https://lipidomicnet.org/index.php?title=Special:NewPages&feed=atom&namespace=0 LipidomicsWiki - New pages [en] 2024-03-29T09:43:09Z From LipidomicsWiki MediaWiki 1.13.0 https://lipidomicnet.org/index.php/Shorthand_notation_for_Sterols_%28ST%29 Shorthand notation for Sterols (ST) 2015-10-29T13:19:11Z <p>Gerhard Liebisch: </p> <hr /> <div>= Rules for the annotation =<br /> <br /> *Shorthand notation: '''ST number of carbon atoms:number of double bonds'''. <br /> *Annotation at the lipid species level is based on natural sterols possessing 18, 19, 21, 24, or 27 carbons and at least one hydroxyl group at position 3. <br /> *Functional groups, including all hydroxyl groups, are shown after the number of double bonds separated by an underscore and followed by the number of groups if more than one. <br /> *Proven positions of functional groups are shown after the number of double bonds separated by a slash. Specific stereochemistry of functional groups is shown in square brackets, (R) and (S) configurations are preferred for side-chain stereochemistry and are given in italics in parenthesis. <br /> *In the case of fully proven structures of cholesterol and cholesteryl esters abbreviations FC and CE, respectively can be used. CE is followed by number of carbons:number of double bonds of the fatty acid esterified to the hydroxyl group at position 3. <br /> *In the case of unproven structures and other sterol esters (SE) the shorthand notation is used as above followed by slash number of carbons:number of double bonds of the fatty acid esterified to the hydroxyl group. <br /> *In the case of bile acids the shorthand notation is prefaced by A to indicate an acid and at the structure level the location of the acid group (CO2H) is indicated. <br /> *Precursor-ion scans reveal the presence of conjugating groups, i.e. taurine (T) or glycine (G), conjugated to the carboxylic acid group of bile acids through an amide bond, sulfuric acid (S) conjugated to a hydroxyl group through an ester bond, glucuronic acid (GlcA), N-acetylglucosamine (GlcNAc), and hexose (Hex) sugars assumed to be linked to a hydroxyl group through an acetal linkage.<br /> <br /> = Lipid class abbreviations =<br /> <br /> *Sterols - ST <br /> *Steryl esters -SE <br /> *Free cholesterol - FC <br /> *Cholesteryl ester - CE <br /> *Bile acids: <br /> **Cholic acid - CA<br /> **Chenodeoxycholic acid - CDCA<br /> **Deoxycholic acid - DCA<br /> **Ursodeoxycholic acid - UDCA<br /> **Hyodeoxycholic acid - HDCA<br /> **Lithocholic acid - LCA<br /> **Glycocholic acid - GCA<br /> **Taurocholic acid - TCA<br /> <br /> = Examples =<br /> <br /> {| class=&quot;wikitable&quot; style=&quot;text-align: center&quot;<br /> |-<br /> ! scope=&quot;col&quot; | Bond type&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid class level mass$&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid species level§&lt;br&gt; <br /> ! scope=&quot;col&quot; | Bond type level&lt;br&gt; <br /> ! scope=&quot;col&quot; | LIPID MAPS Structure level &lt;br&gt; <br /> |-<br /> |- <br /> | Cholesterol &lt;br&gt;<br /> | ST (386)&lt;br&gt;<br /> | ST 27:1_OH &lt;br&gt;<br /> | ST 27:1_OH&lt;br&gt;<br /> | ST 27:1/OH [5Z,3βOH ]&lt;br&gt;<br /> |- <br /> | 3β-Hydroxycholestenoic acid&lt;br&gt;<br /> | ST (416)&lt;br&gt;<br /> | ST A27:1_OH &lt;br&gt;<br /> | ST A27:1_OH&lt;br&gt;<br /> | ST A27:1/OH [5Z,3βOH,25(R),26CO2H]&lt;br&gt;<br /> |- <br /> | Lithocholic acid &lt;br&gt;<br /> | ST (376)&lt;br&gt;<br /> | ST A24_OH&lt;br&gt;<br /> | ST A24_OH&lt;br&gt;<br /> | ST A24/OH [5βH,3αOH,24CO2H]&lt;br&gt;<br /> |- <br /> | Progesterone&lt;br&gt;<br /> | ST (314)&lt;br&gt;<br /> | ST 21:3_OH2&lt;br&gt;<br /> | ST 21:1_O2&lt;br&gt;<br /> | ST 21:1/O2 [4Z,3O,20O]&lt;br&gt;<br /> |- <br /> | Testosterone&lt;br&gt;<br /> | ST (288)&lt;br&gt;<br /> | ST 19:2_OH2&lt;br&gt;<br /> | ST 19:1 _OH_O&lt;br&gt;<br /> | ST 19:1/OH/O [4Z,17βOH,3O]&lt;br&gt;<br /> |- <br /> | Dehydroepiandrosterone&lt;br&gt;<br /> | ST (288)&lt;br&gt;<br /> | ST 19:2_OH2&lt;br&gt;<br /> | ST 19:1_OH_O&lt;br&gt;<br /> | ST 19:1/OH/O [5Z,3βOH,17O]&lt;br&gt;<br /> |- <br /> | 17β-Estradiol&lt;br&gt;<br /> | ST (272)&lt;br&gt;<br /> | ST 18:3_OH2&lt;br&gt;<br /> | ST 18:3_OH2&lt;br&gt;<br /> | ST 18:3/OH2 [1Z,3E,5E,3OH,17βOH]&lt;br&gt;<br /> |- <br /> | Taurocholic acid&lt;br&gt;<br /> | ST (515)&lt;br&gt;<br /> | ST A24_OH3_T&lt;br&gt;<br /> | ST A24_OH3_T&lt;br&gt;<br /> | ST A24/OH3/T [5βH, 3αOH,7αOH,12αOH,24T]&lt;br&gt;<br /> |- <br /> | Glycochenodeoxycholic acid&lt;br&gt;<br /> | ST (449)&lt;br&gt;<br /> | ST A24_OH2_G&lt;br&gt;<br /> | ST A24_OH2_G&lt;br&gt;<br /> | ST A24/OH2/G [5βH, 3αOH,7αOH,24G]&lt;br&gt;<br /> |- <br /> | Dehydroepiandrosterone sulfate&lt;br&gt;<br /> | ST (368)&lt;br&gt;<br /> | ST 19:2_OH2_S&lt;br&gt;<br /> | ST 19:1_OH_O_S&lt;br&gt;<br /> | ST 19:1/OH/O/S [5Z,3βOH,17O,3S]&lt;br&gt;<br /> |- <br /> | 24(S)-Hydroxycholesterol 3-sulfate, 24-glucuronide&lt;br&gt;<br /> | ST (658)&lt;br&gt;<br /> | ST 27:1_OH2_S_GlcA&lt;br&gt;<br /> | ST 27:1_OH2_S_GlcA&lt;br&gt;<br /> | ST 27:1/OH2/S/GlcA [5Z,3βOH,24(S)OH,3S,24GlcA]&lt;br&gt;<br /> |- <br /> | Cholesteryl palmitate&lt;br&gt;<br /> | ST (624)&lt;br&gt;<br /> | SE 27:1/16:0&lt;br&gt;<br /> | SE 27:1/16:0&lt;br&gt;<br /> | CE 16:0&lt;br&gt;<br /> |- <br /> | Cholesteryl linoleate&lt;br&gt;<br /> | ST (648)&lt;br&gt;<br /> | SE 27:1/18:2&lt;br&gt;<br /> | SE 27:1/18:2&lt;br&gt;<br /> | CE 18:2(9Z,12Z)&lt;br&gt;<br /> |- <br /> | Zymosteryl oleate&lt;br&gt;<br /> | ST (648)&lt;br&gt;<br /> | SE 27:2/18:1&lt;br&gt;<br /> | SE 27:2/18:1&lt;br&gt;<br /> | SE 27:2 [5α,8E,24,3βFA]/18:1(9Z)&lt;br&gt;<br /> |}<br /> <br /> $ m is the uncharged molecular mass&lt;br&gt; <br /> <br /> [[Category:Nomenclature]]</div> Gerhard Liebisch https://lipidomicnet.org/index.php/Shorthand_notation_for_Sphingolipids_%28SP%29 Shorthand notation for Sphingolipids (SP) 2015-10-29T13:14:41Z <p>Gerhard Liebisch: </p> <hr /> <div>= Rules for the annotation =<br /> <br /> *The '''sphingoid backbone''' is annotated by the '''number of hydroxyl groups''' in the sphingoid base (m for mono, d for di, t for tri) and separated by a slash from the '''number of carbons:number of double bonds''' of the N-linked fatty acid. Positions of hydroxyl groups and double bonds including geometry are indicated as described for fatty acyls (FA). <br /> *If the '''sphingoid base is not known''' the sum of sphingoid base and fatty acid is shown as number of carbons:number of double bonds. Calculations are based on the number of hydroxyl groups of the '''major sphingoid base for that organism''' (dihydroxy in mammals). When the number of hydroxyl groups is known it is shown in front of the number of carbons (hydroxyl group level, e for tetra). <br /> *For further characterization of N-linked fatty acids, rules as described in section 3 apply. A fatty acid that is ester-bound to a N-linked ω-OH fatty acid is shown in square brackets as [ωFA C-atoms:double bonds]. <br /> *Sugar moieties: <br /> **The identity of sugar is not known: <br /> ***Hex - Hexosyl <br /> ***Hex2 - DiHexosyl <br /> **The identity of the sugar is proven experimentally&amp;nbsp;: <br /> ***Gal - Galactosyl <br /> ***Glc – Glucosyl <br /> ***Lac - Lactosyl<br /> <br /> &lt;br&gt; <br /> <br /> = Lipid class abbreviations =<br /> <br /> *Ceramide - Cer <br /> *Ceramide-1-phosphate - C1P <br /> *Sphingoid base - SPH <br /> *Sphingoid base-1-phosphate - S1P <br /> *Sphingomyelin - SM <br /> *Hexosylceramide - HexCer <br /> *Glucosylceramide - GlcCer <br /> *Galactosylceramide - GalCer <br /> *Dihexosylceramide – Hex2Cer <br /> *Lactosylceramide - LacCer<br /> <br /> &lt;br&gt; <br /> <br /> = Examples =<br /> <br /> {| style=&quot;text-align: center&quot; class=&quot;wikitable&quot;<br /> |-<br /> ! scope=&quot;col&quot; | Bond type&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid class level mass$&lt;br&gt; <br /> ! scope=&quot;col&quot; | Hydroxyl group level&lt;br&gt; <br /> ! scope=&quot;col&quot; | Fatty acyl level&lt;br&gt; <br /> ! scope=&quot;col&quot; | LIPID MAPS Sphingoid base/Fatty acyl structure