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MB Sample ID: SA079842
| Local Sample ID: | RD10-RCL-D-111013-RT-2 |
| Subject ID: | SU001215 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Genotype Strain: | rd10 and C57BL/6J |
| Age Or Age Range: | P18 |
| Animal Animal Supplier: | Jackson Laboratory |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU001215 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Genotype Strain: | rd10 and C57BL/6J |
| Age Or Age Range: | P18 |
| Animal Animal Supplier: | Jackson Laboratory |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| RD10-RCL-D-111013-RT-2 | SA079842 | FL012236 | RD10-RCL-D | Condition |
Collection:
| Collection ID: | CO001209 |
| Collection Summary: | C57BL/6J and rd10 mice were raised under varying light conditions in standard housing, temperature and access to food and water. Some mice were raised under normal light/dark cycle at ambient light levels of approximately 80 lux. At 18 days after birth, mice were exposed to 250 lux for 3 h (light-adapted) followed by euthanasia using cervical dislocation. The eyes were enucleated and the retinas dissected in PBS in the light under a microscope, followed by rapid freezing by dropping them individually into a container filled with liquid nitrogen. Each set of samples were pooled in liquid nitrogen. Other mice raised in cyclic light were adapted overnight at P17 in complete darkness (dark-adapted) before euthanasia at P18. Using infrared goggles and an infrared microscope, these retinas were processed similarly as light-adapted samples except that all procedures were performed in the dark. Mice raised in total darkness were euthanized at P18 and dissected in the dark using infrared goggles and an infrared microscope. |
| Sample Type: | Retina |
Treatment:
| Treatment ID: | TR001230 |
| Treatment Summary: | C57BL/6J and rd10 mice were raised under varying light conditions in standard housing, temperature and access to food and water. Some mice were raised under normal light/dark cycle at ambient light levels of approximately 80 lux. At 18 days after birth, mice were exposed to 250 lux for 3 h (light-adapted) followed by euthanasia. Other mice raised in cyclic light were adapted overnight at P17 in complete darkness (dark-adapted) before euthanasia at P18. Mice raised in total darkness were euthanized at P18. |
Sample Preparation:
| Sampleprep ID: | SP001223 |
| Sampleprep Summary: | Each sample was homogenized in buffer containing 50:50 acetonitrile:water at a ratio of 1mg:25 µl tissue:buffer. A 320 µl aliquot of homogenate (12.8 mg tissue equivalent) was transferred to a tube and centrifuged. The supernatant was dried and re-suspended in 100 µl 95:5 H2O:methanol for UPLC-TOF-MS analysis. |
Combined analysis:
| Analysis ID | AN001897 | AN001898 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Waters Acquity | Waters Acquity |
| Column | Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um) | Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um) |
| MS Type | ESI | ESI |
| MS instrument type | QTOF | QTOF |
| MS instrument name | Waters Synapt G2 Si QTOF | Waters Synapt G2 Si QTOF |
| Ion Mode | NEGATIVE | POSITIVE |
| Units | m/z_retention time | m/z_retention time |
Chromatography:
| Chromatography ID: | CH001374 |
| Chromatography Summary: | Reversed-Phase Gradient Seperation |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um) |
| Column Pressure: | 6,000-10,000 psi |
| Column Temperature: | 50 °C |
| Flow Gradient: | Time(min) Flow Rate(mL/min) %A %B Curve 1. Initial 0.400 99.0 1.0 6 2. 1.00 0.400 99.0 1.0 6 3. 16.00 0.400 1.0 99.0 6 4. 20.00 0.400 1.0 99.0 6 5. 20.50 0.400 99.0 1.0 6 6. 22.00 0.400 99.0 1.0 6 |
| Flow Rate: | 0.4 mL/min |
| Injection Temperature: | 8 °C |
| Internal Standard: | L-Tryptophan-d5 |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS001753 |
| Analysis ID: | AN001897 |
| Instrument Name: | Waters Synapt G2 Si QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | MassLynx 4.1 |
| Ion Mode: | NEGATIVE |
| Capillary Temperature: | 110 °C |
| Capillary Voltage: | 1.0 kV |
| Collision Energy: | 4 |
| Fragmentation Method: | CID |
| Helium Flow: | 180 |
| Ionization: | ES- |
| Mass Accuracy: | 5 ppm |
| Source Temperature: | 110 °C |
| Dataformat: | Continuum |
| Desolvation Gas Flow: | 800 L/Hr |
| Desolvation Temperature: | 400 °C |
| Resolution Setting: | 20000 |
| Scan Range Moverz: | 50-1000 m/z |
| Scanning Cycle: | 1.0 s |
| Tube Lens Voltage: | 75 |
| MS ID: | MS001754 |
| Analysis ID: | AN001898 |
| Instrument Name: | Waters Synapt G2 Si QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | MassLynx 4.1 |
| Ion Mode: | POSITIVE |
| Capillary Temperature: | 110 °C |
| Capillary Voltage: | 1.0 kV |
| Collision Energy: | 4 |
| Fragmentation Method: | CID |
| Helium Flow: | 180 |
| Ionization: | ES+ |
| Mass Accuracy: | 5 ppm |
| Source Temperature: | 110 °C |
| Dataformat: | Continuum |
| Desolvation Gas Flow: | 1000 L/Hr |
| Desolvation Temperature: | 400 °C |
| Resolution Setting: | 20000 |
| Scan Range Moverz: | 50-1000 m/z |
| Scanning Cycle: | 1.0 s |
| Tube Lens Voltage: | 75 |
