Difference between revisions of "Lipoquality:Database"

From lipidbank_wiki
m
 
(12 intermediate revisions by the same user not shown)
Line 1: Line 1:
<h1>Lipoquality</h1>
+
<h1>Lipidomics data resource</h1>
<p>
+
Go to '''[[Lipoquality:Resource|LipoQuality resource page]]''' for browsing lipidomics data.
  
</p>
+
; Homo sapiens : NIST plasma (SRM 1950)
 +
; <nowiki>Mus musculus (background: C57BL/6J; diet: CE2, chows of PUFA-dietary controled studies)</nowiki> : Adrenal gland, Atrium, Brain, Brown adipose tissue, Cerebellum, Cortex, Epididymis, Eye, Feces, Heart, Kidney, Large intestine, Liver, Lung, Macrophage, Medulla, Pancreas, Plasma, Seminal, Skeletal muscle, Skin, Small intestine, Spleen, Stomach, Testis, Thymus, Tongue, Ventricle, White adipose tissue
 +
; Human cultured cell : HEK293, HeLa, Jurkat, LNCaP, PC3, TPC-1
 +
; Mouse cultured cell : 3T3-L1, C2C12
 +
; Plant : <i>Arabidopsis thaliana, Oryza sativa, Solanum melongena</i>
 +
; Algae : <i>Auxenochlorella protothecoides, Chlamydomonas reinhardtii, Chlorella sorokiniana, Chlorella variabilis, Dunaliella salina, Euglena gracilis, Nannochloropsis oculata, Pavlova lutheri, Pleurochrysis carterae</i>
 +
; Measurement : See [http://metabolonote.kazusa.or.jp/Main_Page Metabolonote] (see [http://metabolonote.kazusa.or.jp/SE196:/ SE196], [http://metabolonote.kazusa.or.jp/SE197:/ SE197]) database.
  
<table style="width:100%">
 
<tr style="width:50%;vertical-align:top;padding-left:0.2em">
 
  <td style="width:50%;vertical-align:top;padding-left:0.2em">
 
  <h2 style="font-size:100%;text-align:left;border-bottom:3px solid #630;margin:0.2em;padding:0.2em">[[Lipoquality:Resource|Resource]]</h2>
 
  <table>
 
    <tr style="background-color:transparent;border-style:none;border-collapse:collapse">
 
    <td style="vartical-align:top">
 
<p>
 
  
Please click [[Lipoquality:Resource|here]] to access the lipoquality data.
+
<h1>Data download</h1>
  
<h2>Dataset</h2>
+
[http://jcbl.jp//lipodata/download/AllData_20200206.zip AllData_20200206.zip] Feb 6, 2020 (22M)
;Mouse : C75BL/6J mouse fed with fish-less chow for 2 weeks
 
; Organs : Aorta (ApoE KO), Brain, Heart, Kidney, Liver, Lung, Macrophage, Muscle, Plasma, Plasma (ApoE KO), Small intestine, Spleen
 
; Measurement : See [http://metabolonote.kazusa.or.jp/SE110:/MS2 Metabolonote] database.
 
  
</p>
+
 
    </td>
+
<h1>{{Bilingual|脂質記載法|Notation}}</h1>
    </tr>
+
 
  </table>
+
The style follows the proposal for lipidomics nomenclature
  </td>
+
(Liebisch G et al. J Lipid Res 2013. PMID 23549332). Please visit [http://prime.psc.riken.jp/Metabolomics_Software/MS-DIAL/index5.html the MS-DIAL page] for more details.
  <td>
 
  <h2 style="font-size:100%;text-align:left;border-bottom:3px solid #630;margin:0.2em;padding:0.2em">Notation</h2>
 
  <table>
 
    <tr style="background-color:transparent;border-style:none;border-collapse:collapse">
 
    <td style="vartical-align:top">
 
<p>
 
<i>We will revise and follow the proposal for lipidomics nomenclature soon.</i>
 
(Pauling JK et al. PLOS ONE 2017) PMID 29161304
 
  
 
