Summary of Study ST003278

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 PR002032. The data can be accessed directly via it's Project DOI: 10.21228/M8ZC0C This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST003278
Study TitleMetabolomic analysis of Axon Regeneration in Xenopus laevis Retina
Study SummaryWe profile the metabolite changes in the retina of a transgenic line of 1 year old Xenopus laevis Tg(islet2b:gfp) frogs that either had a monocular surgery of either a left optic crush injury (crush) or sham surgery (sham). The matching controls of uninjured right optic nerves were also collected (control). Tg(islet2b:gfp) frogs were allowed to recover for 12 and 27 days post optic nerve crush. Following euthanasia, the tissues were collected for metabolomic analysis. Samples were pooled for each category (crush, sham, and control) at n =3 to obtain sufficient metabolite concentrations for analysis. Metabolites were extracted using a Precellys Homogenizer and a serial extraction method: (1) 1:1 Methanol/Water and (2) 8:1:1 Acetonitrile/Methanol/Acetone. Metabolites were analyzed by untargeted liquid chromatography-mass spectrometry (LC MS-MS) profiling using a Q-Exactive Orbitrap instrument coupled with Vanquish Horizon Binary UHPLC LC-MS system. Metabolites were identified and quantified using Compound Discoverer 3.3 and isotopic internal metabolites standards.
Institute
University of Miami
DepartmentMcKnight - Ophthalmology
LaboratoryBhattacharya Lab
Last NameBhattacharya
First NameSanjoy
Address1638 NW 10th Avenue, Room 706-A, Miami, FL 33136
Emailsbhattacharya@med.miami.edu
Phone3054824103
Submit Date2024-02-09
Raw Data AvailableYes
Raw Data File Type(s)raw(Thermo)
Analysis Type DetailLC-MS
Release Date2024-07-15
Release Version1
Sanjoy Bhattacharya Sanjoy Bhattacharya
https://dx.doi.org/10.21228/M8ZC0C
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Factors:

Subject type: Amphibian; Subject species: Xenopus laevis (Factor headings shown in green)

