Glycan structure dictionary: Difference between revisions
(Created page with "Contains glycan terms detected by automatic literature mining + manual extraction of terms from papers available in GlyGen. Follows concepts from a regular dictionary such as...") |
(Term: N-linked glycans) |
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Contains glycan terms detected by automatic literature mining | Contains glycan structure terms detected by automatic and manual literature mining. It follows the format from a regular dictionary:http://web.hku.hk/mw/exnotes.html | ||
To report any issues or add annotations or new terms to the dictionary contact rsn13@gwu.edu | |||
== Term: N-linked | ==Term: core fucosylated== | ||
'''Term in sentence:''' | '''Definition:''' Modification of the N-glycan core structure with fucose moiety attached at the innermost GlcNAc facilitated by FUT8 enzyme. [MT, RN, <nowiki>https://doi.org/10.1016/bs.acr.2014.11.006</nowiki>]. | ||
'''Term reference:''' N/A | |||
'''Synonyms:''' Core Fuc| 6-linked Fuc|Fuca6 to chitobiose core|a6-linked Fuc|a1-6 Fuc|Fuca6 to chitobiose core|Fuc a1-6 to chitobiose core|Fuca6 to internal GlcNAc|Fuc a1-6 to internal GlcNAc | |||
'''Function:''' Required for signaling through TCR [PMID: 29434598]. | VGF, PDGFr, and EGFr and TGFbeta receptor dysregulation in Fut8 KO mice [PMID: 17132494]| IgG-Fcg receptor interactions destabilized by core Fuc [PMID: 29062024] | |||
'''Disease associations:''' Emphysema[MT]|systemic lupus erythematosus[MT]lung cancer[MT]|autoimmunity[MT]|tumor metastasis[MT] | |||
'''Publication(s):''' [https://pubmed.ncbi.nlm.nih.gov/?term=27678371%7C26514868%7C15538974%7C24914453%7C17049014%7C32078267%7C31268672&size=50 Exact-Match] [https://pubmed.ncbi.nlm.nih.gov/?term=28674882%7C29956878%7C27798819%7C32044029%7C30962950%7C31548313%7C30907281%7C29090617%7C29571940%7C28800497%7C27629418%7C29733746%7C31623829%7C28768188%7C26897254%7C31451706%7C26514868%7C29427759%7C28982386%7C26587313%7C30940702%7C15538974%7C31249452%7C27282921%7C31229844%7C30445455%7C31325506%7C24732908%7C29209018%7C26965517%7C28609658%7C24914453%7C25573275%7C17049014%7C19218400%7C27012207%7C27139574%7C32078267%7C25861849%7C32561391%7C21374780%7C31669139%7C25732060%7C29408166%7C31268672%7C30472795%7C30614075%7C19003000%7C25664929&size=50 Non-Exact-Match] | |||
'''Term in sentence:''' The approach was validated for selective capture and analysis of core fucosylated N-glycans present in complex glycan mixtures derived from mammalian serum IgG.[PMID:27678371] | |||
''' | '''Wikipedia page:''' N/A | ||
''' | '''Essentials of glycobiology:''' N/A | ||
''' | ==Term: sialyl Lewis X== | ||
'''Definition:''' A sialylated version of Lewis X antigen expressed on cell surfaces with structure Alpha-Neup5Ac-(2->3)-beta-D-Galp-(1->4)-[alpha-L-Fucp-(1->3)]-beta-D-GlcpNAc is alpha-Neup5Ac-(2->3)-beta-D-Galp-(1->4)-[alpha-L-Fucp-(1->3)]-D-GlcpNAc in which the anomeric configuration of the reducing-end N-acetyl-beta-D-glucosamine residue is beta. It is a ligand for selectins. [MESH:2030970,CHEBI:71622,RN] | |||
''' | '''Term reference:''' [https://glytoucan.org/Structures/Glycans/G00054MO GTC:G00054MO] [https://www.glycoepitope.jp/epitopes/12 GlycoEpitope:EP0012] [https://pubchem.ncbi.nlm.nih.gov/compound/44456859 CID:44456859] [https://www.ebi.ac.uk/chebi/searchId.do?chebiId=71622 CHEBI:71622] [https://www.ncbi.nlm.nih.gov/mesh/2030970 MESH:2030970][https://edwardslab.bmcb.georgetown.edu/glycomotif/GM.G00054MO GlycoMotif:GM.G00054MO] | ||
'''Synonyms:''' | '''Synonyms:''' Core Fuc| 6-linked Fuc|Fuca6 to chitobiose core|a6-linked Fuc|a1-6 Fuc|Fuca6 to chitobiose core|Fuc a1-6 to chitobiose core|Fuca6 to internal GlcNAc|Fuc a1-6 to internal GlcNAc | ||
