Summary of Study ST002195

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 PR001399. The data can be accessed directly via it's Project DOI: 10.21228/M8WB0D This work is supported by NIH grant, U2C- DK119886.

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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 IDST002195
Study TitleUntargeted lipidomics studies in the course of dermatitis onset and progression
Study SummaryWe applied untargeted lipidomic analysis to the atopic dermatitis-like dermatitis model (Spade mice) to capture the comprehensive lipidome profile in the course of dermatitis onset and progression. Spade mice harbor a single amino acid mutation in Jak1 that causes hyperactivation, leading to Th2 dermatitis. Progressive dermatitis develops as desquamation and redness of the ears at approximately 8 weeks of age. At 10 weeks of age, serum IgE and IgG1 levels are increased, and Th2 cytokines, such as IL-4, IL-5, and IL-13, produced by CD4+ cells are upregulated, followed by elevated serum histamine levels at 12 weeks of age. Skin lesions manifest as epidermal hyperplasia at 8 weeks of age, while there are few morphological changes at 4 weeks of age. TEWL, the readout for barrier function, is significantly elevated in Spade mice at 4 weeks of age, suggesting that barrier defects had occurred before disease onset. WT and Spade skin tissues in P0, 4, 8, and 10 weeks of age were applied to untargeted lipidomics. Over 700 skin lipids including glycerophospholipids, ceramides, neutral lipids, and fatty acids were successfully annotated, and many of them were found to be significantly changed after dermatitis onset as determined by pruritus and erythema. Among them, the levels of Cer[NdS] containing very long-chain (C22 or more) fatty acids were significantly downregulated before AD onset.
Institute
Graduate School of Pharmaceutical Sciences, Keio University
Last NameIino
First NameYudai
Address1-5-30, Shibakoen, Minato-ku, Tokyo, 105-8512, Japan
Emailiino-iino@keio.jp
Phone81-3-2400-5492
Submit Date2022-05-25
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2022-12-12
Release Version1
Yudai Iino Yudai Iino
https://dx.doi.org/10.21228/M8WB0D
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001399
Project DOI:doi: 10.21228/M8WB0D
Project Title:Untargeted lipidomics studies in the course of dermatitis onset and progression
Project Summary:Untargeted lipidomics studies on samples from WT and atopic dermatitis model mice in the course of dermatitis onset and progression.
Institute:Graduate School of Pharmaceutical Sciences, Keio University
Last Name:Iino
First Name:Yudai
Address:1-5-30, Shibakoen, Minato-ku, Tokyo, 105-8512, Japan
Email:iino-iino@keio.jp
Phone:81-3-5400-2492
Publications:https://www.jlr.org/article/S0022-2275(23)00002-0/fulltext

Subject:

Subject ID:SU002281
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 Genotype Batch
SA210481blank_IS_negblank blank
SA210482blank_IS_posblank blank
SA210479blank_negblank_IS blank_IS
SA210480blank_posblank_IS blank_IS
SA2104292_sp_10w_negSpade 10w_Sp
SA2104304_sp_10w_posSpade 10w_Sp
SA2104314_sp_10w_negSpade 10w_Sp
SA2104322_sp_10w_posSpade 10w_Sp
SA2104333_sp_10w_negSpade 10w_Sp
SA2104343_sp_10w_posSpade 10w_Sp
SA21043511_sp_8w_posSpade 8w_Sp
SA21043612_sp_8w_posSpade 8w_Sp
SA21043711_sp_8w_negSpade 8w_Sp
SA21043812_sp_8w_negSpade 8w_Sp
SA2104398_sp_8w_posSpade 8w_Sp
SA2104407_sp_8w_posSpade 8w_Sp
SA2104418_sp_8w_negSpade 8w_Sp
SA2104427_sp_8w_negSpade 8w_Sp
SA21044362_sp_P0_negSpade P0_Sp
SA21044462_sp_P0_posSpade P0_Sp
SA21044556_sp_P0_negSpade P0_Sp
SA21044656_sp_P0_posSpade P0_Sp
SA210447108_sp_4w_posSpade Sp_4w
SA210448108_sp_4w_negSpade Sp_4w
SA210449109_sp_4w_negSpade Sp_4w
SA210450101_sp_4w_posSpade Sp_4w
SA210451101_sp_4w_negSpade Sp_4w
SA210452109_sp_4w_posSpade Sp_4w
SA21045313_WT_10w_posWT 10w_WT
SA21045413_WT_10w_negWT 10w_WT
SA21045514_WT_10w_negWT 10w_WT
SA21045614_WT_10w_posWT 10w_WT
SA21045719_WT_10w_negWT 10w_WT
SA21045819_WT_10w_posWT 10w_WT
SA21045940_WT_8w_posWT 8w_WT
SA21046038_WT_8w_negWT 8w_WT
SA21046134_WT_8w_posWT 8w_WT
SA21046238_WT_8w_posWT 8w_WT
SA21046339_WT_8w_negWT 8w_WT
SA21046440_WT_8w_negWT 8w_WT
SA21046539_WT_8w_posWT 8w_WT
SA21046634_WT_8w_negWT 8w_WT
SA21046753_WT_P0_negWT P0_WT
SA21046853_WT_P0_posWT P0_WT
SA21046950_WT_P0_posWT P0_WT
SA21047050_WT_P0_negWT P0_WT
SA21047149_WT_P0_posWT P0_WT
SA21047249_WT_P0_negWT P0_WT
SA21047389_WT_4w_posWT WT_4w
SA21047474_WT_4w_negWT WT_4w
SA21047589_WT_4w_negWT WT_4w
SA21047674_WT_4w_posWT WT_4w
SA21047778_WT_4w_posWT WT_4w
SA21047878_WT_4w_negWT WT_4w
Showing results 1 to 54 of 54

