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EBISPOT / efo

Github repo for the Experimental Factor Ontology (EFO)
https://www.ebi.ac.uk/efo/
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NTRs: metabolite measurements (PMID: 32150548) #1884

Closed ireneisdoomed closed 1 year ago

ireneisdoomed commented 1 year ago

Hi! We would like to ask you to create 47 new terms that capture diverse metabolites measurements, mainly coming from lipid metabolism.

The terms are pretty granular, this is to capture with detail the effect of rare variants on biomarkers relevant in Cardiovascular Disease as reported in 32150548. This curated paper will be included as one of our sources for the gene burden associations.

Term Label | Definition | Parent -- | -- | -- Triglycerides in very small VLDL | Desc: "Quantification of triglycerides in very small VLDL." | EFO_0004530 Triglycerides in small VLDL | Desc: "Quantification of triglycerides in small VLDL." | EFO_0004530 Phospholipids in small VLDL | Desc: "Quantification of phospholipids in small VLDL." | EFO_0004639 Concentration of small VLDL particles | Desc: "A lipoprotein concentration assay that measures the concentration of small very-low-density lipoprotein in a specimen." | EFO_0004529 Total lipids in small VLDL | Desc: "Quantification of total lipids in small VLDL." | EFO_0004529 Triglycerides in IDL | Desc: "Quantification of triglycerides in IDL." | EFO_0004530 Phospholipids in very small VLDL | Desc: "Quantification of phospholipids in very small VLDL." | EFO_0004529 Concentration of very small VLDL particles | Desc: "A lipoprotein concentration assay that measures the concentration of very small very-low-density lipoprotein in a specimen." | EFO_0004732 Concentration of medium VLDL particles | Desc: "A lipoprotein concentration assay that measures the concentration of very-low-density lipoprotein in a specimen." | EFO_0004732 Total lipids in medium VLDL | Desc: "Quantification of total lipids in medium VLDL." | EFO_0004529 Phospholipids in medium VLDL | Desc: "Quantification of phospholipids in medium VLDL." | EFO_0004639 Triglycerides in medium VLDL | Desc: "Quantification of triglycerides in medium VLDL." | EFO_0004530 Total lipids in very small VLDL | Desc: "Quantification of total lipids in very small VLDL." | EFO_0004529 Free cholesterol in large HDL | Desc: "Quantification of free cholesterol contained in or bound to HDL." | CHEBI_47775 Triglycerides in small HDL | Desc: "Quantification of triglycerides in small HDL." | EFO_0004530 Cholesterol esters in large HDL | Desc: "Quantification of cholesterol esters contained in or bound to HDL." | CHEBI_47775 Concentration of large LDL particles | Desc: "A lipoprotein concentration assay that measures the concentration of large low-density lipoprotein in a specimen." | EFO_0004732 Total lipids in IDL | Desc: "Quantification of total lipids in IDL." | EFO_0004529 Total cholesterol in medium VLDL | Desc: "Quantification of total cholesterol in medium VLDL." | EFO_0008317 Total lipids in large LDL | Desc: "Quantification of total lipids in large LDL." | EFO_0004529 Phospholipids in IDL | Desc: "Quantification of phospholipids in IDL." | EFO_0004639 Cholesterol esters in large LDL | Desc: "Quantification of cholesterol esters contained in or bound to large LDL." | EFO_0004195 Concentration of small LDL particles | Desc: "A lipoprotein concentration assay that measures the concentration of small low-density lipoprotein in a specimen." | EFO_0004732 Total cholesterol in large LDL | Desc: "Quantification of total cholesterol in large LDL." | EFO_0004195 Total lipids in small LDL | Desc: "Quantification of total lipids in small LDL." | EFO_0004529 Phospholipids in large VLDL | Desc: "Quantification of phospholipids in large VLDL." | EFO_0004639 Cholesterol esters in large VLDL | Desc: "Quantification of cholesterol esters contained in or bound to large VLDL." | EFO_0008317 Total cholesterol in small VLDL | Desc: "Quantification of total cholesterol in small VLDL." | EFO_0008317 Concentration of medium LDL particles | Desc: "A lipoprotein concentration assay that measures the concentration of medium low-density lipoprotein in a specimen." | EFO_0004732 Concentration of large VLDL particles | Desc: "A lipoprotein concentration assay that measures the concentration of large very-low-density lipoprotein in a specimen." | EFO_0004732 Phospholipids in large LDL | Desc: "Quantification of phospholipids in large LDL." | EFO_0004639 Total lipids in large VLDL | Desc: "Quantification of total lipids in large VLDL." | EFO_0004529 Free cholesterol in large LDL | Desc: "Quantification of free cholesterol contained in or bound to LDL." | EFO_0008591 Total cholesterol in large VLDL | Desc: "Quantification of total cholesterol in large VLDL." | EFO_0008317 Parent | Desc: "Quantification of triglycerides in large VLDL." | EFO_0004530 Total cholesterol in small LDL | Desc: "Quantification of total cholesterol in small LDL." | EFO_0004195 Total lipids in medium LDL | Desc: "Quantification of total lipids in medium LDL." | EFO_0004529 Free cholesterol in IDL | Desc: "Quantification of free cholesterol contained in or bound to IDL." | EFO_0008591 Cholesterol esters in medium VLDL | Desc: "Quantification of cholesterol esters contained in or bound to medium VLDL." | EFO_0008317 Phospholipids in medium LDL | Desc: "Quantification of phospholipids in medium LDL." | EFO_0004639 Total cholesterol in IDL | Desc: "Quantification of total cholesterol in IDL." | CHEBI_16113 Total cholesterol in medium LDL | Desc: "Quantification of total cholesterol in medium LDL." | EFO_0004195 Cholesterol esters in medium LDL | Desc: "Quantification of cholesterol esters contained in or bound to medium LDL." | EFO_0004195 Monounsaturated fatty acids; 16:1, 18:1 | Desc: "The determination of the amount of polyunsaturated fatty acids present in a sample." | EFO_0005110 Concentration of large HDL particles | Desc: "A lipoprotein concentration assay that measures the concentration of large high-density lipoprotein in a specimen." | EFO_0004732 Total lipids in large HDL | Desc: "Quantification of total lipids in large HDL." | EFO_0004529 Phospholipids in large HDL | Desc: "Quantification of phospholipids in large HDL." | EFO_0004639

