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PubMed:23395820 JSON TXT

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ngly1-sample4

Id	Subject	Object	Predicate	Lexical cue
T1	488-494	chem:24139	denotes	GlcNAc
T2	754-760	chem:24139	denotes	GlcNAc
T3	1144-1152	chem:24139	denotes	GlcNAcα1
T4	1319-1325	chem:24139	denotes	GlcNAc

GlyCosmos6-Glycan-Motif-Image

Id	Subject	Object	Predicate	Lexical cue	image
T1	504-525	Glycan_Motif	denotes	N-acetylgalactosamine	https://api.glycosmos.org/wurcs2image/0.10.0/png/binary/G27025MB
T2	1547-1558	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	337-352	GlycoEpitope	denotes	heparan sulfate	http://www.glycoepitope.jp/epitopes/EP0086
T2	1528-1543	GlycoEpitope	denotes	heparan sulfate	http://www.glycoepitope.jp/epitopes/EP0086
T3	1547-1558	GlycoEpitope	denotes	chondroitin	http://www.glycoepitope.jp/epitopes/EP0081

sentences

Id	Subject	Object	Predicate	Lexical cue
T1	0-132	Sentence	denotes	EXTL2, a member of the EXT family of tumor suppressors, controls glycosaminoglycan biosynthesis in a xylose kinase-dependent manner.
T2	133-353	Sentence	denotes	Mutant alleles of EXT1 or EXT2, two members of the EXT gene family, are causative agents in hereditary multiple exostoses, and their gene products function together as a polymerase in the biosynthesis of heparan sulfate.
T3	354-600	Sentence	denotes	EXTL2, one of three EXT-like genes in the human genome that are homologous to EXT1 and EXT2, encodes a transferase that adds not only GlcNAc but also N-acetylgalactosamine to the glycosaminoglycan (GAG)-protein linkage region via an α1,4-linkage.
T4	601-717	Sentence	denotes	However, both the role of EXTL2 in the biosynthesis of GAGs and the biological significance of EXTL2 remain unclear.
T5	718-900	Sentence	denotes	Here we show that EXTL2 transfers a GlcNAc residue to the tetrasaccharide linkage region that is phosphorylated by a xylose kinase 1 (FAM20B) and thereby terminates chain elongation.
T6	901-1001	Sentence	denotes	We isolated an oligosaccharide from the mouse liver, which was not detected in EXTL2 knock-out mice.
T7	1002-1277	Sentence	denotes	Based on structural analysis by a combination of glycosidase digestion and 500-MHz (1)H NMR spectroscopy, the oligosaccharide was found to be GlcNAcα1-4GlcUAβ1-3Galβ1-3Galβ1-4Xyl(2-O-phosphate), which was considered to be a biosynthetic intermediate of an immature GAG chain.
T8	1278-1421	Sentence	denotes	Indeed, EXTL2 specifically transferred a GlcNAc residue to a phosphorylated linkage tetrasaccharide, GlcUAβ1-3Galβ1-3Galβ1-4Xyl(2-O-phosphate).
T9	1422-1579	Sentence	denotes	Remarkably, the phosphorylated linkage pentasaccharide generated by EXTL2 was not used as an acceptor for heparan sulfate or chondroitin sulfate polymerases.
T10	1580-1681	Sentence	denotes	Moreover, production of GAGs was significantly higher in EXTL2 knock-out mice than in wild-type mice.
T11	1682-1916	Sentence	denotes	These results indicate that EXTL2 functions to suppress GAG biosynthesis that is enhanced by a xylose kinase and that the EXTL2-dependent mechanism that regulates GAG biosynthesis might be a "quality control system" for proteoglycans.

GlyCosmos6-Glycan-Motif-Structure

Id	Subject	Object	Predicate	Lexical cue
T1	504-525	https://glytoucan.org/Structures/Glycans/G27025MB	denotes	N-acetylgalactosamine
T2	1547-1558	https://glytoucan.org/Structures/Glycans/G43702JT	denotes	chondroitin

Glycosmos6-MAT

Id	Subject	Object	Predicate	Lexical cue
T1	947-952	http://purl.obolibrary.org/obo/MAT_0000097	denotes	liver

Allie

Id	Subject	Object	Predicate	Lexical cue
SS1_23395820_2_0	533-550	expanded	denotes	glycosaminoglycan
SS2_23395820_2_0	552-555	abbr	denotes	GAG
AE1_23395820_2_0	SS1_23395820_2_0	SS2_23395820_2_0	abbreviatedTo	glycosaminoglycan,GAG

PubmedHPO

Id	Subject	Object	Predicate	Lexical cue
T1	236-254	HP_0002762	denotes	multiple exostoses
T2	245-254	HP_0100777	denotes	exostoses

