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MB Sample ID: SA032431
| Local Sample ID: | AMD04_160 |
| Subject ID: | SU000613 |
| Subject Type: | HUman |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Age Or Age Range: | 51-95 |
| Gender: | 253 female; 143 male |
| Human Smoking Status: | 5 smokers; 113 ex-smokers; 275 non smokers |
| Human Inclusion Criteria: | For AMD group: clinical diagnosis of AMD, confirmed on color fundus photographs; For controls: age equal or superior than 50 years old, with normal macular health |
| Human Exclusion Criteria: | Diagnosis of any other vitreoretinal disease, active uveitis or ocular infection, significant media opacities that precluded the observation of the ocular fundus, refractive error equal or greater than 6 diopters of spherical equivalent, past history of retinal surgery, history of any ocular surgery or intra-ocular procedure (such as laser and intra-ocular injections) within the 90 days prior to enrolment, and diagnosis of diabetes mellitus, with or without concomitant diabetic retinopathy. |
| Species Group: | Human |
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Subject:
| Subject ID: | SU000613 |
| Subject Type: | HUman |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Age Or Age Range: | 51-95 |
| Gender: | 253 female; 143 male |
| Human Smoking Status: | 5 smokers; 113 ex-smokers; 275 non smokers |
| Human Inclusion Criteria: | For AMD group: clinical diagnosis of AMD, confirmed on color fundus photographs; For controls: age equal or superior than 50 years old, with normal macular health |
| Human Exclusion Criteria: | Diagnosis of any other vitreoretinal disease, active uveitis or ocular infection, significant media opacities that precluded the observation of the ocular fundus, refractive error equal or greater than 6 diopters of spherical equivalent, past history of retinal surgery, history of any ocular surgery or intra-ocular procedure (such as laser and intra-ocular injections) within the 90 days prior to enrolment, and diagnosis of diabetes mellitus, with or without concomitant diabetic retinopathy. |
| Species Group: | Human |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| AMD04_160 | SA032431 | FL007253 | Intermediate | AMD stage |
| AMD04_160 | SA032431 | FL007253 | Female | Gender |
| AMD04_160 | SA032431 | FL007253 | Non smoker | Smoking |
| AMD04_160 | SA032431 | FL007253 | Coimbra | Cohort |
Collection:
| Collection ID: | CO000607 |
| Collection Summary: | For all participants, fasting blood samples were collected into sodium-heparin tubes, and centrifuged within 30 min (1500 rpm, 10 min, 20ºC). Plasma aliquots of 1.5 mL (MEE) and 5 mL (FMUC/AIBILI) were transferred into sterile cryovials and stored at -80ºC. Plasma samples from MEE were shipped to Portugal for metabolomic profiling in dry ice (through TNT Express, USA, INC). Samples arrived frozen in less than 48 hours and were immediately stored at -80ºC until NMR analysis. |
| Sample Type: | Blood plasma |
| Collection Method: | For all participants, fasting blood samples were collected into sodium-heparin tubes, and centrifuged within 30 min (1500 rpm, 10 min, 20ºC). Plasma aliquots of 1.5 mL (MEE) and 5 mL (FMUC/AIBILI) were transferred into sterile cryovials and stored at -80ºC. Plasma samples from MEE were shipped to Portugal for metabolomic profiling in dry ice (through TNT Express, USA, INC). Samples arrived frozen in less than 48 hours and were immediately stored at -80ºC until NMR analysis. |
| Collection Location: | Retina Service, Massachusetts Eye and Ear, Harvard Medical School, Boston, US; Faculty of Medicine, University of Coimbra, Coimbra, Portugal; Association for Innovation and Biomedical Research on Light and Image (AIBILI), Coimbra, Portugal. |
| Collection Frequency: | one collection |
| Volumeoramount Collected: | 9 tp 10 mL |
| Storage Conditions: | Plasma aliquots were stored at -80ºC. Plasma samples from MEE were shipped to Portugal for metabolomic profiling in dry ice (through TNT Express, USA, INC). Samples arrived frozen in less than 48 hours and were immediately stored at -80ºC until NMR analysis. |
| Collection Vials: | sodium-heparin tubes |
| Storage Vials: | sterile cryovials |
| Collection Tube Temp: | room temperature |
| Additives: | No |
| Blood Serum Or Plasma: | Yes, blood samples were collected, which were then centrifuged to obtain plasma |
Treatment:
| Treatment ID: | TR000627 |
| Treatment Summary: | No treatments were applied in the context of this project |
Sample Preparation:
| Sampleprep ID: | SP000620 |
| Sampleprep Summary: | Prior to analysis, plasma samples were thawed at room temperature and homogenized in a vortex mixer. Then, 400 µl of saline solution (NaCl 0.9% in 10% D2O) were added to 200 µl of sample. After centrifugation (4500 g, 5min, 25ºC), 550 µl of each sample was transferred to a 5 mm NMR tube. |
Analysis:
| MB Sample ID: | SA032431 |
| Analysis ID: | AN000905 |
| Laboratory Name: | University of Aveiro |
| Analysis Type: | NMR |
| Acquisition Date: | From June 2015 to September 2017 |
| Software Version: | Topsoin 3.2 |
| Operator Name: | Daniela Duarte and Ana Sofia Martins |
| Data Format: | NMR spectra converted into excel |
| Num Factors: | 33 |
NMR:
| NMR ID: | NM000102 |
| Analysis ID: | AN000905 |
| Instrument Name: | Bruker Avance DRX 500 spectrometer |
| Instrument Type: | FT-NMR |
| NMR Experiment Type: | 1D 1H |
| Spectrometer Frequency: | 500 MHz |
| NMR Probe: | TXI |
| NMR Solvent: | H2O+D2O (10%)_salt |
| NMR Tube Size: | 5 mm |
| Shimming Method: | Automated |
| Pulse Sequence: | cpmgpr1d and ledbpgp2s1dpr |
| Water Suppression: | Yes |
| Pulse Width: | 7 us |
| Receiver Gain: | 128 and 203 |
| Chemical Shift Ref Cpd: | glucose |
| Temperature: | 300 K |
| Number Of Scans: | 256 and 128 |
| Dummy Scans: | 4 |
| Acquisition Time: | 1.59 s |
| Relaxation Delay: | 4 s |
| Spectral Width: | 20,6557 Hz |
| Num Data Points Acquired: | 32 k |
| Real Data Points: | 32 k |
| Line Broadening: | 0,3 Hz |
| Zero Filling: | 64 k |
| Baseline Correction Method: | manual |
| Chemical Shift Ref Std: | glucose (5.23 ppm) |
| Binned Increment: | full resolution |
| Binned Data Excluded Range: | 4.50-5.15 ppm |