ORCID id: https://orcid.org/0000-0002-2417-7324

Thank you very much.

zoependlington commented 1 year ago

Terms have been added as follows and will be available after the January (16th) release:

ID LABEL
EFO:0022144 triglycerides in very small VLDL measurement
EFO:0022145 triglycerides in small VLDL measurement
EFO:0022146 phospholipids in small VLDL measurement
EFO:0022147 concentration of small VLDL particles
EFO:0022148 total lipids in small VLDL
EFO:0022149 triglycerides in IDL measurement
EFO:0022150 phospholipids in very small VLDL measurement
EFO:0022151 concentration of very small VLDL particles
EFO:0022152 concentration of medium VLDL particles
EFO:0022153 total lipids in medium VLDL
EFO:0022154 phospholipids in medium VLDL measurement
EFO:0022155 triglycerides in medium VLDL measurement
EFO:0022156 total lipids in very small VLDL measurement
EFO:0022157 free cholesterol in large HDL measurement
EFO:0022158 triglycerides in small HDL measurement
EFO:0022159 cholesterol esters in large HDL measurement
EFO:0022160 concentration of large LDL particles measurement
EFO:0022161 total lipids in IDL
EFO:0022162 total cholesterol in medium VLDL
EFO:0022163 total lipids in large LDL
EFO:0022164 phospholipids in IDL measurement
EFO:0022165 cholesterol esters in large LDL measurement
EFO:0022166 concentration of small LDL particles measurement
EFO:0022167 total cholesterol in large LDL
EFO:0022168 total lipids in small LDL
EFO:0022169 phospholipids in large VLDL measurement
EFO:0022170 cholesterol esters in large VLDL measurement
EFO:0022171 total cholesterol in small VLDL
EFO:0022172 concentration of medium LDL particles measurement
EFO:0022173 concentration of large VLDL particles measurement
EFO:0022174 phospholipids in large LDL measurement
EFO:0022175 total lipids in large VLDL
EFO:0022176 free cholesterol in large LDL measurement
EFO:0022177 total cholesterol in large VLDL
EFO:0022178 triglycerides in large VLDL measurement
EFO:0022179 total cholesterol in small LDL
EFO:0022180 total lipids in medium LDL
EFO:0022181 free cholesterol in IDL measurement
EFO:0022182 cholesterol esters in medium VLDL measurement
EFO:0022183 phospholipids in medium LDL measurement
EFO:0022184 total cholesterol in IDL
EFO:0022185 total cholesterol in medium LDL
EFO:0022186 cholesterol esters in medium LDL measurement
EFO:0022187 monounsaturated fatty acids; 16:1, 18:1 measurement
EFO:0022188 concentration of large HDL particles measurement
EFO:0022189 total lipids in large HDL
EFO:0022190 phospholipids in large HDL measurement