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.

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Study IDST000832
Study TitleRat Retinal Detachment Metabolomics Timecourse
Study TypeMS analysis
Study SummaryDetachments 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
DepartmentBiomedical Research Core Facilities
LaboratoryMetabolomics core
Last NameKachman
First NameMaureen
Address6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714
Emailmkachman@med.umich.edu
Phone(734) 232-8175
Submit Date2017-08-02
Num Groups30
Total Subjects21
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailGC-MS/LC-MS
Release Date2018-08-27
Release Version1
Maureen Kachman Maureen Kachman
https://dx.doi.org/10.21228/M81689
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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

Factors:

Subject type: RAT; Subject species: Rattus norvegicus (Factor headings shown in green)

mb_sample_id local_sample_id Attachment Time
SA077765S00021542Attached 15 min
SA077766S00021544Attached 15 min
SA077767S00021546Attached 15 min
SA077771S00021550Attached 30 min
SA077772S00021552Attached 30 min
SA077773S00021548Attached 30 min
SA077768S00021566Attached 3 hr
SA077769S00021570Attached 3 hr
SA077770S00021568Attached 3 hr
SA077774S00021558Attached 45 min
SA077775S00021554Attached 45 min
SA077776S00021556Attached 45 min
SA077777S00021572Attached 5 hr
SA077778S00021576Attached 5 hr
SA077779S00021574Attached 5 hr
SA077780S00021540Attached 5 min
SA077781S00021538Attached 5 min
SA077782S00021536Attached 5 min
SA077783S00021560Attached 90 min
SA077784S00021564Attached 90 min
SA077785S00021562Attached 90 min
SA077786S00021541Detached 15 min
SA077787S00021543Detached 15 min
SA077788S00021545Detached 15 min
SA077792S00021551Detached 30 min
SA077793S00021549Detached 30 min
SA077794S00021547Detached 30 min
SA077789S00021565Detached 3 hr
SA077790S00021569Detached 3 hr
SA077791S00021567Detached 3 hr
SA077795S00021555Detached 45 min
SA077796S00021553Detached 45 min
SA077797S00021557Detached 45 min
SA077798S00021571Detached 5 hr
SA077799S00021575Detached 5 hr
SA077800S00021573Detached 5 hr
SA077801S00021535Detached 5 min
SA077802S00021537Detached 5 min
SA077803S00021539Detached 5 min
SA077804S00021561Detached 90 min
SA077805S00021563Detached 90 min
SA077806S00021559Detached 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
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