'''Function:''' | '''Function:''' Sialyl Lex was shown to be a specific ligand on human leukocytes for vascular E- and P-selectins,and was shown to mediate leukocyte recruitment.[GlycoEpitope:EP0012]|The determinant is also frequently expressed on human cancer cells,and is involved in the adhesion of cancer cells to vascular endothelium and thus contribute to hematogenous metastasis of cancer.[GlycoEpitope:EP0012] | ||
'''Disease associations:''' | '''Disease associations:''' colon cancer[GlycoEpitope:EP0012]|colorectal cancer[GlycoEpitope:EP0012] | ||
''' | '''Publication(s):''' [https://pubmed.ncbi.nlm.nih.gov/?term=12828079%7C8940172%7C10075923%7C19054801%7C9642161&size=50 Exact-Match] | ||
''' | '''Term in sentence:''' As sialyl Lewis X is a lignad of the selectin family, it has been proposed that sialyl Lewis X-rich colon cancer cells metastasize to the liver by adhesion to selectins on hepatic endothelial cells.[PMID:12828079] | ||
'''Wikipedia page:''' [[wikipedia:Sialyl-Lewis_X|Sialyl-Lewis_X]] | |||
''' | |||
''' | '''Essentials of glycobiology:''' [https://www.ncbi.nlm.nih.gov/books/NBK453042/ NBK453042-Chapter14] | ||
''' | ==Term: N-linked glycans== | ||
'''Term in sentence:''' Structural analysis of N-linked glycans in Caenorhabditis elegans.[PMID:12038976] | |||
''' | '''Publication:''' [https://pubmed.ncbi.nlm.nih.gov/?term=31211781%7C28384382%7C30305477%7C31364612%7C26899268%7C29945790%7C29652253%7C29723274%7C30962676%7C29778448%7C25325701%7C31100702%7C28898525%7C22944671%7C19277537%7C24473128%7C17957771%7C27554083%7C15189166%7C11269317%7C19577919%7C24303005%7C12042249%7C22191536%7C28324664%7C25965797%7C25434632&size=50 Exact-Match] [https://pubmed.ncbi.nlm.nih.gov/?term=30484244%7C28110657%7C29865036%7C20129637%7C27346875%7C30280442%7C26911286%7C22491358%7C26582281%7C26398792%7C31548313%7C31066275%7C28331984%7C25482090%7C28518173%7C30733536%7C22326428%7C30063825%7C30315103%7C21558494%7C31676555%7C31256374&size=50 Non-Exact-Match] | ||
'''Definition:''' The term used to refer to the carbohydrate portion of N-glycoproteins when attached to a nitrogen from asparagine or arginine side-chains.[CHEBI:59520] | |||
''' | '''Term reference:''' [https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:59520 CHEBI:59520] | ||
'''Synonyms:''' | '''Synonyms:''' N/A | ||
'''Function:''' | '''Function:''' N-glycans modulate the function of several cell surface proteins which involved in migration, adhesion and which are responsible for regulating myelination.[PMID: 25151374]. Affect transportation of the glycosylated proteins in the Golgi. [PMID: 25151374]|Affects cell-cell interaction, adhesion, expression, proper folding. [PMID: 25151374]. extracellular N-glycans act as key modulators of neuronal uptake of αSacetyl [PMID: 31211781] | ||
'''Disease associations:''' Rheumatoid arthritis[PMID:17392038]. Type 1 Diabetes[PMID:29146600]. Lung Cancer[PMID: 23766031] | |||
''' | '''Wikipedia page:''' [[wikipedia:N-linked_glycosylation|N-linked glycans]] | ||
''' | '''Essentials of glycobiology:''' [https://www.ncbi.nlm.nih.gov/books/NBK453020/ NBK453020-Chapter 9] | ||
<br /> | <br /> | ||
Revision as of 17:04, 19 November 2020
Contains glycan structure terms detected by automatic and manual literature mining. It follows the format from a regular dictionary:http://web.hku.hk/mw/exnotes.html
To report any issues or add annotations or new terms to the dictionary contact rsn13@gwu.edu
Term: core fucosylated
Definition: Modification of the N-glycan core structure with fucose moiety attached at the innermost GlcNAc facilitated by FUT8 enzyme. [MT, RN, https://doi.org/10.1016/bs.acr.2014.11.006].