level&lt;br&gt;<br /> |-<br /> | Cer (537)&lt;br&gt; <br /> | Cer 34:1 &lt;br&gt; <br /> | Cer d34:1 &lt;br&gt; <br /> | Cer d18:1/16:0 &lt;br&gt; <br /> | Cer d18:1(4E)(1OH,3OH)/16:0 &lt;br&gt;<br /> |-<br /> | Cer (539)&lt;br&gt; <br /> | Cer 34:0 &lt;br&gt; <br /> | Cer d34:0 &lt;br&gt; <br /> | Cer d18:0/16:0 &lt;br&gt; <br /> | Cer d18:0 (1OH,3OH)/16:0 &lt;br&gt;<br /> |-<br /> | C1P (617)&lt;br&gt; <br /> | C1P 34:1&lt;br&gt; <br /> | C1P d34:1 &lt;br&gt; <br /> | C1P d18:1/16:0&lt;br&gt; <br /> | C1P d18:1(4E)(1OH,3OH)/16:0&lt;br&gt;<br /> |-<br /> | SM (702)&lt;br&gt; <br /> | SM 34:1 &lt;br&gt; <br /> | SM d34:1 &lt;br&gt; <br /> | SM d18:1/16:0 &lt;br&gt; <br /> | SM d18:1(4E)(1OH,3OH)/16:0 &lt;br&gt;<br /> |-<br /> | SM (704)&lt;br&gt; <br /> | SM 34:0 &lt;br&gt; <br /> | SM d34:0 &lt;br&gt; <br /> | SM d18:0/16:0 &lt;br&gt; <br /> | SM d18:0 (1OH,3OH)/16:0 &lt;br&gt;<br /> |-<br /> | SM (840)&lt;br&gt; <br /> | SM 44:2 &lt;br&gt; <br /> | SM d44:2 &lt;br&gt; <br /> | SM d20:1/24:1 &lt;br&gt; <br /> | SM d20:1(4E)(1OH,3OH)/24:1(15Z) &lt;br&gt;<br /> |-<br /> | HexCer (701)&lt;br&gt; <br /> | HexCer 34:1&lt;br&gt; <br /> | HexCer d34:1&lt;br&gt; <br /> | HexCer d18:1/16:0&lt;br&gt; <br /> | GlcCer d18:1(4E)(1OH,3OH)/16:0 &lt;br&gt;<br /> |-<br /> | HexCer (701)&lt;br&gt; <br /> | HexCer 34:1&lt;br&gt; <br /> | HexCer d34:1&lt;br&gt; <br /> | HexCer d18:1/16:0&lt;br&gt; <br /> | GalCer d18:1(4E)(1OH,3OH)/16:0 &lt;br&gt;<br /> |-<br /> | Hex2Cer (861)&lt;br&gt; <br /> | Hex2Cer 34:1&lt;br&gt; <br /> | Hex2Cer d34:1&lt;br&gt; <br /> | Hex2Cer d18:1/16:0&lt;br&gt; <br /> | LacCer d18:1(4E)(1OH,3OH)/16:0 &lt;br&gt;<br /> |}<br /> <br /> {| style=&quot;text-align: center&quot; class=&quot;wikitable&quot;<br /> |-<br /> ! scope=&quot;col&quot; | Sphingoid base&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid class level mass$&lt;br&gt; <br /> ! scope=&quot;col&quot; | Hydroxyl group level&lt;br&gt; <br /> ! scope=&quot;col&quot; | LIPID MAPS Sphingoid base structure level&lt;br&gt;<br /> |-<br /> | sphingosine &lt;br&gt; <br /> | SPH (299)&lt;br&gt; <br /> | SPH d18:1&lt;br&gt; <br /> | SPH d18:1(4E)(1OH,3OH)&lt;br&gt;<br /> |-<br /> | sphinganine &lt;br&gt; <br /> | SPH (301)&lt;br&gt; <br /> | SPH d18:0 &lt;br&gt; <br /> | SPH d18:0(1OH,3OH)&lt;br&gt;<br /> |-<br /> | sphingadiene &lt;br&gt; <br /> | SPH (297)&lt;br&gt; <br /> | SPH d18:2 &lt;br&gt; <br /> | SPH d18:2(4E,8E)(1OH,3OH) &lt;br&gt;<br /> |-<br /> | phytosphingosine&lt;br&gt; <br /> | SPH (317)&lt;br&gt; <br /> | SPH t18:0 &lt;br&gt; <br /> | SPH t18:0(1OH,3OH,4OH)&lt;br&gt;<br /> |-<br /> | sphingosine–C20&lt;br&gt; <br /> | SPH (327)&lt;br&gt; <br /> | SPH d20:1 &lt;br&gt; <br /> | SPH d20:1(4E)(1OH,3OH)&lt;br&gt;<br /> |-<br /> | sphingosine &lt;br&gt; <br /> | S1P (379)&lt;br&gt; <br /> | S1P d18:1&lt;br&gt; <br /> | S1P d18:1(4E)(1OH,3OH)&lt;br&gt;<br /> |-<br /> | sphinganine &lt;br&gt; <br /> | S1P (381)&lt;br&gt; <br /> | S1P d18:0 &lt;br&gt; <br /> | S1P d18:0(1OH,3OH)&lt;br&gt;<br /> |-<br /> | 1-deoxymethyl-sphinganine&lt;br&gt; <br /> | SPH (271)&lt;br&gt; <br /> | SPH m17:0&lt;br&gt; <br /> | SPH m17:0(2OH)&lt;br&gt;<br /> |-<br /> | 1-deoxy-sphinganine&lt;br&gt; <br /> | SPH (285)&lt;br&gt; <br /> | SPH m18:0&lt;br&gt; <br /> | SPH m18:0(3OH)&lt;br&gt;<br /> |}<br /> <br /> $ m is the uncharged molecular mass&lt;br&gt; § Annotation based on the assumption of a sphingoid base with two hydroxyl groups&lt;br&gt; <br /> <br /> [[Category:Nomenclature]]</div> Gerhard Liebisch https://lipidomicnet.org/index.php/Shorthand_notation_for_Fatty_Acyls_%28FA%29 Shorthand notation for Fatty Acyls (FA) 2015-10-29T13:09:58Z <p>Gerhard Liebisch: </p> <hr /> <div>= Rules for the annotation =<br /> <br /> *Shorthand notation: FA number of C-atoms:number of double bonds. <br /> *Functional groups, whose '''p''''''ositions in the acyl chain are not known''', are shown after the number of double bonds separated by an underscore and followed by the number of groups if more than one. <br /> *'''Proven positions of functional