Collection:

Collection ID:CO002274
Collection Summary:Mice were euthanized. Then, ears were collected and stored at -80˚C after rapid freezing in liquid nitrogen.
Sample Type:skin

Treatment:

Treatment ID:TR002293
Treatment Summary:Mice were bred and maintained in the Keio specific pathogen-free facility, with a 12 h light/12 h dark cycle and food (CLEA Rodent Diet CE-2, CLEA Japan, Tokyo, Japan) and water available ad libitum.

Sample Preparation:

Sampleprep ID:SP002287
Sampleprep Summary:Frozen ear was pulverized by a metal cone using MULTI-BEADS SHOCKER MB1200 (YASUI KIKAI, Osaka, Japan), and dissolved in 1 ml methanol. The resulting solvents were transferred to a 2 ml glass tube, and 500 µl CHCl3 in internal standard (1 µM d9-EOS d18:1/32:0/18:2 (Cayman, Ann Arbor, MI, USA)) was added followed by incubation at -30˚C for 16 h. After centrifugation (2,000 g, 4˚C, 10 min), A total of 200 µl supernatants were dissolved in 100 µl methanol, and 20 μl MilliQ was added. After 15 min of incubation at room temperature, the tubes were centrifuged (2,000 g, 20˚C, 10 min). The supernatants were subjected to untargeted LC-MS/MS analysis.

Combined analysis:

Analysis ID AN003593 AN003594
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Waters Acquity UPLC Waters Acquity UPLC
Column Waters Acquity BEH C18 (50 x 2.1mm,1.7um) Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
MS Type ESI ESI
MS instrument type Triple TOF Triple TOF
MS instrument name ABI Sciex 6600 TripleTOF ABI Sciex 6600 TripleTOF
Ion Mode NEGATIVE POSITIVE
Units CPM/mg CPM/mg

Chromatography:

Chromatography ID:CH002655
Chromatography Summary:LC gradient consisted of holding solvent (A/B: 100/0) for 1 min, then linearly converting to solvent (A/B: 60/40) for 4 min, linearly converting to solvent (A/B:36/64) for 2.5 min and holding for 4.5 min, then linearly converting to solvent (A/B: 17.5/82.5) for 0.5 min, linearly converting to solvent (A/B: 15/85) for 8.5 min, and linearly converting to solvent (A/B: 5/95) for 1 min followed by returning to solvent (A/B: 100/0) and holding for 5 min for re-equilibration.
Instrument Name:Waters Acquity UPLC
Column Name:Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
Column Temperature:45
Flow Gradient:LC gradient consisted of holding solvent (A/B: 100/0) for 1 min, then linearly converting to solvent (A/B: 60/40) for 4 min, linearly converting to solvent (A/B:36/64) for 2.5 min and holding for 4.5 min, then linearly converting to solvent (A/B: 17.5/82.5) for 0.5 min, linearly converting to solvent (A/B: 15/85) for 8.5 min, and linearly converting to solvent (A/B: 5/95) for 1 min followed by returning to solvent (A/B: 100/0) and holding for 5 min for re-equilibration.
Flow Rate:0.30mL/min
Solvent A:20% methanol/20% acetonitrile/60% water; 5 mM ammonium acetate; 10 nM EDTA
Solvent B:100% isopropanol; 5 mM ammonium acetate; 10 nM EDTA
Chromatography Type:Reversed phase

MS:

MS ID:MS003348
Analysis ID:AN003593
Instrument Name:ABI Sciex 6600 TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
MS Comments:MS-DIAL was used for peak picking and alignment
Ion Mode:NEGATIVE
  
MS ID:MS003349
Analysis ID:AN003594
Instrument Name:ABI Sciex 6600 TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
MS Comments:MS-DIAL was used for peak picking and alignment
Ion Mode:POSITIVE
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