Term reference: N/A
Synonyms: Core Fuc| 6-linked Fuc|Fuca6 to chitobiose core|a6-linked Fuc|a1-6 Fuc|Fuca6 to chitobiose core|Fuc a1-6 to chitobiose core|Fuca6 to internal GlcNAc|Fuc a1-6 to internal GlcNAc
Function: Required for signaling through TCR [PMID: 29434598]. | VGF, PDGFr, and EGFr and TGFbeta receptor dysregulation in Fut8 KO mice [PMID: 17132494]| IgG-Fcg receptor interactions destabilized by core Fuc [PMID: 29062024]
Disease associations: Emphysema[MT]|systemic lupus erythematosus[MT]lung cancer[MT]|autoimmunity[MT]|tumor metastasis[MT]
Publication(s): Exact-Match Non-Exact-Match
Term in sentence: The approach was validated for selective capture and analysis of core fucosylated N-glycans present in complex glycan mixtures derived from mammalian serum IgG.[PMID:27678371]
Wikipedia page: N/A
Essentials of glycobiology: N/A
Term: sialyl Lewis X
Definition: A sialylated version of Lewis X antigen expressed on cell surfaces with structure Alpha-Neup5Ac-(2->3)-beta-D-Galp-(1->4)-[alpha-L-Fucp-(1->3)]-beta-D-GlcpNAc is alpha-Neup5Ac-(2->3)-beta-D-Galp-(1->4)-[alpha-L-Fucp-(1->3)]-D-GlcpNAc in which the anomeric configuration of the reducing-end N-acetyl-beta-D-glucosamine residue is beta. It is a ligand for selectins. [MESH:2030970,CHEBI:71622,RN]
Term reference: GTC:G00054MO GlycoEpitope:EP0012 CID:44456859 CHEBI:71622 MESH:2030970GlycoMotif:GM.G00054MO
Synonyms: Core Fuc| 6-linked Fuc|Fuca6 to chitobiose core|a6-linked Fuc|a1-6 Fuc|Fuca6 to chitobiose core|Fuc a1-6 to chitobiose core|Fuca6 to internal GlcNAc|Fuc a1-6 to internal GlcNAc
Function: Sialyl Lex was shown to be a specific ligand on human leukocytes for vascular E- and P-selectins,and was shown to mediate leukocyte recruitment.[GlycoEpitope:EP0012]|The determinant is also frequently expressed on human cancer cells,and is involved in the adhesion of cancer cells to vascular endothelium and thus contribute to hematogenous metastasis of cancer.[GlycoEpitope:EP0012]
Disease associations: colon cancer[GlycoEpitope:EP0012]|colorectal cancer[GlycoEpitope:EP0012]
Publication(s): Exact-Match
Term in sentence: As sialyl Lewis X is a lignad of the selectin family, it has been proposed that sialyl Lewis X-rich colon cancer cells metastasize to the liver by adhesion to selectins on hepatic endothelial cells.[PMID:12828079]
Wikipedia page: Sialyl-Lewis_X
Essentials of glycobiology: NBK453042-Chapter14
Term: N-linked glycans
Term in sentence: Structural analysis of N-linked glycans in Caenorhabditis elegans.[PMID:12038976]
Publication: Exact-Match Non-Exact-Match
Definition: The term used to refer to the carbohydrate portion of N-glycoproteins when attached to a nitrogen from asparagine or arginine side-chains.[CHEBI:59520]
Term reference: CHEBI:59520
Synonyms: N/A
Function: N-glycans modulate the function of several cell surface proteins which involved in migration, adhesion and which are responsible for regulating myelination.[PMID: 25151374]. Affect transportation of the glycosylated proteins in the Golgi. [PMID: 25151374]|Affects cell-cell interaction, adhesion, expression, proper folding. [PMID: 25151374]. extracellular N-glycans act as key modulators of neuronal uptake of αSacetyl [PMID: 31211781]
Disease associations: Rheumatoid arthritis[PMID:17392038]. Type 1 Diabetes[PMID:29146600]. Lung Cancer[PMID: 23766031]
Wikipedia page: N-linked glycans
Essentials of glycobiology: NBK453020-Chapter 9