groups''' are shown after the number of double bonds (each type of functional group inside a separate pair of parentheses). Positions according to Δ-nomenclature are stated in front of the functional groups that are separated by a comma if more than one. <br /> *'''Double bond position''' is indicated by a number according to Δ-nomenclature (geometry unknown), or a number followed by geometry (Z for cis, E for trans). <br /> *Abbreviations for functional groups: <br /> **OH for hydroxyl group. <br /> **O for keto group (it is important to note that “O” before the number of carbons refers to an ether bond) <br /> **Me for methyl branch. <br /> *Order of functional groups: Double bonds - OH - O - Me.<br /> <br /> &lt;br&gt; <br /> <br /> = Lipid class abbreviations =<br /> <br /> *Fatty Acyls - FA<br /> <br /> = Examples =<br /> <br /> {| style=&quot;text-align: center&quot; class=&quot;wikitable&quot;<br /> |-<br /> ! scope=&quot;col&quot; | Chain type/functional groups&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid class level mass$&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid species level§&lt;br&gt; <br /> ! scope=&quot;col&quot; | Fatty acyl level&lt;br&gt; <br /> ! scope=&quot;col&quot; | LIPID MAPS Fatty acyl structure level&lt;br&gt;<br /> |-<br /> | Straight-chain &lt;br&gt; <br /> | FA (304)&lt;br&gt; <br /> | FA 20:4 &lt;br&gt; <br /> | FA 20:4&lt;br&gt; <br /> | FA 20:4(4Z,8Z,11Z,4Z)&lt;br&gt;<br /> |-<br /> | &lt;br&gt; <br /> | FA (282)&lt;br&gt; <br /> | FA 18:1 &lt;br&gt; <br /> | FA 18:1&lt;br&gt; <br /> | FA 18:1(9E) &lt;br&gt;FA 18:1(9) $$&lt;br&gt;<br /> |-<br /> | Methyl branched &lt;br&gt; <br /> | FA (312)&lt;br&gt; <br /> | FA 20:0 &lt;br&gt; <br /> | FA 16:0_Me4&lt;br&gt; <br /> | FA 16:0(3Me,7Me,11Me,15Me) &lt;br&gt;<br /> |-<br /> | Hydroxy &lt;br&gt; <br /> | FA (300)&lt;br&gt; <br /> | &lt;br&gt; <br /> | FA 18:0_OH&lt;br&gt; <br /> | FA 18:0(9OH) &lt;br&gt;<br /> |-<br /> | Keto&lt;br&gt; <br /> | FA (200)&lt;br&gt; <br /> | FA 12:0&lt;br&gt; <br /> | FA 11:0_O&lt;br&gt; <br /> | FA 11:0(3O)&lt;br&gt;<br /> |}<br /> <br /> $ m is the uncharged molecular mass&lt;br&gt; § Annotation based on the assumption of a straight-chain fatty acid with no functional groups except double bond(s)&lt;br&gt; §§ Unknown geometry&lt;br&gt; <br /> <br /> [[Category:Nomenclature]]</div> Gerhard Liebisch https://lipidomicnet.org/index.php/Shorthand_notation_for_Glycerophospholipids_%28GP%29 Shorthand notation for Glycerophospholipids (GP) 2015-10-28T14:26:50Z <p>Gerhard Liebisch: </p> <hr /> <div>= Rules for the annotation =<br /> <br /> *Shorthand notation: Lipid class abbreviation followed by number of C-atoms:number of double bonds. <br /> *Fatty acids linked to the glycerol are known: <br /> **'''separator _: sn-position of the fatty acids is not known''' <br /> **'''separator /: sn-position of fatty acids is proven '''(order sn-1/sn-2/sn-3 for GL; sn-1/sn-2 or sn-2/sn-3 for GP); no FA linked 0:0 <br /> *Other bond types than ester bonds are indicated as follows in front of the sum of C-atoms or fatty acid: <br /> **'''O = proven O-alkyl-bond''' (it is important to note that “O” after the number of carbons designates a keto bond) <br /> **'''P = proven O-alk-1-enyl-bond''' (acid-sensitive ether bond in “plasmalogens”). <br /> *More than one &quot;non&quot;-ester bond is indicated in front of the bond type as d for di, t for tri. <br /> *'''Lysophospholipid '''classes are abbreviated as stated in the [http://www.lipidmaps.org/data/classification/LM_classification_exp.php LIPID MAPS nomenclature]. Where applicable they can be presented formally by their respective phospholipid class indicating the empty sn-position by 0:0. <br /> *Four ether bonds are indicated in front of the bond type as tetra, abbreviated e. <br /> *For'''BMP and CL''' classes the sn-position order will be sn-2/sn-3/sn-2'/sn-3' and sn-1/sn-2/sn-1'/sn-2', respectively. <br /> *Rules for '''phosphoinositides '''require additional information if the position of phosphates on the inositol ring are known. The exception is PI3,4,5P3 since the only known tris isomer is 3,4,5. Whilst phosphoinositides are generally presented as PIP2 and PIP3 we have adopted the annotation PIP2 and PIP3 for ease of handling by databases. Should additional species be identified this will require further clarification.