mb_sample_id local_sample_id Sample source Treatment
SA354787Blank_NEG3NA Extraction Blank
SA354788Blank_NEG2NA Extraction Blank
SA354789Blank_NEG1NA Extraction Blank
SA354790Blank_POS3NA Extraction Blank
SA354791Blank_POS2NA Extraction Blank
SA354792Blank_POS1NA Extraction Blank
SA354793CTL_27dpi_Ret3_POS2Retina Control
SA354794CTL_27dpi_Ret2_NEG2Retina Control
SA354795CTL_27dpi_Ret2_NEG3Retina Control
SA354796CTL_27dpi_Ret3_POS1Retina Control
SA354797CTL_27dpi_Ret3_NEG3Retina Control
SA354798CTL_27dpi_Ret3_POS3Retina Control
SA354799CTL_27dpi_Ret3_NEG1Retina Control
SA354800CTL_27dpi_Ret3_NEG2Retina Control
SA354801CTL_27dpi_Ret2_POS3Retina Control
SA354802CTL_12dpi_Ret1_POS2Retina Control
SA354803CTL_27dpi_Ret2_NEG1Retina Control
SA354804CTL_12dpi_Ret1_POS1Retina Control
SA354805CTL_27dpi_Ret2_POS2Retina Control
SA354806CTL_12dpi_Ret2_NEG1Retina Control
SA354807CTL_27dpi_Ret2_POS1Retina Control
SA354808CTL_12dpi_Ret2_POS2Retina Control
SA354809CTL_12dpi_Ret2_POS1Retina Control
SA354810CTL_12dpi_Ret1_NEG2Retina Control
SA354811CTL_12dpi_Ret1_NEG1Retina Control
SA354812CTL_12dpi_Ret1_POS3Retina Control
SA354813CTL_12dpi_Ret1_NEG3Retina Control
SA354814CTL_12dpi_Ret2_NEG2Retina Control
SA354815CTL_27dpi_Ret1_NEG1Retina Control
SA354816CTL_12dpi_Ret2_NEG3Retina Control
SA354817CTL_27dpi_Ret1_NEG3Retina Control
SA354818CTL_27dpi_Ret1_NEG2Retina Control
SA354819CTL_12dpi_Ret2_POS3Retina Control
SA354820CTL_27dpi_Ret1_POS3Retina Control
SA354821CTL_27dpi_Ret1_POS2Retina Control
SA354822CTL_27dpi_Ret1_POS1Retina Control
SA354823CX_27dpi_Ret2_POS1Retina Crush
SA354824CX_27dpi_Ret3_NEG1Retina Crush
SA354825CX_27dpi_Ret3_POS3Retina Crush
SA354826CX_27dpi_Ret3_POS2Retina Crush
SA354827CX_27dpi_Ret3_POS1Retina Crush
SA354828CX_27dpi_Ret2_NEG3Retina Crush
SA354829CX_27dpi_Ret2_NEG2Retina Crush
SA354830CX_27dpi_Ret2_NEG1Retina Crush
SA354831CX_27dpi_Ret2_POS3Retina Crush
SA354832CX_27dpi_Ret3_NEG2Retina Crush
SA354833CX_27dpi_Ret3_NEG3Retina Crush
SA354834CX_27dpi_Ret1_NEG3Retina Crush
SA354835CX_12dpi_Ret2_POS1Retina Crush
SA354836CX_12dpi_Ret1_POS1Retina Crush
SA354837CX_12dpi_Ret1_POS2Retina Crush
SA354838CX_12dpi_Ret1_POS3Retina Crush
SA354839CX_12dpi_Ret1_NEG1Retina Crush
SA354840CX_12dpi_Ret1_NEG2Retina Crush
SA354841CX_12dpi_Ret1_NEG3Retina Crush
SA354842CX_27dpi_Ret1_NEG2Retina Crush
SA354843CX_27dpi_Ret2_POS2Retina Crush
SA354844CX_12dpi_Ret2_POS2Retina Crush
SA354845CX_12dpi_Ret2_NEG1Retina Crush
SA354846CX_27dpi_Ret1_NEG1Retina Crush
SA354847CX_27dpi_Ret1_POS3Retina Crush
SA354848CX_27dpi_Ret1_POS2Retina Crush
SA354849CX_27dpi_Ret1_POS1Retina Crush
SA354850CX_12dpi_Ret2_NEG3Retina Crush
SA354851CX_12dpi_Ret2_NEG2Retina Crush
SA354852CX_12dpi_Ret2_POS3Retina Crush
SA354853Pooled_QC2_MS1_Ret_NEG2Retina QC
SA354854Pooled_QC2_MS1_Ret_POS2Retina QC
SA354855Pooled_QC2_MS1_Ret_POS1Retina QC
SA354856Pooled_QC1_MS1_Ret_NEG2Retina QC
SA354857Pooled_QC1_MS1_Ret_NEG1Retina QC
SA354858Pooled_QC2_MS1_Ret_NEG1Retina QC
SA354859Pooled_QC1_MS1_Ret_POS1Retina QC
SA354860Pooled_QC1_MS1_Ret_POS2Retina QC
SA354861Left_Ret_SHAM2_NEG2Retina Sham
SA354862Right_Ret_SHAM2_POS3Retina Sham
SA354863Left_Ret_SHAM1_POS1Retina Sham
SA354864Left_Ret_SHAM1_POS2Retina Sham
SA354865Left_Ret_SHAM1_POS3Retina Sham
SA354866Left_Ret_SHAM1_NEG1Retina Sham
SA354867Left_Ret_SHAM1_NEG2Retina Sham
SA354868Left_Ret_SHAM1_NEG3Retina Sham
SA354869Right_Ret_SHAM2_NEG3Retina Sham
SA354870Right_Ret_SHAM2_NEG2Retina Sham
SA354871Right_Ret_SHAM2_NEG1Retina Sham
SA354872Right_Ret_SHAM2_POS2Retina Sham
SA354873Left_Ret_SHAM2_NEG1Retina Sham
SA354874Left_Ret_SHAM2_NEG3Retina Sham
SA354875Right_Ret_SHAM1_NEG3Retina Sham
SA354876Right_Ret_SHAM1_NEG2Retina Sham
SA354877Right_Ret_SHAM1_NEG1Retina Sham
SA354878Right_Ret_SHAM1_POS3Retina Sham
SA354879Right_Ret_SHAM1_POS2Retina Sham
SA354880Right_Ret_SHAM1_POS1Retina Sham
SA354881Left_Ret_SHAM2_POS1Retina Sham
SA354882Left_Ret_SHAM2_POS2Retina Sham
SA354883Left_Ret_SHAM2_POS3Retina Sham
SA354884Right_Ret_SHAM2_POS1Retina Sham
Showing results 1 to 98 of 98
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