Summary of Study ST000832
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 PR000593. The data can be accessed directly via it's Project DOI: 10.21228/M81689 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
Study ID | ST000832 |
Study Title | Rat Retinal Detachment Metabolomics Timecourse |
Study Type | MS analysis |
Study Summary | Detachments were created in adult male Brown-Norway rats (300?400 g; Charles River Laboratories, Wilmington, MA). Briefly, rodents were anesthetized with a 50:50 mix of ketamine/xylazine, and pupils were dilated with topical phenylephrine (2.5%) and tropicamide (1%). A 20-gauge microvitreoretinal blade was used to create a sclerotomy 2 mm posterior to the limbus, carefully avoiding lens damage. A subretinal injector (Glaser, 32-gauge tip; BD Ophthalmic Systems, Franklin Lakes, NJ) was introduced through the sclerotomy into the vitreous cavity and then through a peripheral retinotomy into the subretinal space. Sodium hyaluronate (10 mg/mL, Healon OVD; Abbott Medical Optics, Uppsala, Sweden) was slowly injected to detach the neurosensory retina from the underlying RPE. In all experiments, approximately one third to one half of the neurosensory retina was detached. Detachments were created in the left eye. The right eye served as the control, with all the steps of the procedure performed except for introduction of the subretinal injector and injection of the sodium hyaluronate. At varying intervals after creation of the detachment, the animals were euthanatized, and the eyes were enucleated.The retina was then dissected away from the retinal pigment epithelium taking just the detached portion in those eyes experimentally detached. All experiments were performed in accordance with the ARVO Statement for the Use of Animals in Ophthalmic and Vision Research and the guidelines established by the University Committee on Use and Care of Animals of the University of Michigan. |
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 | 2017-08-02 |
Num Groups | 30 |
Total Subjects | 21 |
Raw Data Available | Yes |
Raw Data File Type(s) | d |
Analysis Type Detail | GC-MS/LC-MS |
Release Date | 2018-08-27 |
Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
Project ID: | PR000593 |
Project DOI: | doi: 10.21228/M81689 |
Project Title: | Regulatory roles of glycolysis and its enzymes in photoreceptor survival |
Project Type: | MS analysis |
Project Summary: | The goals specific to this proposal are to understand how the metabolic flux through glycolysis and its associated pathways, such as oxidative phosphorylation and pentose phosphate pathway, is regulated during periods of photoreceptor stress. |
Institute: | University of Michigan |
Department: | Ophthalmology and Visual Sciences |
Laboratory: | Besirli Lab |
Last Name: | Besirli |
First Name: | Cagri |
Address: | Ann Arbor, MI |
Email: | cbesirli@umich.edu |
Phone: | 734-615-6099 |
Subject:
Subject ID: | SU001179 |
Subject Type: | RAT |
Subject Species: | Rattus norvegicus |
Taxonomy ID: | 10116 |
Species Group: | Mammals |
Factors:
Subject type: RAT; Subject species: Rattus norvegicus (Factor headings shown in green)
mb_sample_id | local_sample_id | Attachment | Time |
---|---|---|---|
SA077765 | S00021542 | Attached | 15 min |
SA077766 | S00021544 | Attached | 15 min |
SA077767 | S00021546 | Attached | 15 min |
SA077771 | S00021550 | Attached | 30 min |
SA077772 | S00021552 | Attached | 30 min |
SA077773 | S00021548 | Attached | 30 min |
SA077768 | S00021566 | Attached | 3 hr |
SA077769 | S00021570 | Attached | 3 hr |
SA077770 | S00021568 | Attached | 3 hr |
SA077774 | S00021558 | Attached | 45 min |
SA077775 | S00021554 | Attached | 45 min |
SA077776 | S00021556 | Attached | 45 min |