<br /> <br /> = Lipid class abbreviations =<br /> <br /> *Bismonoacylglycerolphosphate - BMP <br /> *Cardiolipin - CL <br /> *Phosphatidic acid - PA <br /> *Phosphatidylcholine - PC <br /> *Phosphatidylethanolamine - PE <br /> *Phosphatidylgylcerol - PG <br /> *Phosphatidylgylcerolphosphate - PGP <br /> *Phosphatidylinositol - PI <br /> *Phosphatidylinositol-monophosphate - PIP <br /> *Phosphatidylinositol-3-phosphate - PIP[3’] <br /> *Phosphatidylinositol-4-phosphate - PIP[4’] <br /> *Phosphatidylinositol-5-phosphate - PIP[5’] <br /> *Phosphatidylinositol-bisphosphate - PIP2 <br /> *Phosphatidylinositol-3,4-bisphosphate - PIP2[3’,4’] <br /> *Phosphatidylinositol-3,5-bisphosphate - PIP2[3’,5’] <br /> *Phosphatidylinositol-4,5-bisphosphate - PIP2[4’,5’] <br /> *Phosphatidylinositol-trisphosphate – PIP3 <br /> *Phosphatidylserine – PS <br /> *Lysophospholipids - Prefix L<br /> <br /> &lt;br&gt; <br /> <br /> = Examples =<br /> <br /> {| style=&quot;text-align: center&quot; class=&quot;wikitable FCK__ShowTableBorders&quot;<br /> |-<br /> ! scope=&quot;col&quot; | Bond type&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid class level mass$&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid species level§&lt;br&gt; <br /> ! scope=&quot;col&quot; | Bond type level&lt;br&gt; <br /> ! scope=&quot;col&quot; | Fatty acyl/alkyl level&lt;br&gt; <br /> ! scope=&quot;col&quot; | Fatty acyl/alkyl position level&lt;br&gt; <br /> ! scope=&quot;col&quot; | LIPID MAPS Fatty acyl/alkyl structure level&lt;br&gt;<br /> |-<br /> | Diacyl &lt;br&gt; <br /> | BMP (690)&lt;br&gt; <br /> | BMP 34:2 &lt;br&gt; <br /> | BMP 34:2 &lt;br&gt; <br /> | BMP 16:0_18:2&lt;br&gt; <br /> | BMP 16:0/0:0/18:2/0:0 &lt;br&gt; sn-2/sn-3/sn-2'/sn-3' &lt;br&gt; <br /> | BMP 16:0/0:0/18:2(9Z,12Z)/0:0 &lt;br&gt; sn-2/sn-3/sn-2'/sn-3' &lt;br&gt;<br /> |-<br /> | Tetraacyl&lt;br&gt; <br /> | CL (1450)&lt;br&gt; <br /> | CL 72:7&lt;br&gt; <br /> | CL 72:7&lt;br&gt; <br /> | CL 18:1_18:2_18:2_18:2 &lt;br&gt;CL 36:3_36:4 (known DG fragments) &lt;br&gt; <br /> | CL 18:1/18:2/18:2/18:2 &lt;br&gt;sn-1/sn-2/sn-1'/sn-2'&lt;br&gt; <br /> | CL 18:1(9Z)/18:2(9Z,12Z)/ 18:2(9Z,12Z)/18:2(9Z,12Z)&lt;br&gt;sn-1/sn-2/sn-1'/sn-2'&lt;br&gt;<br /> |-<br /> | Tetraalkyl&lt;br&gt; <br /> | CL (1521)&lt;br&gt; <br /> | CL 76:0&lt;br&gt; <br /> | CL eO-80:0&lt;br&gt; <br /> | CL O-20:0/O-20:0/O‑20:0 /O-20:0&lt;br&gt; <br /> | CL O-20:0/O-20:0/O-20:0/ O‑20:0&lt;br&gt; <br /> | CL O‑16:0(3Me,7Me,11Me,15Me)/ O‑16:0(3Me,7Me,11Me,15Me)/ O‑16:0(3Me,7Me,11Me,15Me)/ O‑16:0(3Me,7Me,11Me,15Me)&lt;br&gt;<br /> |-<br /> | Diacyl &lt;br&gt; <br /> | PC (759)&lt;br&gt; <br /> | PC 34:1&lt;br&gt; <br /> | PC 34:1 &lt;br&gt; <br /> | PC 16:0_18:1 &lt;br&gt; <br /> | PC 16:0/18:1 &lt;br&gt; <br /> | PC 16:0/18:1(9Z)&lt;br&gt;<br /> |-<br /> | Alkyl-acyl &lt;br&gt; <br /> | PC (745)&lt;br&gt; <br /> | PC O-34:1&lt;br&gt; <br /> | PC O-34:1 &lt;br&gt; <br /> | PC O-16:0_18:1 &lt;br&gt; <br /> | PC O-16:0/18:1&lt;br&gt; <br /> | PC O-16:0/18:1(9Z)&lt;br&gt;<br /> |-<br /> | Dialkyl &lt;br&gt; <br /> | PC (731)&lt;br&gt; <br /> | PC 32:1 &lt;br&gt; <br /> | PC dO-34:1 &lt;br&gt; <br /> | PC O-16:0_O-18:1 &lt;br&gt; <br /> | PC O-16:0/O-18:1&lt;br&gt; <br /> | PC O-16:0/O-18:1&lt;br&gt;<br /> |-<br /> | Diacyl &lt;br&gt; <br /> | PE (717)&lt;br&gt; <br /> | PE 34:1 &lt;br&gt; <br /> | PE 34:1 &lt;br&gt; <br /> | PE 16:0_18:1 &lt;br&gt; <br /> | PE 16:0/18:1 &lt;br&gt; <br /> | PE 16:0/18:1(9Z)&lt;br&gt;<br /> |-<br /> | Plasmalogen &lt;br&gt; <br /> | PE (701)&lt;br&gt; <br /> | PE O-34:2&lt;br&gt; <br /> | PE O-34:2 &lt;br&gt; <br /> | PE P-16:0_18:1 §§&lt;br&gt; <br /> | PE P-16:0/18:1 §§&lt;br&gt; <br /> | PE P-16:0/18:1(9Z)&lt;br&gt;<br /> |-<br /> | Triacyl &lt;br&gt; <br /> | LCL (1188)&lt;br&gt; <br /> | LCL 54:5 &lt;br&gt; <br /> | LCL 54:5 &lt;br&gt; <br /> | LCL 18:1_18:2_18:2 &lt;br&gt; <br /> | LCL 18:1/18:2/18:2/0:0&lt;br&gt; <br /> | LCL 18:1(9Z)/18:2(9Z,12Z)/18:2(9Z,12Z)/0:0&lt;br&gt;<br /> |-<br /> | Acyl &lt;br&gt; <br /> | LPC (495)&lt;br&gt; <br /> | LPC 16:0 &lt;br&gt; <br /> | LPC 16:0 &lt;br&gt; <br /> | LPC 16:0 or PC 16:0_0:0&lt;br&gt; <br /> | LPC 16:0/0:0 or PC 16:0/0:0&lt;br&gt; <br /> | LPC 16:0/0:0 or PC 16:0/0:0&lt;br&gt;<br /> |-<br /> | Alkyl &lt;br&gt; <br /> | LPC (481)&lt;br&gt; <br /> | LPC O-16:0&lt;br&gt; <br /> | LPC O-16:0 &lt;br&gt; <br /> | LPC O-16:0&lt;br&gt; <br /> | LPC O-16:0/0:0&lt;br&gt; <br /> | LPC O-16:0/0:0&lt;br&gt;<br /> |-<br /> | Alkyl/Alk-1-enyl&lt;br&gt; <br /> | LPC (479)&lt;br&gt; <br /> | LPC O-16:1&lt;br&gt; <br /> | LPC O-16:1 &lt;br&gt; <br /> | LPC O-16:1 &lt;br&gt; <br /> | LPC O-16:1/0:0&lt;br&gt; <br /> | LPC O-16:1(9Z)/0:0&lt;br&gt;<br /> |}<br /> <br /> $ m is the uncharged molecular mass&lt;br&gt;<br /> § Annotation based on the assumption of even numbered carbon chains only&lt;br&gt;<br /> §§ Identification of plasmalogens (alk-1-enyl bond) require specific MS analysis&lt;br&gt;<br /> <br /> <br /> {| style=&quot;text-align: center&quot; class=&quot;wikitable FCK__ShowTableBorders&quot;<br /> |-<br /> ! scope=&quot;col&quot; | Bond type&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid class level mass$&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid species level§&lt;br&gt; <br /> ! scope=&quot;col&quot; | Bond type level&lt;br&gt; <br /> ! scope=&quot;col&quot; | Phosphate position&lt;br&gt; <br /> ! scope=&quot;col&quot; | Fatty acyl/alkyl level&lt;br&gt; <br /> ! scope=&quot;col&quot; | Fatty acyl/alkyl position level&lt;br&gt; <br /> ! scope=&quot;col&quot; | LIPID MAPS Fatty acyl/alkyl structure level&lt;br&gt;<br /> |-<br /> | Diacyl&lt;br&gt; <br /> | PIP (966)&lt;br&gt; <br /> | PIP 38:4&lt;br&gt; <br /> | PIP 38:4&lt;br&gt; <br /> | PIP[3’] 38:4&lt;br&gt; <br /> | PIP[3’] 18:0_20:4&lt;br&gt; <br /> | PIP[3’] 18:0/20:4&lt;br&gt; <br /> | PIP[3’] 18:0/20:4(4Z,8Z,11Z, 4Z)&lt;br&gt;<br /> |-<br /> | Diacyl&lt;br&gt; <br /> | PIP2 (1046)&lt;br&gt; <br /> | PIP2 38:4&lt;br&gt; <br /> | PIP2 38:4&lt;br&gt; <br /> | PIP2[4’,5’] 38:4&lt;br&gt; <br /> | PIP2[4’,5’] 18:0_20:4&lt;br&gt; <br /> | PIP2[4’,5’] 18:0/20:4&lt;br&gt; <br /> | PIP2[4’,5’] 18:0/20:4(4Z,8Z,11Z, 4Z)&lt;br&gt;<br /> |}<br /> <br /> [[Category:Nomenclature]]</div> Gerhard Liebisch https://lipidomicnet.org/index.php/Shorthand_notation_for_Glycerolipids_%28GL%29 Shorthand notation for Glycerolipids (GL) 2015-10-28T11:20:27Z <p>Stefan Lehneis: </p> <hr /> <div>= Rules for the annotation =<br /> <br /> *Shorthand notation: Lipid class abbreviation followed by number of C-atoms:number of double bonds. <br /> *Fatty acids linked to the glycerol are known: <br /> **'''separator _: sn-position of the fatty acids is not known''' <br /> **'''separator /: sn-position of fatty acids is proven '''(order sn-1/sn-2/sn-3 for GL; sn-1/sn-2 or sn-2/sn-3 for GP); no FA linked 0:0 <br /> *Other bond types than ester bonds are indicated as follows in front of the sum of C-atoms or fatty acid: <br /> **'''O = proven O-alkyl-bond''' (it is important to note that “O” after the number of carbons designates a keto bond) <br /> **'''P = proven O-alk-1-enyl-bond''' (acid-sensitive ether bond in “plasmalogens”). <br /> *More than one &quot;non&quot;-ester bond is indicated in front of the bond type as d for di, t for tri.