NGLY1-deficiency

Id	Subject	Object	Predicate	Lexical cue
PD-NGLY1-deficiency-B_T1	488-494	chem:24139	denotes	GlcNAc
PD-NGLY1-deficiency-B_T2	754-760	chem:24139	denotes	GlcNAc
PD-NGLY1-deficiency-B_T3	1319-1325	chem:24139	denotes	GlcNAc

mondo_disease

Id	Subject	Object	Predicate	Lexical cue	mondo_id
T1	37-42	Disease	denotes	tumor	http://purl.obolibrary.org/obo/MONDO_0005070
T2	225-254	Disease	denotes	hereditary multiple exostoses	http://purl.obolibrary.org/obo/MONDO_0005508

Anatomy-MAT

Id	Subject	Object	Predicate	Lexical cue	mat_id
T1	947-952	Body_part	denotes	liver	http://purl.obolibrary.org/obo/MAT_0000097

HP-phenotype

Id	Subject	Object	Predicate	Lexical cue	hp_id
T1	37-42	Phenotype	denotes	tumor	HP:0002664
T2	236-254	Phenotype	denotes	multiple exostoses	HP:0002762

Glycan-GlyCosmos

Id	Subject	Object	Predicate	Lexical cue	image
T1	1547-1558	Glycan	denotes	chondroitin	https://api.glycosmos.org/wurcs2image/latest/png/binary/G43702JT
T4	337-352	Glycan	denotes	heparan sulfate	https://api.glycosmos.org/wurcs2image/latest/png/binary/G17927IW
T2	1528-1543	Glycan	denotes	heparan sulfate	https://api.glycosmos.org/wurcs2image/latest/png/binary/G17927IW

GlyCosmos-GlycoEpitope

Id	Subject	Object	Predicate	Lexical cue	glycoepitope_id
T1	337-352	http://purl.jp/bio/12/glyco/glycan#Glycan_epitope	denotes	heparan sulfate	http://www.glycoepitope.jp/epitopes/EP0086
T2	1528-1543	http://purl.jp/bio/12/glyco/glycan#Glycan_epitope	denotes	heparan sulfate	http://www.glycoepitope.jp/epitopes/EP0086
T3	1547-1558	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	37-42	Phenotype	denotes	tumor	HP:0002664
T2	236-254	Phenotype	denotes	multiple exostoses	HP:0002762

GlyCosmos15-NCBITAXON

Id	Subject	Object	Predicate	Lexical cue	db_id
T1	396-401	OrganismTaxon	denotes	human	9606
T2	941-946	OrganismTaxon	denotes	mouse	10088\|10090
T4	996-1000	OrganismTaxon	denotes	mice	10088
T5	1653-1657	OrganismTaxon	denotes	mice	10088
T6	1676-1680	OrganismTaxon	denotes	mice	10088

GlyCosmos15-UBERON

Id	Subject	Object	Predicate	Lexical cue	uberon_id
T1	947-952	Body_part	denotes	liver	http://purl.obolibrary.org/obo/UBERON_0002107

GlyCosmos15-MAT

Id	Subject	Object	Predicate	Lexical cue	mat_id
T1	947-952	Body_part	denotes	liver	http://purl.obolibrary.org/obo/MAT_0000097

sentences

Id	Subject	Object	Predicate	Lexical cue
T1	0-132	Sentence	denotes	EXTL2, a member of the EXT family of tumor suppressors, controls glycosaminoglycan biosynthesis in a xylose kinase-dependent manner.
T2	133-353	Sentence	denotes	Mutant alleles of EXT1 or EXT2, two members of the EXT gene family, are causative agents in hereditary multiple exostoses, and their gene products function together as a polymerase in the biosynthesis of heparan sulfate.
T3	354-600	Sentence	denotes	EXTL2, one of three EXT-like genes in the human genome that are homologous to EXT1 and EXT2, encodes a transferase that adds not only GlcNAc but also N-acetylgalactosamine to the glycosaminoglycan (GAG)-protein linkage region via an α1,4-linkage.
T4	601-717	Sentence	denotes	However, both the role of EXTL2 in the biosynthesis of GAGs and the biological significance of EXTL2 remain unclear.
T5	718-900	Sentence	denotes	Here we show that EXTL2 transfers a GlcNAc residue to the tetrasaccharide linkage region that is phosphorylated by a xylose kinase 1 (FAM20B) and thereby terminates chain elongation.
T6	901-1001	Sentence	denotes	We isolated an oligosaccharide from the mouse liver, which was not detected in EXTL2 knock-out mice.
T7	1002-1277	Sentence	denotes	Based on structural analysis by a combination of glycosidase digestion and 500-MHz (1)H NMR spectroscopy, the oligosaccharide was found to be GlcNAcα1-4GlcUAβ1-3Galβ1-3Galβ1-4Xyl(2-O-phosphate), which was considered to be a biosynthetic intermediate of an immature GAG chain.
T8	1278-1421	Sentence	denotes	Indeed, EXTL2 specifically transferred a GlcNAc residue to a phosphorylated linkage tetrasaccharide, GlcUAβ1-3Galβ1-3Galβ1-4Xyl(2-O-phosphate).
T9	1422-1579	Sentence	denotes	Remarkably, the phosphorylated linkage pentasaccharide generated by EXTL2 was not used as an acceptor for heparan sulfate or chondroitin sulfate polymerases.
T10	1580-1681	Sentence	denotes	Moreover, production of GAGs was significantly higher in EXTL2 knock-out mice than in wild-type mice.
T11	1682-1916	Sentence	denotes	These results indicate that EXTL2 functions to suppress GAG biosynthesis that is enhanced by a xylose kinase and that the EXTL2-dependent mechanism that regulates GAG biosynthesis might be a "quality control system" for proteoglycans.