SA077777 | S00021572 | Attached | 5 hr |
SA077778 | S00021576 | Attached | 5 hr |
SA077779 | S00021574 | Attached | 5 hr |
SA077780 | S00021540 | Attached | 5 min |
SA077781 | S00021538 | Attached | 5 min |
SA077782 | S00021536 | Attached | 5 min |
SA077783 | S00021560 | Attached | 90 min |
SA077784 | S00021564 | Attached | 90 min |
SA077785 | S00021562 | Attached | 90 min |
SA077786 | S00021541 | Detached | 15 min |
SA077787 | S00021543 | Detached | 15 min |
SA077788 | S00021545 | Detached | 15 min |
SA077792 | S00021551 | Detached | 30 min |
SA077793 | S00021549 | Detached | 30 min |
SA077794 | S00021547 | Detached | 30 min |
SA077789 | S00021565 | Detached | 3 hr |
SA077790 | S00021569 | Detached | 3 hr |
SA077791 | S00021567 | Detached | 3 hr |
SA077795 | S00021555 | Detached | 45 min |
SA077796 | S00021553 | Detached | 45 min |
SA077797 | S00021557 | Detached | 45 min |
SA077798 | S00021571 | Detached | 5 hr |
SA077799 | S00021575 | Detached | 5 hr |
SA077800 | S00021573 | Detached | 5 hr |
SA077801 | S00021535 | Detached | 5 min |
SA077802 | S00021537 | Detached | 5 min |
SA077803 | S00021539 | Detached | 5 min |
SA077804 | S00021561 | Detached | 90 min |
SA077805 | S00021563 | Detached | 90 min |
SA077806 | S00021559 | Detached | 90 min |
Showing results 1 to 42 of 42 |
Collection:
Collection ID: | CO001173 |
Collection Summary: | - |
Sample Type: | Retina |
Treatment:
Treatment ID: | TR001194 |
Treatment Summary: | - |
Sample Preparation:
Sampleprep ID: | SP001187 |
Sampleprep Summary: | - |
Sampleprep Protocol Filename: | A011_Glycolysis-TCA-nucleotides.pdf |
Combined analysis:
Analysis ID | AN001838 | AN001839 | AN001840 |
---|---|---|---|
Analysis type | MS | MS | MS |
Chromatography type | HILIC | GC | HILIC |
Chromatography system | Agilent | Agilent GC_7890N | Agilent |
Column | Phenomenex Luna NH2 (150 x 1mm,3um) | Agilent HP5-MS (15m × 0.25mm, 0.25 um) | Phenomenex Luna NH2 (150 x 1mm,3um) |
MS Type | ESI | EI | ESI |
MS instrument type | QTOF | Single quadrupole | QTOF |
MS instrument name | Agilent 6520B QTOF | Agilent MS_5975 | Agilent 6520B QTOF |
Ion Mode | NEGATIVE | POSITIVE | NEGATIVE |
Units | pmol/ug protein | pmol/ug protein | counts/ug protein |
Chromatography:
Chromatography ID: | CH001315 |
Instrument Name: | Agilent |
Column Name: | Phenomenex Luna NH2 (150 x 1mm,3um) |
Flow Rate: | 0.075 mL/min |
Solvent A: | 100% water; 5 mM ammonium acetate, pH 9.9 |
Solvent B: | 100% acetonitrile |
Chromatography Type: | HILIC |
Chromatography ID: | CH001316 |
Instrument Name: | Agilent GC_7890N |
Column Name: | Agilent HP5-MS (15m × 0.25mm, 0.25 um) |
Chromatography Type: | GC |
Chromatography ID: | CH001317 |
Instrument Name: | Agilent |
Column Name: | Phenomenex Luna NH2 (150 x 1mm,3um) |
Solvent A: | 100% water; 5 mM ammonium acetate, pH 9.9 |
Solvent B: | 100% acetonitrile |
Chromatography Type: | HILIC |
MS:
MS ID: | MS001699 |
Analysis ID: | AN001838 |
Instrument Name: | Agilent 6520B QTOF |
Instrument Type: | QTOF |
MS Type: | ESI |
MS Comments: | none |
Ion Mode: | NEGATIVE |
Acquisition Parameters File: | QTOF-002-HILIC-35min-1mm.m |
Analysis Protocol File: | A011_Glycolysis-TCA-nucleotides.pdf |
MS ID: | MS001700 |
Analysis ID: | AN001839 |
Instrument Name: | Agilent MS_5975 |
Instrument Type: | Single quadrupole |
MS Type: | EI |
MS Comments: | none |
Ion Mode: | POSITIVE |
Acquisition Parameters File: | HEIDIFAMES.M |
Analysis Protocol File: | A011_Glycolysis-TCA-nucleotides.pdf |
MS ID: | MS001701 |
Analysis ID: | AN001840 |
Instrument Name: | Agilent 6520B QTOF |
Instrument Type: | QTOF |
MS Type: | ESI |
MS Comments: | none |
Ion Mode: | NEGATIVE |
Acquisition Parameters File: | QTOF-002-HILIC-35min-1mm.m |
Analysis Protocol File: | A043-TCA-Plus-20170713.pdf |