<br /> <br /> = Lipid class abbreviations =<br /> <br /> *Monoglycerides - MG <br /> *Diglycerides - DG <br /> *Triglycerides - TG<br /> <br /> = Examples =<br /> <br /> {| class=&quot;wikitable&quot; style=&quot;text-align: center&quot;<br /> |-<br /> ! scope=&quot;col&quot; | Bond type&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid class level mass$&lt;br&gt; <br /> ! scope=&quot;col&quot; | Lipid species level§&lt;br&gt; <br /> ! scope=&quot;col&quot; | Bond type level&lt;br&gt; <br /> ! scope=&quot;col&quot; | Fatty acyl/alkyl level&lt;br&gt; <br /> ! scope=&quot;col&quot; | Fatty acyl/alkyl position level&lt;br&gt; <br /> ! scope=&quot;col&quot; | LIPID MAPS Fatty acyl/alkyl structure level&lt;br&gt;<br /> |-<br /> | Acyl &lt;br&gt; <br /> | MG (358)&lt;br&gt; <br /> | MG 18:0 &lt;br&gt; <br /> | MG 18:0 &lt;br&gt; <br /> | MG 18:0 &lt;br&gt; <br /> | MG 0:0/18:0/0:0 &lt;br&gt; <br /> | &lt;br&gt;<br /> |-<br /> | Alkyl &lt;br&gt; <br /> | MG (344)&lt;br&gt; <br /> | MG O-18:0&lt;br&gt; <br /> | MG O-18:0 &lt;br&gt; <br /> | MG O-18:0 &lt;br&gt; <br /> | MG 0:0/O-18:0/0:0 &lt;br&gt; <br /> | &lt;br&gt;<br /> |-<br /> | Diacyl &lt;br&gt; <br /> | DG (594)&lt;br&gt; <br /> | DG 34:1 &lt;br&gt; <br /> | DG 34:1 &lt;br&gt; <br /> | DG 16:0_18:1 &lt;br&gt; <br /> | DG 16:0/18:1/0:0&lt;br&gt; <br /> | DG 16:0/18:1(9Z)/0:0&lt;br&gt;<br /> |-<br /> | Alkyl-acyl &lt;br&gt; <br /> | DG (580)&lt;br&gt; <br /> | DG O-34:1&lt;br&gt; <br /> | DG O-34:1 &lt;br&gt; <br /> | DG O-16:0_18:1 &lt;br&gt; <br /> | DG O-16:0/18:1/0:0 &lt;br&gt; <br /> | DG O-16:0/18:1(9Z)/0:0 &lt;br&gt;<br /> |-<br /> | Dialkyl &lt;br&gt; <br /> | DG (538)&lt;br&gt; <br /> | DG 30:1&lt;br&gt; <br /> | DG dO-32:1 &lt;br&gt; <br /> | DG O-16:0_O-16:1 &lt;br&gt; <br /> | DG O-16:0/O-16:1/0:0 &lt;br&gt; <br /> | DG O-16:0/O-16:1(9Z)/0:0 &lt;br&gt;<br /> |-<br /> | Dialkyl &lt;br&gt; <br /> | TG (858)&lt;br&gt; <br /> | TG 52:2 &lt;br&gt; <br /> | TG 52:2 &lt;br&gt; <br /> | TG 16:0_18:1_18:1 &lt;br&gt; <br /> | TG 16:0/18:1/18:1&lt;br&gt; <br /> | TG 16:0/18:1(9Z)/18:1(11Z)&lt;br&gt;<br /> |-<br /> | Alkyl-diacyl &lt;br&gt; <br /> | TG (844)&lt;br&gt; <br /> | TG O-52:2&lt;br&gt; <br /> | TG O-52:2 &lt;br&gt; <br /> | TG O-16:0_18:1_18:1 &lt;br&gt; <br /> | TG O-16:0/18:1/18:1 &lt;br&gt; <br /> | TG O-16:0/18:1(9Z)/18:1(11Z)&lt;br&gt;<br /> |-<br /> | Dialkyl-acyl&lt;br&gt; <br /> | TG (830)&lt;br&gt; <br /> | TG 50:2&lt;br&gt; <br /> | TG dO-52:2&lt;br&gt; <br /> | TG O-18:1_O-16:0_18:1&lt;br&gt; <br /> | TG O-18:1/O-16:0/18:1&lt;br&gt; <br /> | TG O-18:1(9Z)/O-16:0/18:1(9Z)&lt;br&gt;<br /> |-<br /> | Trialkyl&lt;br&gt; <br /> | TG (816)&lt;br&gt; <br /> | TG O-50:2&lt;br&gt; <br /> | TG tO-52:2&lt;br&gt; <br /> | TG O-18:1_O-16:0_O-18:1&lt;br&gt; <br /> | TG O-18:1/O-16:0/O-18:1&lt;br&gt; <br /> | TG O-18:1(9Z)/O-16:0/O-18:1(9Z)&lt;br&gt;<br /> |}<br /> <br /> $ m is the uncharged molecular mass&lt;br&gt; § Annotation based on assumption of even numbered carbon chains only <br /> <br /> [[Category:Nomenclature]]</div> Gerhard Liebisch https://lipidomicnet.org/index.php/Shorthand_notation_-_General_rules Shorthand notation - General rules 2015-10-28T11:13:32Z <p>Gerhard Liebisch: </p> <hr /> <div>*Lipid class abbreviation heads each species description. <br /> *Variable components (constituents) like fatty acids are assigned based on their mass as number of C-atoms and number of double bonds ('''C-atoms:double bonds'''). <br /> *Only '''experimentally proven structural details''' of constituent fatty acids are assigned according to the rules defined for fatty acyls. <br /> *When structural '''ambiguities '''are present (e.g. bond type, hydroxyl groups, branched chains) species are assigned by one of the following rules: <br /> **Lipid class and the '''(uncharged) molecular mass''' (Da) in parentheses (preferred for reporting in databases ≙ lipid class level mass). For fatty acyl substituents the mass of the corresponding free fatty acid is used. <br /> **Annotation based on '''assumptions '''must be clearly visible (preferred for publications ≙ lipid species level). <br /> *Detailed structures including stereochemistry are covered by [http://www.lipidmaps.org/data/classification/LM_classification_exp.php LIPID MAPS nomenclature].