Summary of Study ST000755

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 IDST000755
Study TitleRat Retinal Detachment Metabolomics Timecourse (part II)
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. Detachments were created in adult male Brown-Norway rats (300?400 g; Charles River Laboratories, Wilmington, MA).
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 Groups10
Total Subjects27
Study CommentsAll 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. Detachments were created in adult male Brown-Norway rats (300?400 g; Charles River Laboratories, Wilmington, MA).
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-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:SU000859
Subject Type:RAT
Subject Species:Rattus norvegicus
Taxonomy ID:10116
Species Group:Mammal

Factors:

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

mb_sample_id local_sample_id Retina Attachment Time
SA046541S00026085Attached 15 min
SA046542S00026083Attached 15 min
SA046543S00026087Attached 15 min
SA046544S00026125Attached 16 hr
SA046545S00026119Attached 16 hr
SA046546S00026123Attached 16 hr
SA046547S00026121Attached 16 hr
SA046548S00026127Attached 16 hr
SA046549S00026129Attached 16 hr
SA046553S00026091Attached 30 min
SA046554S00026093Attached 30 min
SA046555S00026089Attached 30 min
SA046550S00026111Attached 3 hr
SA046551S00026109Attached 3 hr
SA046552S00026107Attached 3 hr
SA046556S00026095Attached 45 min
SA046557S00026097Attached 45 min
SA046558S00026099Attached 45 min
SA046559S00026113Attached 5 hr
SA046560S00026117Attached 5 hr
SA046561S00026115Attached 5 hr
SA046562S00026079Attached 5 min
SA046563S00026077Attached 5 min
SA046564S00026081Attached 5 min
SA046565S00026105Attached 90 min
SA046566S00026103Attached 90 min
SA046567S00026101Attached 90 min
SA046568S00026086Detached 15 min
SA046569S00026084Detached 15 min
SA046570S00026082Detached 15 min
SA046571S00026120Detached 16 hr
SA046572S00026128Detached 16 hr
SA046573S00026118Detached 16 hr
SA046574S00026124Detached 16 hr
SA046575S00026122Detached 16 hr
SA046576S00026126Detached 16 hr
SA046580S00026092Detached 30 min
SA046581S00026088Detached 30 min
SA046582S00026090Detached 30 min
SA046577S00026108Detached 3 hr
SA046578S00026110Detached 3 hr
SA046579S00026106Detached 3 hr
SA046583S00026096Detached 45 min
SA046584S00026098Detached 45 min
SA046585S00026094Detached 45 min
SA046586S00026116Detached 5 hr
SA046587S00026114Detached 5 hr
SA046588S00026112Detached 5 hr
SA046589S00026078Detached 5 min
SA046590S00026076Detached 5 min
SA046591S00026080Detached 5 min
SA046592S00026100Detached 90 min
SA046593S00026102Detached 90 min
SA046594S00026104Detached 90 min
Showing results 1 to 54 of 54

Collection:

Collection ID:CO000853
Collection Summary:-
Sample Type:Retina

Treatment:

Treatment ID:TR000873
Treatment Summary:-

Sample Preparation:

Sampleprep ID:SP000866
Sampleprep Summary:-
Sampleprep Protocol Filename:A011_Glycolysis-TCA-nucleotides.pdf

Combined analysis:

Analysis ID AN001329 AN001330
Analysis type MS MS
Chromatography type HILIC HILIC
Chromatography system Agilent Agilent
Column Phenomenex Luna NH2 (150 x 1mm,3um) Phenomenex Luna NH2 (150 x 1mm,3um)
MS Type ESI ESI
MS instrument type QTOF QTOF
MS instrument name Agilent 6520B QTOF Agilent 6520B QTOF
Ion Mode NEGATIVE NEGATIVE
Units nmol/mg counts

Chromatography:

Chromatography ID:CH000928
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:CH000929
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:MS001221
Analysis ID:AN001329
Instrument Name:Agilent 6520B QTOF
Instrument Type:QTOF
MS Type:ESI
Ion Mode:NEGATIVE
Analysis Protocol File:A011_-_Glycolysis-TCA-nucleotides.pdf
  
MS ID:MS001222
Analysis ID:AN001330
Instrument Name:Agilent 6520B QTOF
Instrument Type:QTOF
MS Type:ESI
Ion Mode:NEGATIVE
Analysis Protocol File:A043-TCA-Plus-20170713.pdf
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