{|
 
{|
Line 45: Line 32:
 
|-
 
|-
 
| R2-lyso-PA
 
| R2-lyso-PA
| lysoPA
+
| LPA
 
|-
 
|-
 
| Phosphatidyl-choline
 
| Phosphatidyl-choline
Line 51: Line 38:
 
|-
 
|-
 
| R2-lyso-PC
 
| R2-lyso-PC
| lysoPC
+
| LPC
 
|-
 
|-
 
| R1-ether-PC
 
| R1-ether-PC
Line 60: Line 47:
 
|-
 
|-
 
| R2-lyso-PE
 
| R2-lyso-PE
| lysoPE
+
| LPE
 
|-
 
|-
 
| R1-ether-PE
 
| R1-ether-PE
Line 69: Line 56:
 
|-
 
|-
 
| R2-lyso-PI
 
| R2-lyso-PI
| lysoPI
+
| LPI
 
|-
 
|-
 
| Phosphatidyl-serine
 
| Phosphatidyl-serine
Line 75: Line 62:
 
|-
 
|-
 
| R2-lyso-PS
 
| R2-lyso-PS
| lysoPS
+
| LPS
 
|-
 
|-
 
| Phosphatidyl-glycerol
 
| Phosphatidyl-glycerol
Line 81: Line 68:
 
|-
 
|-
 
| R2-lyso-PG
 
| R2-lyso-PG
| lyzoPG
+
| LPG
 
|-
 
|-
 
| Bis(monoacylglycero)phosphate
 
| Bis(monoacylglycero)phosphate
Line 87: Line 74:
 
|-
 
|-
 
| 1-Monoacylglycerol-phospho-2,3-diacylglycerol
 
| 1-Monoacylglycerol-phospho-2,3-diacylglycerol
| hemiBMP
+
| HBMP
 
|-
 
|-
 
| Cardiolipin
 
| Cardiolipin
Line 120: Line 107:
 
|-
 
|-
 
| Glucuronosyl-diacylglycerol  
 
| Glucuronosyl-diacylglycerol  
| GlcADG
+
| DGGA
 
|-
 
|-
 
| Fatty acid
 
| Fatty acid
Line 129: Line 116:
 
|-
 
|-
 
| Acylcarnitine
 
| Acylcarnitine
| AC
+
| CAR
 
|-
 
|-
 
| Sphingomyelin
 
| Sphingomyelin
Line 141: Line 128:
 
! ''non-hydroxy FA''<br/>[N]
 
! ''non-hydroxy FA''<br/>[N]
 
! ''&alpha;-hydroxy FA''<br/>[A]
 
! ''&alpha;-hydroxy FA''<br/>[A]
 +
! ''&beta;-hydroxy FA'' <br/>[B]
 
! ''esterified &omega;-hydroxy FA''<br/>[EO]
 
! ''esterified &omega;-hydroxy FA''<br/>[EO]
 
|-
 
|-
 
! ''dihydrosphingosine''<br/>[DS]
 
! ''dihydrosphingosine''<br/>[DS]
| Cer[NDS]
+
| Cer-NDS
| Cer[ADS]
+
| Cer-ADS
| Cer[EODS]
+
| Cer-BDS
 +
| Cer-EODS
 
|-
 
|-
 
! ''sphingosine''<br/>[S]
 
! ''sphingosine''<br/>[S]
| Cer[NS]
+
| Cer-NS
| Cer[AS]
+
| Cer-AS
| Cer[EOS]
+
| Cer-BS
 +
| Cer-EOS
 
|-
 
|-
 
! ''phytosphingosine''<br/>[P]
 
! ''phytosphingosine''<br/>[P]
| Cer[AP]
+
| Cer-NP
| Cer[NP]
+
| Cer-AP
| Cer[EOP]
+
| Cer-BP
 +
| Cer-EOP
 
|-
 
|-
 
! ''6-hydroxy sphingosine''<br/>[H]
 
! ''6-hydroxy sphingosine''<br/>[H]
| Cer[NH]
+
| Cer-NH
| Cer[AH]
+
| Cer-AH
| Cer[EOH]
+
| Cer-BH
 +
| Cer-EOH
 
|}
 
|}
  
</p>
 
 
<references/>
 
<references/>
    </td>
 
    </tr>
 
  </table>
 
  </td>
 
</tr>
 
</table>
 

Latest revision as of 10:14, 30 March 2020

Lipidomics data resource

Go to LipoQuality resource page for browsing lipidomics data.