<br /> <br /> [[Category:Nomenclature]]</div> Gerhard Liebisch https://lipidomicnet.org/index.php/Shorthand_notation_for_lipid_structures_derived_from_mass_spectrometry Shorthand notation for lipid structures derived from mass spectrometry 2015-10-13T20:04:42Z <p>Gerhard Liebisch: </p> <hr /> <div>*[[Shorthand notation - General rules|General rules]] <br /> *[[Shorthand notation for Fatty Acyls (FA)|Fatty Acyls (FA)]] <br /> *[[Shorthand notation for Glycerolipids (GL)|Glycerolipids (GL)]] <br /> *[[Shorthand notation for Glycerophospholipids (GP)|Glycerophospholipids (GP)]] <br /> *[[Shorthand notation for Sphingolipids (SP)|Sphingolipids (SP)]] <br /> *[[Shorthand notation for Sterols (ST)|Sterols (ST)]]<br /> <br /> [[Category:Nomenclature]]</div> Gerhard Liebisch https://lipidomicnet.org/index.php/Databases_for_lipid_species Databases for lipid species 2015-10-13T19:53:53Z <p>Gerhard Liebisch: </p> <hr /> <div>*[http://www.genome.jp/kegg-bin/get_htext?br08002.keg KEGG Lipids] <br /> *[http://lipidbank.jp/ LipidBank] <br /> *[http://fiehnlab.ucdavis.edu/projects/LipidBlast LipidBlast] <br /> *[http://www.ebi.ac.uk/metabolights/lipidhome/ LipidHome] <br /> *[http://www.lipidmaps.org/data/structure/index.html LIPID MAPS Structure Database (LMSD)] <br /> *[http://www.swisslipids.org SwissLipids]<br /> <br /> [[Category:Database]]</div> Gerhard Liebisch https://lipidomicnet.org/index.php/Nomenclature_of_lipid_species Nomenclature of lipid species 2015-10-12T08:39:23Z <p>Gerhard Liebisch: </p> <hr /> <div>= Aim of nomenclature =<br /> <br /> Nomenclature provides a common standard for reporting lipid species analysis and for constructing [[Databases for lipid species|databases]]. <br /> <br /> <br /> = Rules for the annotation of lipid species =<br /> <br /> *[http://www.chem.qmul.ac.uk/iupac/lipid/ IUPAC] <br /> *[http://www.lipidmaps.org/data/classification/LM_classification_exp.php LIPID MAPS nomenclature] <br /> *[[Shorthand notation for lipid structures derived from mass spectrometry|Shorthand notation for lipid structures derived from mass spectrometry]]&lt;br&gt;<br /> <br /> [[Category:Nomenclature]]</div> Gerhard Liebisch https://lipidomicnet.org/index.php/Funding_for_researchers Funding for researchers 2014-04-24T08:54:13Z <p>Megi Sharikadze: </p> <hr /> <div>''&amp;nbsp;This page is being created by Project manager, Dr. Megi Sharikadze&amp;nbsp;to provide quick links of academic funding resources for interested scientsits (the fields covered are within life science and health themes).'' <br /> <br /> === Regional funding&amp;nbsp; ===<br /> <br /> http://www.uni-regensburg.de/bayhost/english/funding/index.html <br /> <br /> http://www.uni-regensburg.de/bayhost/english/scholarships/index.html <br /> <br /> http://www.bayfor.org/en/research-funding/bayintan.php <br /> <br /> &lt;br&gt; <br /> <br /> === National funding ===<br /> <br /> http://www.dfg.de <br /> <br /> http://www.bmbf.de/ <br /> <br /> http://www.daad.de/ <br /> <br /> http://www.deutschlandstipendium.de/&lt;br&gt; <br /> <br /> &lt;br&gt; <br /> <br /> === International funding ===<br /> <br /> ===== European resources =====<br /> <br /> Horizon2020&amp;nbsp;https://ec.europa.eu/research/participants/portal/desktop/en/opportunities/index.html <br /> <br /> Health portal&amp;nbsp;http://ec.europa.eu/health/index_en.htm <br /> <br /> Online manual of the&amp;nbsp;Horizon2020&amp;nbsp;http://ec.europa.eu/research/participants/docs/h2020-funding-guide/index_en.htm <br /> <br /> Participants portal&amp;nbsp;https://ec.europa.eu/research/participants/portal/desktop/en/home.html <br /> <br /> H2020 &amp;amp; FP7 reference documents&amp;nbsp;http://ec.europa.eu/research/participants/portal/desktop/en/funding/reference_docs.html#h2020-work-programmes-2014-15-main-wp <br /> <br /> &lt;br&gt; <br /> <br /> === Information portals ===<br /> <br /> http://www.academics.de/ <br /> <br /> http://www.eubuero.de/ <br /> <br /> http://www.finance-helpdesk.org</div> Megi Sharikadze https://lipidomicnet.org/index.php/Regensburg2014 Regensburg2014 2013-12-18T13:31:23Z <p>Megi Sharikadze: </p> <hr /> <div>= Regensburg 2014 International Events&lt;br&gt; =<br /> <br /> '''For information, please visit Regensburg 2014 International Events website: www.multiomics.ukr.de''' <br /> <br /> '''Organizing Committee''' <br /> <br /> &lt;br&gt;</div> Megi Sharikadze