GlyCosmos15-Sentences

Id	Subject	Object	Predicate	Lexical cue
T1	0-132	Sentence	denotes	EXTL2, a member of the EXT family of tumor suppressors, controls glycosaminoglycan biosynthesis in a xylose kinase-dependent manner.
T2	133-353	Sentence	denotes	Mutant alleles of EXT1 or EXT2, two members of the EXT gene family, are causative agents in hereditary multiple exostoses, and their gene products function together as a polymerase in the biosynthesis of heparan sulfate.
T3	354-600	Sentence	denotes	EXTL2, one of three EXT-like genes in the human genome that are homologous to EXT1 and EXT2, encodes a transferase that adds not only GlcNAc but also N-acetylgalactosamine to the glycosaminoglycan (GAG)-protein linkage region via an α1,4-linkage.
T4	601-717	Sentence	denotes	However, both the role of EXTL2 in the biosynthesis of GAGs and the biological significance of EXTL2 remain unclear.
T5	718-900	Sentence	denotes	Here we show that EXTL2 transfers a GlcNAc residue to the tetrasaccharide linkage region that is phosphorylated by a xylose kinase 1 (FAM20B) and thereby terminates chain elongation.
T6	901-1001	Sentence	denotes	We isolated an oligosaccharide from the mouse liver, which was not detected in EXTL2 knock-out mice.
T7	1002-1277	Sentence	denotes	Based on structural analysis by a combination of glycosidase digestion and 500-MHz (1)H NMR spectroscopy, the oligosaccharide was found to be GlcNAcα1-4GlcUAβ1-3Galβ1-3Galβ1-4Xyl(2-O-phosphate), which was considered to be a biosynthetic intermediate of an immature GAG chain.
T8	1278-1421	Sentence	denotes	Indeed, EXTL2 specifically transferred a GlcNAc residue to a phosphorylated linkage tetrasaccharide, GlcUAβ1-3Galβ1-3Galβ1-4Xyl(2-O-phosphate).
T9	1422-1579	Sentence	denotes	Remarkably, the phosphorylated linkage pentasaccharide generated by EXTL2 was not used as an acceptor for heparan sulfate or chondroitin sulfate polymerases.
T10	1580-1681	Sentence	denotes	Moreover, production of GAGs was significantly higher in EXTL2 knock-out mice than in wild-type mice.
T11	1682-1916	Sentence	denotes	These results indicate that EXTL2 functions to suppress GAG biosynthesis that is enhanced by a xylose kinase and that the EXTL2-dependent mechanism that regulates GAG biosynthesis might be a "quality control system" for proteoglycans.

GlyCosmos15-GlycoEpitope

Id	Subject	Object	Predicate	Lexical cue	glycoepitope_id
T1	337-352	http://purl.jp/bio/12/glyco/glycan#Glycan_epitope	denotes	heparan sulfate	http://www.glycoepitope.jp/epitopes/EP0086
T2	1528-1543	http://purl.jp/bio/12/glyco/glycan#Glycan_epitope	denotes	heparan sulfate	http://www.glycoepitope.jp/epitopes/EP0086
T3	1547-1558	http://purl.jp/bio/12/glyco/glycan#Glycan_epitope	denotes	chondroitin	http://www.glycoepitope.jp/epitopes/EP0081

GlyCosmos15-MONDO

Id	Subject	Object	Predicate	Lexical cue	mondo_id
T1	37-42	Disease	denotes	tumor	MONDO:0005070
T2	225-254	Disease	denotes	hereditary multiple exostoses	MONDO:0005508

GlyCosmos15-Glycan

Id	Subject	Object	Predicate	Lexical cue	image
T1	1547-1558	Glycan	denotes	chondroitin	https://api.glycosmos.org/wurcs2image/latest/png/binary/G43702JT
T4	337-352	Glycan	denotes	heparan sulfate	https://api.glycosmos.org/wurcs2image/latest/png/binary/G17927IW
T2	1528-1543	Glycan	denotes	heparan sulfate	https://api.glycosmos.org/wurcs2image/latest/png/binary/G17927IW

NCBITAXON

Id	Subject	Object	Predicate	Lexical cue	db_id
T1	396-401	OrganismTaxon	denotes	human	9606
T2	941-946	OrganismTaxon	denotes	mouse	10088\|10090
T4	996-1000	OrganismTaxon	denotes	mice	10088
T5	1653-1657	OrganismTaxon	denotes	mice	10088
T6	1676-1680	OrganismTaxon	denotes	mice	10088

Anatomy-UBERON

Id	Subject	Object	Predicate	Lexical cue	uberon_id
T1	947-952	Body_part	denotes	liver	http://purl.obolibrary.org/obo/UBERON_0002107