Summary of Study ST000823
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 PR000510. The data can be accessed directly via it's Project DOI: 10.21228/M8R68T 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 | ST000823 |
| Study Title | Metabolic profiling of cyst fluid from patients with Intraductal Pancreatic Mucinous Neoplasm (part II) |
| Study Type | MS analysis |
| Study Summary | The pancreatic cyst fluids were collected using a syringe aspiration of the cyst fluid immediately after surgical resection of the lesion. The cyst fluid were then aliquoted and stored in -80C freezer until ready to use. We plan on performing untargeted metabolomics analysis and unknown lipid analysis and identification on these pancreatic cyst fluid to find potential biomarkers that correlate with histopathological assessment and clinical behavior of these cystic lesions and thus to guide clinical management of patients. Abbreviations: IPMN - Intraductal Pancreatic Mucinous Neoplasm; MCN - mucinous cystic neoplasm; SCA - serous cystadenoma. |
| Institute | University of Michigan |
| Department | Biomedical Research Core Facilities |
| Laboratory | Metabolomics core |
| Last Name | Kachman |
| First Name | Maureen |
| Address | 6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714 |
| mkachman@med.umich.edu | |
| Phone | (734) 232-8175 |
| Submit Date | 2017-07-14 |
| Num Groups | 5 |
| Total Subjects | 10 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | d, wiff |
| Analysis Type Detail | LC-MS |
| Release Date | 2018-02-07 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000510 |
| Project DOI: | doi: 10.21228/M8R68T |
| Project Title: | Metabolic profiling of cyst fluid from patients with Intraductal Pancreatic Mucinous Neoplasm |
| Project Type: | MS analysis |
| Project Summary: | Identify novel cystic fluid biomarkers to guide clinical management of patients with intraductal pancreatic mucinous neoplasm (IPMN) by metabolic profiling of the cyst fluid. |
| Institute: | University of Michigan |
| Department: | Pathology |
| Laboratory: | Shi Lab |
| Last Name: | Shi |
| First Name: | Jiaqi |
| Address: | Ann Arbor, MI |
| Email: | jiaqis@umich.edu |
| Phone: | 734-647-3967 |
Subject:
| Subject ID: | SU000849 |
| Subject Type: | HUMAN |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Species Group: | Mammals |
Factors:
Subject type: HUMAN; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Diagnosis | Dysplasia |
|---|---|---|---|
| SA045845 | S00027604 | IPMN | LGD |
| SA045846 | S00027600 | IPMN | LGD |
| SA045847 | S00027601 | IPMN | LGD |
| SA045848 | S00027597 | IPMN | LGD |
| SA045849 | S00027602 | MCN | LGD |
| SA045850 | S00027603 | MCN | LGD |
| SA045851 | S00027596 | MCN | LGD |
| SA045852 | S00027605 | SCA | N/A |
| SA045853 | S00027598 | SCA | N/A |
| SA045854 | S00027599 | SCA | N/A |
| Showing results 1 to 10 of 10 |
Collection:
| Collection ID: | CO000843 |
| Collection Summary: | - |
| Sample Type: | Cyst fluid |
Treatment:
| Treatment ID: | TR000863 |
| Treatment Summary: | - |
Sample Preparation:
| Sampleprep ID: | SP000856 |
| Sampleprep Summary: | - |
| Sampleprep Protocol Filename: | A003_-_Untargeted_Metabolomics.pdf |
Combined analysis:
| Analysis ID | AN001306 | AN001307 | AN001308 | AN001309 |
|---|---|---|---|---|
| Analysis type | MS | MS | MS | MS |
| Chromatography type | Reversed phase | Reversed phase | Reversed phase | Reversed phase |
| Chromatography system | Agilent | Agilent | Shimadzu CTO-20A Nexera X2 | Shimadzu CTO-20A Nexera X2 |
| Column | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) |
| MS Type | ESI | ESI | ESI | ESI |
| MS instrument type | QTOF | QTOF | Triple TOF | Triple TOF |
| MS instrument name | Agilent 6530 QTOF | Agilent 6530 QTOF | ABI Sciex 5600+ TripleTOF | ABI Sciex 5600+ TripleTOF |
| Ion Mode | NEGATIVE | POSITIVE | NEGATIVE | POSITIVE |
| Units | peak area | peak area | peak area | peak area |
Chromatography:
| Chromatography ID: | CH000915 |
| Instrument Name: | Agilent |
| Column Name: | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH000916 |
| Instrument Name: | Shimadzu CTO-20A Nexera X2 |
| Column Name: | Waters Acquity HSS T3 (50 x 2.1mm,1.8um) |
| Column Temperature: | 55 |
| Flow Rate: | 0.400uL/min |
| Solvent A: | 40% acetonitrile/60% water; 10 mM ammonium acetate |
| Solvent B: | 10% acetonitrile/5% water/85% isopropanol; 10 mM ammonium acetate |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS001199 |
| Analysis ID: | AN001306 |
| Instrument Name: | Agilent 6530 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | NEGATIVE |
| Analysis Protocol File: | A003_-_Untargeted_Metabolomics.pdf |
| MS ID: | MS001200 |
| Analysis ID: | AN001307 |
| Instrument Name: | Agilent 6530 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | A003_-_Untargeted_Metabolomics.pdf |
| MS ID: | MS001201 |
| Analysis ID: | AN001308 |
| Instrument Name: | ABI Sciex 5600+ TripleTOF |
| Instrument Type: | Triple TOF |
| MS Type: | ESI |
| Ion Mode: | NEGATIVE |
| Analysis Protocol File: | A004_-_Shotgun_Lipidomics.pdf |
| MS ID: | MS001202 |
| Analysis ID: | AN001309 |
| Instrument Name: | ABI Sciex 5600+ TripleTOF |
| Instrument Type: | Triple TOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| Analysis Protocol File: | A004_-_Shotgun_Lipidomics.pdf |
