PubMed:25538238
Annnotations
GlyCosmos6-Glycan-Motif-Image
| Id | Subject | Object | Predicate | Lexical cue | image |
|---|---|---|---|---|---|
| T1 | 1415-1426 | Glycan_Motif | denotes | Chondroitin | https://api.glycosmos.org/wurcs2image/0.10.0/png/binary/G43702JT |
| T2 | 1683-1694 | Glycan_Motif | denotes | chondroitin | https://api.glycosmos.org/wurcs2image/0.10.0/png/binary/G43702JT |
Glycosmos6-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glyco_epitope_db_id |
|---|---|---|---|---|---|
| T1 | 1203-1218 | GlycoEpitope | denotes | Heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T2 | 1415-1426 | GlycoEpitope | denotes | Chondroitin | http://www.glycoepitope.jp/epitopes/EP0081 |
| T3 | 1535-1550 | GlycoEpitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T4 | 1683-1694 | GlycoEpitope | denotes | chondroitin | http://www.glycoepitope.jp/epitopes/EP0081 |
GlyCosmos6-Glycan-Motif-Structure
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1 | 1415-1426 | https://glytoucan.org/Structures/Glycans/G43702JT | denotes | Chondroitin |
| T2 | 1683-1694 | https://glytoucan.org/Structures/Glycans/G43702JT | denotes | chondroitin |
sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1 | 0-105 | Sentence | denotes | Differential effects on light chain amyloid formation depend on mutations and type of glycosaminoglycans. |
| T2 | 106-328 | Sentence | denotes | Amyloid light chain (AL) amyloidosis is a protein misfolding disease where immunoglobulin light chains sample partially folded states that lead to misfolding and amyloid formation, resulting in organ dysfunction and death. |
| T3 | 329-521 | Sentence | denotes | In vivo, amyloid deposits are found in the extracellular space and involve a variety of accessory molecules, such as glycosaminoglycans, one of the main components of the extracellular matrix. |
| T4 | 522-638 | Sentence | denotes | Glycosaminoglycans are a group of negatively charged heteropolysaccharides composed of repeating disaccharide units. |
| T5 | 639-792 | Sentence | denotes | In this study, we investigated the effect of glycosaminoglycans on the kinetics of amyloid fibril formation of three AL cardiac amyloidosis light chains. |
| T6 | 793-896 | Sentence | denotes | These proteins have similar thermodynamic stability but exhibit different kinetics of fibril formation. |
| T7 | 897-995 | Sentence | denotes | We also studied single restorative and reciprocal mutants and wild type germ line control protein. |
| T8 | 996-1202 | Sentence | denotes | We found that the type of glycosaminoglycan has a different effect on the kinetics of fibril formation, and this effect seems to be associated with the natural propensity of each AL protein to form fibrils. |
| T9 | 1203-1414 | Sentence | denotes | Heparan sulfate accelerated AL-12, AL-09, κI Y87H, and AL-103 H92D fibril formation; delayed fibril formation for AL-103; and did not promote any fibril formation for AL-12 R65S, AL-103 delP95aIns, or κI O18/O8. |
| T10 | 1415-1518 | Sentence | denotes | Chondroitin sulfate A, on the other hand, showed a strong fibril formation inhibition for all proteins. |
| T11 | 1519-1890 | Sentence | denotes | We propose that heparan sulfate facilitates the formation of transient amyloidogenic conformations of AL light chains, thereby promoting amyloid formation, whereas chondroitin sulfate A kinetically traps partially unfolded intermediates, and further fibril elongation into fibrils is inhibited, resulting in formation/accumulation of oligomeric/protofibrillar aggregates. |
Glycosmos6-MAT
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1 | 1451-1455 | http://purl.obolibrary.org/obo/MAT_0000091 | denotes | hand |
PubmedHPO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1 | 106-113 | HP_0011034 | denotes | Amyloid |
| T2 | 131-142 | HP_0011034 | denotes | amyloidosis |
| T3 | 268-275 | HP_0011034 | denotes | amyloid |
| T4 | 338-345 | HP_0011034 | denotes | amyloid |
| T5 | 722-729 | HP_0011034 | denotes | amyloid |
| T6 | 767-778 | HP_0011034 | denotes | amyloidosis |
| T7 | 1590-1603 | HP_0011034 | denotes | amyloidogenic |
| T8 | 1656-1663 | HP_0011034 | denotes | amyloid |
mondo_disease
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T1 | 36-43 | Disease | denotes | amyloid | http://purl.obolibrary.org/obo/MONDO_0019065 |
| T2 | 106-113 | Disease | denotes | Amyloid | http://purl.obolibrary.org/obo/MONDO_0019065 |
| T3 | 126-145 | Disease | denotes | (AL) amyloidosis is | http://purl.obolibrary.org/obo/MONDO_0009693|http://purl.obolibrary.org/obo/MONDO_0019438 |
| T5 | 148-174 | Disease | denotes | protein misfolding disease | http://purl.obolibrary.org/obo/MONDO_0021179 |
