Summary of Study ST003279

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 IDST003279
Study TitleMetabolomic analysis of Axon Regeneration in Xenopus laevis Tectum
Study SummaryWe profile the metabolite changes in the tectum 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 Date2024-06-05
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
SA354885Blank_NEG3NA Extraction Blank
SA354886Blank_POS2NA Extraction Blank
SA354887Blank_POS1NA Extraction Blank
SA354888Blank_NEG2NA Extraction Blank
SA354889Blank_POS3NA Extraction Blank
SA354890Blank_NEG1NA Extraction Blank
SA354891CTL_27dpi_Tect1_NEG2Tectum Control
SA354892CTL_27dpi_Tect3_NEG3Tectum Control
SA354893CTL_27dpi_Tect3_NEG2Tectum Control
SA354894CTL_27dpi_Tect3_NEG1Tectum Control
SA354895CTL_27dpi_Tect3_POS3Tectum Control
SA354896CTL_27dpi_Tect3_POS2Tectum Control
SA354897CTL_27dpi_Tect3_POS1Tectum Control
SA354898CTL_27dpi_Tect2_NEG3Tectum Control
SA354899CTL_27dpi_Tect2_NEG2Tectum Control
SA354900CTL_27dpi_Tect2_NEG1Tectum Control
SA354901CTL_27dpi_Tect2_POS3Tectum Control
SA354902CTL_27dpi_Tect2_POS1Tectum Control
SA354903CTL_27dpi_Tect1_NEG3Tectum Control
SA354904CTL_27dpi_Tect2_POS2Tectum Control
SA354905CTL_27dpi_Tect1_NEG1Tectum Control
SA354906CTL_12dpi_Tect2_POS1Tectum Control
SA354907CTL_12dpi_Tect1_POS1Tectum Control
SA354908CTL_12dpi_Tect1_POS2Tectum Control
SA354909CTL_12dpi_Tect1_POS3Tectum Control
SA354910CTL_27dpi_Tect1_POS3Tectum Control
SA354911CTL_12dpi_Tect1_NEG2Tectum Control
SA354912CTL_12dpi_Tect1_NEG3Tectum Control
SA354913CTL_12dpi_Tect1_NEG1Tectum Control
SA354914CTL_12dpi_Tect2_POS2Tectum Control
SA354915CTL_12dpi_Tect2_NEG1Tectum Control
SA354916CTL_12dpi_Tect2_NEG2Tectum Control
SA354917CTL_12dpi_Tect2_NEG3Tectum Control
SA354918CTL_27dpi_Tect1_POS2Tectum Control
SA354919CTL_27dpi_Tect1_POS1Tectum Control
SA354920CTL_12dpi_Tect2_POS3Tectum Control
SA354921CX_27dpi_Tect2_POS1Tectum Crush
SA354922CX_27dpi_Tect1_NEG1Tectum Crush
SA354923CX_27dpi_Tect1_NEG3Tectum Crush
SA354924CX_27dpi_Tect2_NEG1Tectum Crush
SA354925CX_27dpi_Tect2_POS2Tectum Crush
SA354926CX_27dpi_Tect2_POS3Tectum Crush
SA354927CX_27dpi_Tect2_NEG2Tectum Crush
SA354928CX_27dpi_Tect2_NEG3Tectum Crush
SA354929CX_27dpi_Tect1_POS1Tectum Crush
SA354930CX_27dpi_Tect1_POS2Tectum Crush
SA354931CX_27dpi_Tect1_NEG2Tectum Crush
SA354932CX_12dpi_Tect2_NEG3Tectum Crush
SA354933CX_12dpi_Tect1_NEG1Tectum Crush
SA354934CX_12dpi_Tect2_NEG2Tectum Crush
SA354935CX_12dpi_Tect1_POS1Tectum Crush
SA354936CX_12dpi_Tect1_POS2Tectum Crush
SA354937CX_12dpi_Tect1_POS3Tectum Crush
SA354938CX_27dpi_Tect1_POS3Tectum Crush
SA354939CX_12dpi_Tect1_NEG2Tectum Crush
SA354940CX_12dpi_Tect2_POS1Tectum Crush
SA354941CX_12dpi_Tect2_POS2Tectum Crush
SA354942CX_12dpi_Tect2_POS3Tectum Crush
SA354943CX_12dpi_Tect1_NEG3Tectum Crush
SA354944CX_12dpi_Tect2_NEG1Tectum Crush
SA354945Pooled_QC2_MS1_Tect_POS1Tectum QC
SA354946Pooled_QC1_MS2_Tect_POS1Tectum QC
SA354947Pooled_QC1_MS2_Tect_POS2Tectum QC
SA354948Pooled_QC1_MS2_Tect_NEG2Tectum QC
SA354949Pooled_QC2_MS1_Tect_NEG2Tectum QC
SA354950Pooled_QC2_MS1_Tect_POS2Tectum QC
SA354951Pooled_QC2_MS1_Tect_NEG1Tectum QC
SA354952Pooled_QC2_MS2_Tect_POS1Tectum QC
SA354953Pooled_QC2_MS2_Tect_POS2Tectum QC
SA354954Pooled_QC2_MS2_Tect_NEG1Tectum QC
SA354955Pooled_QC2_MS2_Tect_NEG2Tectum QC
SA354956Pooled_QC1_MS1_Tect_NEG2Tectum QC
SA354957Pooled_QC1_MS2_Tect_NEG1Tectum QC
SA354958Pooled_QC1_MS1_Tect_POS2Tectum QC
SA354959Pooled_QC1_MS1_Tect_POS1Tectum QC
SA354960Pooled_QC1_MS1_Tect_NEG1Tectum QC
SA354961Left_Tect_SHAM2_NEG2Tectum Sham
SA354962Right_Tect_SHAM1_POS3Tectum Sham
SA354963Right_Tect_SHAM2_NEG3Tectum Sham
SA354964Right_Tect_SHAM2_NEG2Tectum Sham
SA354965Right_Tect_SHAM2_NEG1Tectum Sham
SA354966Right_Tect_SHAM2_POS3Tectum Sham
SA354967Right_Tect_SHAM2_POS2Tectum Sham
SA354968Right_Tect_SHAM2_POS1Tectum Sham
SA354969Right_Tect_SHAM1_NEG3Tectum Sham
SA354970Right_Tect_SHAM1_NEG2Tectum Sham
SA354971Right_Tect_SHAM1_NEG1Tectum Sham
SA354972Right_Tect_SHAM1_POS2Tectum Sham
SA354973Left_Tect_SHAM2_NEG1Tectum Sham
SA354974Right_Tect_SHAM1_POS1Tectum Sham
SA354975Left_Tect_SHAM2_NEG3Tectum Sham
SA354976Left_Tect_SHAM1_POS2Tectum Sham
SA354977Left_Tect_SHAM1_POS3Tectum Sham
SA354978Left_Tect_SHAM1_NEG1Tectum Sham
SA354979Left_Tect_SHAM1_NEG2Tectum Sham
SA354980Left_Tect_SHAM1_NEG3Tectum Sham
SA354981Left_Tect_SHAM2_POS1Tectum Sham
SA354982Left_Tect_SHAM2_POS2Tectum Sham
SA354983Left_Tect_SHAM2_POS3Tectum Sham
SA354984Left_Tect_SHAM1_POS1Tectum Sham
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