Summary of study ST001105

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 PR000739. The data can be accessed directly via it's Project DOI: 10.21228/M85675 This work is supported by NIH grant, U2C- DK119886.

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Study IDST001105
Study TitleRetinal ganglion cells lipid profiling
Study SummaryThe aim of this project was to characterize lipid profiles of the retinal ganglion cells (RGCs) with different regenerative capacity. RGCs were FACS-sorted (7,000 cells/sample) from mice of OPN4 Cre tdT and Thy1-CFP genotype. The treatment conditions included intact, optic nerve crush (ONC) and ONC plus CNTF to promote regeneration. Samples were then subject to lipid extraction and analyzed using LC-MS/MS, followed by identification and relative quantification in LipidSearch software.
Institute
University of Miami
DepartmentOphthalmology, Bascom Palmer Eye Institute
LaboratorySanjoy K. Bhattacharya
Last NameBhattacharya
First NameSanjoy
Address1638 NW 10th Ave, Miami, FL 33136
Emailsbhattacharya@med.miami.edu
Phone+1 (305) 4824103
Submit Date2018-11-26
Raw Data AvailableYes
Raw Data File Type(s).raw
Analysis Type DetailLC-MS
Release Date2019-01-22
Release Version1
Sanjoy Bhattacharya Sanjoy Bhattacharya
https://dx.doi.org/10.21228/M85675
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000739
Project DOI:doi: 10.21228/M85675
Project Title:Retinal ganglion cells lipid profiling
Project Summary:The aim of this project was to characterize lipid profiles of the retinal ganglion cells (RGCs) with different regenerative capacity. RGCs were FACS-sorted (7,000 cells/sample) from mice of OPN4 Cre tdT and Thy1-CFP genotype. The treatment conditions included intact, optic nerve crush (ONC) and ONC plus CNTF to promote regeneration. Samples were then subject to lipid extraction and analyzed using LC-MS/MS, followed by identification and relative quantification in LipidSearch software.
Institute:University of Miami
Department:Ophthalmology, Bascom Palmer Eye Institute
Laboratory:Sanjoy K. Bhattacharya
Last Name:Bhattacharya
First Name:Sanjoy
Address:900 NW 17th St, Miami, FL 33136
Email:sbhattacharya@med.miami.edu
Phone:+1 (305) 4824103
Funding Source:NEI/NIH U01EY027257
Contributors:Kevin (Kyung) Park, Sanjoy K. Bhattacharya, Ana Carolina Ayupe Oliveira Beckedorff, Anna Trzeciecka

Subject:

Subject ID:SU001150
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090

Factors:

Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Treatment
SA075191KPF_QC3-
SA075192KPF_QC1-
SA075193KPF_QC4-
SA075194KPF_QC2-
SA075195KPF_QC5-
SA075196KPF_QC6-
SA075197KPF_18CNTF +ONC
SA075198KPF_27CNTF +ONC
SA075199KP_A3CNTF +ONC
SA075200KP_A10CNTF +ONC
SA075201KPF_17CNTF +ONC
SA075202KP_A11CNTF +ONC
SA075203KP_A4CNTF +ONC
SA075204KPF_26CNTF +ONC
SA075205KPF_11CNTF +ONC
SA075206KPF_4CNTF +ONC
SA075207KPF_3CNTF +ONC
SA075208KPF_10CNTF +ONC
SA075209KPF_5GFP +ONC
SA075210KPF_13GFP +ONC
SA075211KPF_6GFP +ONC
SA075212KPF_12GFP +ONC
SA075213KPF_20GFP +ONC
SA075214KPF_19GFP +ONC
SA075215KPF_24Intact
SA075216KP_A8Intact
SA075217KP_A9Intact
SA075218KPF_8Intact
SA075219KPF_9Intact
SA075220KPF_22Intact
SA075221KPF_16Intact
SA075222KPF_23Intact
SA075223KPF_1Intact
SA075224KPF_25Intact
SA075225KPF_2Intact
SA075226KPF_15Intact
SA075227KP_A2Intact
SA075228KP_A1Intact
SA075235KPF_29tdT +ONC
SA075236KPF_28tdT +ONC
SA075237KP_A6tdT +ONC
SA075238KP_A12tdT +ONC
SA075239KP_A13tdT +ONC
SA075240KP_A5tdT +ONC
SA075229KPF_7WT
SA075230KPF_14WT
SA075231KP_A14WT
SA075232KP_A7WT
SA075233KPF_21WT
SA075234KPF_30WT
Showing results 1 to 50 of 50

Collection:

Collection ID:CO001144
Collection Summary:As described in attached method file.
Sample Type:retinal ganglion cells
Storage Conditions:-80℃

Treatment:

Treatment ID:TR001164
Treatment Summary:As described in attached method file.
Treatment Protocol Filename:Methods.docx

Sample Preparation:

Sampleprep ID:SP001157
Sampleprep Summary:As described in attached method file.
Sampleprep Protocol Filename:Methods.docx
Extract Storage:-20℃

Combined analysis:

Analysis ID AN001798
Analysis type MS
Chromatography type Reversed phase
Chromatography system Thermo Accela 600
Column Acclaim C30 column: 3 µm, 2.1x150 mm (Thermo, Waltham, MA)
MS Type ESI
MS instrument type Orbitrap
MS instrument name Thermo Q Exactive Orbitrap
Ion Mode UNSPECIFIED
Units main area

Chromatography:

Chromatography ID:CH001269
Chromatography Summary:As described in attached method file.
Methods Filename:Methods.docx
Instrument Name:Thermo Accela 600
Column Name:Acclaim C30 column: 3 µm, 2.1x150 mm (Thermo, Waltham, MA)
Chromatography Type:Reversed phase

MS:

MS ID:MS001659
Analysis ID:AN001798
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:UNSPECIFIED
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