| T6 | 268-275 | Disease | denotes | amyloid | http://purl.obolibrary.org/obo/MONDO_0019065 |
| T7 | 338-345 | Disease | denotes | amyloid | http://purl.obolibrary.org/obo/MONDO_0019065 |
| T8 | 722-729 | Disease | denotes | amyloid | http://purl.obolibrary.org/obo/MONDO_0019065 |
| T9 | 767-778 | Disease | denotes | amyloidosis | http://purl.obolibrary.org/obo/MONDO_0019065 |
| T10 | 1656-1663 | Disease | denotes | amyloid | http://purl.obolibrary.org/obo/MONDO_0019065 |
Anatomy-MAT
| Id | Subject | Object | Predicate | Lexical cue | mat_id |
|---|---|---|---|---|---|
| T1 | 1451-1455 | Body_part | denotes | hand | http://purl.obolibrary.org/obo/MAT_0000091 |
HP-phenotype
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T1 | 131-142 | Phenotype | denotes | amyloidosis | HP:0011034 |
| T2 | 759-778 | Phenotype | denotes | cardiac amyloidosis | HP:0030843 |
Glycan-GlyCosmos
| Id | Subject | Object | Predicate | Lexical cue | image |
|---|---|---|---|---|---|
| T1 | 1415-1426 | Glycan | denotes | Chondroitin | https://api.glycosmos.org/wurcs2image/latest/png/binary/G43702JT |
| T2 | 1683-1694 | Glycan | denotes | chondroitin | https://api.glycosmos.org/wurcs2image/latest/png/binary/G43702JT |
| T3 | 1203-1218 | Glycan | denotes | Heparan sulfate | https://api.glycosmos.org/wurcs2image/latest/png/binary/G17927IW |
| T5 | 1535-1550 | Glycan | denotes | heparan sulfate | https://api.glycosmos.org/wurcs2image/latest/png/binary/G17927IW |
GlyCosmos-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glycoepitope_id |
|---|---|---|---|---|---|
| T1 | 1203-1218 | http://purl.jp/bio/12/glyco/glycan#Glycan_epitope | denotes | Heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T2 | 1415-1426 | http://purl.jp/bio/12/glyco/glycan#Glycan_epitope | denotes | Chondroitin | http://www.glycoepitope.jp/epitopes/EP0081 |
| T3 | 1535-1550 | http://purl.jp/bio/12/glyco/glycan#Glycan_epitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T4 | 1683-1694 | http://purl.jp/bio/12/glyco/glycan#Glycan_epitope | denotes | chondroitin | http://www.glycoepitope.jp/epitopes/EP0081 |
GlyCosmos15-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T1 | 131-142 | Phenotype | denotes | amyloidosis | HP:0011034 |
| T2 | 759-778 | Phenotype | denotes | cardiac amyloidosis | HP:0030843 |
GlyCosmos15-Glycan
| Id | Subject | Object | Predicate | Lexical cue | image |
|---|---|---|---|---|---|
| T1 | 1415-1426 | Glycan | denotes | Chondroitin | https://api.glycosmos.org/wurcs2image/latest/png/binary/G43702JT |
| T2 | 1683-1694 | Glycan | denotes | chondroitin | https://api.glycosmos.org/wurcs2image/latest/png/binary/G43702JT |
| T3 | 1203-1218 | Glycan | denotes | Heparan sulfate | https://api.glycosmos.org/wurcs2image/latest/png/binary/G17927IW |
| T5 | 1535-1550 | Glycan | denotes | heparan sulfate | https://api.glycosmos.org/wurcs2image/latest/png/binary/G17927IW |
GlyCosmos15-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T1 | 300-305 | Body_part | denotes | organ | http://purl.obolibrary.org/obo/UBERON_0000062|http://purl.obolibrary.org/obo/UBERON_0003103 |
| T3 | 372-391 | Body_part | denotes | extracellular space | http://purl.obolibrary.org/obo/GO_0005615 |
| T4 | 500-520 | Body_part | denotes | extracellular matrix | http://purl.obolibrary.org/obo/GO_0031012 |
| T5 | 730-736 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T6 | 879-885 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T7 | 1082-1088 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T8 | 1270-1276 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T9 | 1296-1302 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T10 | 1349-1355 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T11 | 1451-1455 | Body_part | denotes | hand | http://purl.obolibrary.org/obo/UBERON_0002398 |
| T12 | 1473-1479 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T13 | 1769-1775 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
GlyCosmos15-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T1 | 36-43 | Disease | denotes | amyloid | MONDO:0019065 |
| T2 | 106-113 | Disease | denotes | Amyloid | MONDO:0019065 |
| T3 | 126-145 | Disease | denotes | (AL) amyloidosis is | MONDO:0009693|MONDO:0019438 |
| T5 | 148-174 | Disease | denotes | protein misfolding disease | MONDO:0021179 |
| T6 | 268-275 | Disease | denotes | amyloid | MONDO:0019065 |
| T7 | 338-345 | Disease | denotes | amyloid | MONDO:0019065 |
| T8 | 722-729 | Disease | denotes | amyloid | MONDO:0019065 |
| T9 | 767-778 | Disease | denotes | amyloidosis | MONDO:0019065 |
| T10 | 1656-1663 | Disease | denotes | amyloid | MONDO:0019065 |
GlyCosmos15-GlycoEpitope