Homo sapiens
NIST plasma (SRM 1950)
Mus musculus (background: C57BL/6J; diet: CE2, chows of PUFA-dietary controled studies)
Adrenal gland, Atrium, Brain, Brown adipose tissue, Cerebellum, Cortex, Epididymis, Eye, Feces, Heart, Kidney, Large intestine, Liver, Lung, Macrophage, Medulla, Pancreas, Plasma, Seminal, Skeletal muscle, Skin, Small intestine, Spleen, Stomach, Testis, Thymus, Tongue, Ventricle, White adipose tissue
Human cultured cell
HEK293, HeLa, Jurkat, LNCaP, PC3, TPC-1
Mouse cultured cell
3T3-L1, C2C12
Plant
Arabidopsis thaliana, Oryza sativa, Solanum melongena
Algae
Auxenochlorella protothecoides, Chlamydomonas reinhardtii, Chlorella sorokiniana, Chlorella variabilis, Dunaliella salina, Euglena gracilis, Nannochloropsis oculata, Pavlova lutheri, Pleurochrysis carterae
Measurement
See Metabolonote (see SE196, SE197) database.


Data download

AllData_20200206.zip Feb 6, 2020 (22M)


{{#ifeq:|ja|脂質記載法|Notation}}

The style follows the proposal for lipidomics nomenclature (Liebisch G et al. J Lipid Res 2013. PMID 23549332). Please visit the MS-DIAL page for more details.

Phosphoglycerolipid symbols
Name Notation
Phosphatidic acid PA
R2-lyso-PA LPA
Phosphatidyl-choline PC
R2-lyso-PC LPC
R1-ether-PC EtherPC
Phosphatidyl-ethanolamine PE
R2-lyso-PE LPE
R1-ether-PE EtherPE
Phosphatidyl-inositol PI
R2-lyso-PI LPI
Phosphatidyl-serine PS
R2-lyso-PS LPS
Phosphatidyl-glycerol PG
R2-lyso-PG LPG
Bis(monoacylglycero)phosphate BMP
1-Monoacylglycerol-phospho-2,3-diacylglycerol HBMP
Cardiolipin CL
Glycerolipid, Plant lipid, and other symbols
Name Notation
Triacylglycerol TG
Diacylglycerol DG
Monoacylglycerol MG
Monogalactosyl-diacylglycerol MGDG
Digalactosyl-diacylglycerol DGDG
Sulfoquinovosyl-diacylglycerol SQDG
Diacylglyceryl-trimethylhomoserine DGTS
Glucuronosyl-diacylglycerol DGGA
Fatty acid FA
Fatty acid ester of hydroxyl fatty acid FAHFA
Acylcarnitine CAR
Sphingomyelin SM
Ceramide symbols<ref>Masukawa Y et al. "Characterization of overall ceramide species in human stratum corneums" J Lipid Res 49
1466-1476, 2008</ref>
non-hydroxy FA
[N]
α-hydroxy FA
[A]
β-hydroxy FA
[B]
esterified ω-hydroxy FA
[EO]
dihydrosphingosine
[DS]
Cer-NDS Cer-ADS Cer-BDS Cer-EODS
sphingosine
[S]
Cer-NS Cer-AS Cer-BS Cer-EOS
phytosphingosine
[P]
Cer-NP Cer-AP Cer-BP Cer-EOP
6-hydroxy sphingosine
[H]
Cer-NH Cer-AH Cer-BH Cer-EOH

<references/>

Personal tools