 | HFX3_1074585_CP_QC1 | quality control 1 (QC1) | positive mode-quality control 1 (QC1) |
| SA218483 | HFX3_1074585_CN_QC2 | quality control 2 (QC2) | negative mode-quality control 2 (QC2) |
| SA218484 | HFX3_1074585_CP_QC2 | quality control 2 (QC2) | positive mode-quality control 2 (QC2) |
| SA218485 | HFX3_1074585_CN_QC3 | quality control 3 (QC3) | negative mode-quality control 3 (QC3) |
| SA218486 | HFX3_1074585_CP_QC3 | quality control 3 (QC3) | positive mode-quality control 3 (QC3) |
| SA218467 | HFX3_CN4_FZTM220002978-1A_P1 group | Trisomy 21 hiPSCs (P1) | negative mode-Trisomy 21 |
| SA218468 | HFX3_CP4_FZTM220002978-1A_P1 group | Trisomy 21 hiPSCs (P1) | positive mode-Trisomy 21 |
| SA218469 | HFX3_CN5_FZTM220002979-1A_P2 group | Trisomy 21 hiPSCs (P2) | negative mode-Trisomy 21 |
| SA218470 | HFX3_CP5_FZTM220002979-1A_P2 group | Trisomy 21 hiPSCs (P2) | positive mode-Trisomy 21 |
| SA218471 | HFX3_CN6_FZTM220002980-1A_P3 group | Trisomy 21 hiPSCs (P3) | negative mode-Trisomy 21 |
| SA218472 | HFX3_CP6_FZTM220002980-1A_P3 group | Trisomy 21 hiPSCs (P3) | positive mode-Trisomy 21 |
| Showing results 1 to 20 of 20 |
Collection:
| Collection ID: | CO002360 |
| Collection Summary: | Metabolites patterns between isogenic hiPSCs and Trisomy 21 hiPSCs. |
| Sample Type: | iPSC cells |
| Storage Conditions: | Room temperature |
Treatment:
| Treatment ID: | TR002379 |
| Treatment Summary: | All hiPSCs were cultured in mTesR1 medium in 6-well plate pre-coated with Matrigel in 37 degree. |
Sample Preparation:
| Sampleprep ID: | SP002373 |
| Sampleprep Summary: | The samples were placed in the EP tubes and resuspended with prechilled 80% methanol by well vortex. Then the samples were melted on ice and whirled for 30 s. After the sonification for 6 min, they were centrifuged at 5,000 rpm, 4°C for 1 min. The supernatant was freeze-dried and dissolvedwith 10% methanol. Finally, the solution was injected into the LC-MS/MS system analysis. |
Chromatography:
| Chromatography ID: | CH002759 |
| Chromatography Summary: | UHPLC-MS/MS analyses were performed using a Vanquish UHPLC system (ThermoFisher, Germany) coupled with an Orbitrap Q ExactiveTMHF-X mass spectrometer (Thermo Fisher,Germany) in Novogene Co., Ltd. (Beijing, China). Samples were injected onto a Hypesil Gold column (100×2.1 mm, 1.9µm) using a 17-min linear gradient at a flow rate of 0.2mL/min. The eluents for the positive polarity mode were eluent A (0.1% FA in Water) and eluent B (Methanol).The eluents for the negative polarity mode were eluent A (5 mMammonium acetate, pH 9.0) and eluent B (Methanol).The solvent gradient was set as follows: 2% B, 1.5 min; 2-100% B, 3 min; 100% B, 10 min;100-2% B, 10.1 min;2% B, 12 min. Q ExactiveTM HF-X mass spectrometer was operated in positive/negative polarity mode with spray voltage of 3.5 kV, capillary temperature of 320°C, sheath gas flow rate of 35 psi and aux gas flow rate of 10 L/min, S-lens RF level of 60, Aux gas heater temperature of 350°C. |
| Instrument Name: | Thermo Vanquish |
| Column Name: | Hypesil Gold |
| Flow Gradient: | 2% B, 1.5 min; 2-100% B, 3 min; 100% B, 10 min;100-2% B, 10.1 min;2% B, 12 min |
| Flow Rate: | 0.2mL/min |
| Solvent A: | 100% water; 5 mM ammonium acetate, pH 9.0 |
| Solvent B: | 100% methanol |
| Chromatography Type: | Reversed phase |
Analysis:
| Analysis ID: | AN003725 |
| Analysis Type: | MS |
| Chromatography ID: | CH002759 |
| Num Factors: | 20 |
| Num Metabolites: | 458 |
| Rt Units: | Minutes |
| Units: | pmoles/l |
| Analysis ID: | AN003726 |
| Analysis Type: | MS |
| Chromatography ID: | CH002759 |
| Num Factors: | 20 |
| Num Metabolites: | 320 |
| Rt Units: | Minutes |
| Units: | pmoles/l |