| Id | Subject | Object | Predicate | Lexical cue | glycoepitope_id |
|---|---|---|---|---|---|
| T1 | 1203-1218 | http://purl.jp/bio/12/glyco/glycan#Glycan_epitope | denotes | Heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T2 | 1415-1426 | http://purl.jp/bio/12/glyco/glycan#Glycan_epitope | denotes | Chondroitin | http://www.glycoepitope.jp/epitopes/EP0081 |
| T3 | 1535-1550 | http://purl.jp/bio/12/glyco/glycan#Glycan_epitope | denotes | heparan sulfate | http://www.glycoepitope.jp/epitopes/EP0086 |
| T4 | 1683-1694 | http://purl.jp/bio/12/glyco/glycan#Glycan_epitope | denotes | chondroitin | http://www.glycoepitope.jp/epitopes/EP0081 |
GlyCosmos15-Sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1 | 0-105 | Sentence | denotes | Differential effects on light chain amyloid formation depend on mutations and type of glycosaminoglycans. |
| T2 | 106-328 | Sentence | denotes | Amyloid light chain (AL) amyloidosis is a protein misfolding disease where immunoglobulin light chains sample partially folded states that lead to misfolding and amyloid formation, resulting in organ dysfunction and death. |
| T3 | 329-521 | Sentence | denotes | In vivo, amyloid deposits are found in the extracellular space and involve a variety of accessory molecules, such as glycosaminoglycans, one of the main components of the extracellular matrix. |
| T4 | 522-638 | Sentence | denotes | Glycosaminoglycans are a group of negatively charged heteropolysaccharides composed of repeating disaccharide units. |
| T5 | 639-792 | Sentence | denotes | In this study, we investigated the effect of glycosaminoglycans on the kinetics of amyloid fibril formation of three AL cardiac amyloidosis light chains. |
| T6 | 793-896 | Sentence | denotes | These proteins have similar thermodynamic stability but exhibit different kinetics of fibril formation. |
| T7 | 897-995 | Sentence | denotes | We also studied single restorative and reciprocal mutants and wild type germ line control protein. |
| T8 | 996-1202 | Sentence | denotes | We found that the type of glycosaminoglycan has a different effect on the kinetics of fibril formation, and this effect seems to be associated with the natural propensity of each AL protein to form fibrils. |
| T9 | 1203-1414 | Sentence | denotes | Heparan sulfate accelerated AL-12, AL-09, κI Y87H, and AL-103 H92D fibril formation; delayed fibril formation for AL-103; and did not promote any fibril formation for AL-12 R65S, AL-103 delP95aIns, or κI O18/O8. |
| T10 | 1415-1518 | Sentence | denotes | Chondroitin sulfate A, on the other hand, showed a strong fibril formation inhibition for all proteins. |
| T11 | 1519-1890 | Sentence | denotes | We propose that heparan sulfate facilitates the formation of transient amyloidogenic conformations of AL light chains, thereby promoting amyloid formation, whereas chondroitin sulfate A kinetically traps partially unfolded intermediates, and further fibril elongation into fibrils is inhibited, resulting in formation/accumulation of oligomeric/protofibrillar aggregates. |
GlyCosmos15-FMA
| Id | Subject | Object | Predicate | Lexical cue | db_id |
|---|---|---|---|---|---|
| T1 | 300-305 | Body_part | denotes | organ | FMA:67498 |
| T2 | 372-391 | Body_part | denotes | extracellular space | FMA:70022 |
| T3 | 500-520 | Body_part | denotes | extracellular matrix | FMA:9672 |
| T4 | 1451-1455 | Body_part | denotes | hand | FMA:9712 |
GlyCosmos15-MAT
| Id | Subject | Object | Predicate | Lexical cue | mat_id |
|---|---|---|---|---|---|
| T1 | 1451-1455 | Body_part | denotes | hand | http://purl.obolibrary.org/obo/MAT_0000091 |
Anatomy-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T1 | 300-305 | Body_part | denotes | organ | http://purl.obolibrary.org/obo/UBERON_0000062|http://purl.obolibrary.org/obo/UBERON_0003103 |
| T3 | 372-391 | Body_part | denotes | extracellular space | http://purl.obolibrary.org/obo/GO_0005615 |
| T4 | 500-520 | Body_part | denotes | extracellular matrix | http://purl.obolibrary.org/obo/GO_0031012 |
| T5 | 730-736 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T6 | 879-885 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T7 | 1082-1088 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T8 | 1270-1276 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T9 | 1296-1302 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T10 | 1349-1355 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T11 | 1451-1455 | Body_part | denotes | hand | http://purl.obolibrary.org/obo/UBERON_0002398 |
| T12 | 1473-1479 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |
| T13 | 1769-1775 | Body_part | denotes | fibril | http://purl.obolibrary.org/obo/GO_0099512 |