Return to study ST001000 main page
MB Sample ID: SA079327
| Local Sample ID: | UMCGIBD00027 |
| Subject ID: | SU001207 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU001207 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| UMCGIBD00027 | SA079327 | FL012187 | CD | Diagnosis |
Collection:
| Collection ID: | CO001201 |
| Collection Summary: | PRISM subject stool samples were collected at the MGH gastroenterology clinic and stored at -80°C prior to DNA extraction. For the Netherlands validation cohort subjects enrolled collected stool at home and then froze it within 15 min in a conventional freezer. A research nurse visited all participants at home to collect home-frozen stool samples, which were then transported and stored at -80°C. The stool samples were kept frozen at -80°C prior to DNA extraction or metabolomic profiling. |
| Sample Type: | Stool |
| Storage Conditions: | Described in summary |
Treatment:
| Treatment ID: | TR001222 |
| Treatment Summary: | NA |
Sample Preparation:
| Sampleprep ID: | SP001215 |
| Sampleprep Summary: | Stool samples (weight range 50-5167.8 mg) were homogenized in 4 µL of water per milligram stool sample weight using a bead mill (TissueLyser II; Qiagen) and the aqueous homogenates were aliquoted for metabolite profiling analyses. |
Combined analysis:
| Analysis ID | AN001878 | AN001879 | AN001880 | AN001881 |
|---|---|---|---|---|
| Analysis type | MS | MS | MS | MS |
| Chromatography type | HILIC | HILIC | Reversed phase | Reversed phase |
| Chromatography system | Shimadzu Nexera X2 | Shimadzu Nexera X2 | Shimadzu Nexera X2 | Shimadzu Nexera X2 |
| Column | Waters 150 x 2 mm Atlantis HILIC | Phenomenex Luna NH2 (150 x 2.1mm,3um) | Waters 150 x 2 mm ACQUITY T3 | Waters Acquity BEH C8 (100 x 2.1mm,1.7um) |
| MS Type | ESI | ESI | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap | Thermo Exactive Plus Orbitrap |
| Ion Mode | POSITIVE | NEGATIVE | NEGATIVE | POSITIVE |
| Units | abundance | abundance | abundance | abundance |
Chromatography:
| Chromatography ID: | CH001359 |
| Instrument Name: | Shimadzu Nexera X2 |
| Column Name: | Waters 150 x 2 mm Atlantis HILIC |
| Chromatography Type: | HILIC |
| Chromatography ID: | CH001360 |
| Instrument Name: | Shimadzu Nexera X2 |
| Column Name: | Phenomenex Luna NH2 (150 x 2.1mm,3um) |
| Chromatography Type: | HILIC |
| Chromatography ID: | CH001361 |
| Instrument Name: | Shimadzu Nexera X2 |
| Column Name: | Waters 150 x 2 mm ACQUITY T3 |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH001362 |
| Instrument Name: | Shimadzu Nexera X2 |
| Column Name: | Waters Acquity BEH C8 (100 x 2.1mm,1.7um) |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS001734 |
| Analysis ID: | AN001878 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Detailed acquisition and data processing methods available in Fransoza et al. (2019) DOI 10.1038/s41564-018-0306-4 |
| Ion Mode: | POSITIVE |
| MS ID: | MS001735 |
| Analysis ID: | AN001879 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Detailed acquisition and data processing methods available in Fransoza et al. (2019) DOI 10.1038/s41564-018-0306-4 |
| Ion Mode: | NEGATIVE |
| MS ID: | MS001736 |
| Analysis ID: | AN001880 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Detailed acquisition and data processing methods available in Fransoza et al. (2019) DOI 10.1038/s41564-018-0306-4 |
| Ion Mode: | NEGATIVE |
| MS ID: | MS001737 |
| Analysis ID: | AN001881 |
| Instrument Name: | Thermo Exactive Plus Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Detailed acquisition and data processing methods available in Fransoza et al. (2019) DOI 10.1038/s41564-018-0306-4 |
| Ion Mode: | POSITIVE |
