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PubMed:28100567 JSONTXT

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CL-cell

Id Subject Object Predicate Lexical cue cl_id
T1 80-92 Cell denotes cancer cells http://purl.obolibrary.org/obo/CL:0001064

GlyCosmos6-Glycan-Motif-Image

Id Subject Object Predicate Lexical cue image
T1 942-953 Glycan_Motif denotes Tn antigens https://api.glycosmos.org/wurcs2image/0.10.0/png/binary/G57321FI
T2 1023-1039 Glycan_Motif denotes lactosylceramide https://api.glycosmos.org/wurcs2image/0.10.0/png/binary/G84224TW|https://api.glycosmos.org/wurcs2image/0.10.0/png/binary/G74621DY|https://api.glycosmos.org/wurcs2image/0.10.0/png/binary/G20420WT

GlyCosmos6-Glycan-Motif-Structure

Id Subject Object Predicate Lexical cue
T1 942-953 https://glytoucan.org/Structures/Glycans/G57321FI denotes Tn antigens
T2 1023-1039 https://glytoucan.org/Structures/Glycans/G20420WT denotes lactosylceramide
T3 1023-1039 https://glytoucan.org/Structures/Glycans/G74621DY denotes lactosylceramide
T4 1023-1039 https://glytoucan.org/Structures/Glycans/G84224TW denotes lactosylceramide

Glycosmos6-GlycoEpitope

Id Subject Object Predicate Lexical cue
T1 1023-1039 http://www.glycoepitope.jp/epitopes/EP0078 denotes lactosylceramide

sentences

Id Subject Object Predicate Lexical cue
TextSentencer_T1 0-93 Sentence denotes MeCP2 regulated glycogenes contribute to proliferation and apoptosis of gastric cancer cells.
TextSentencer_T2 94-306 Sentence denotes Aberrant glycogene and glycan expression is intimately associated with carcinogenesis, invasion, and metastasis of gastric cancer (GC); however the regulatory mechanisms for glycogenes in GC cells remain unclear.
TextSentencer_T3 307-512 Sentence denotes Methyl-CpG-binding protein 2 (MeCP2) regulates genes by binding to methylated promoters, and in our previous work we found that it is overexpressed in GC cell lines and tissues, functioning as an oncogene.
TextSentencer_T4 513-713 Sentence denotes In this study we detected the expression of 212 glycogenes in MeCP2 silenced GC cells versus control using the Agilent Whole Human Genome Microarray and mining the data through bioinformatic analysis.
TextSentencer_T5 714-1082 Sentence denotes A total of 10 glycogenes exhibited increased expression (FC ≥ 2, P < 0.05), while 16 showed decreased expression (FC ≤ 2, P < 0.05) in the MeCP2 silenced cells, which corresponded to down-regulation of Lewis antigens (UEA-I), T/Tn antigens (PNA), and mature N-glycans (PHA-E and PHA-E+L) and up-regulation of lactosylceramide, a precursor oligosaccharide of N-glycans.
TextSentencer_T6 1083-1331 Sentence denotes Examination of the TCGA Gastric Cancer databases demonstrated that nine glycogenes (24.6%) were oppositely regulated by MeCP2 in MeCP2 knockdown BGC-823 cells relative to their expression level in GC tissues, and might be downstream genes of MeCP2.
TextSentencer_T7 1332-1478 Sentence denotes Individual gene analysis suggested that neutral alpha-glucosidase AB (GANAB) knockdown can rescue the effects of MeCP2 overexpression on GC cells.
TextSentencer_T8 1479-1596 Sentence denotes MeCP2 promotes GANAB by binding to the second methylated CpG island (206 bp, -12916 to -13122) of the GANAB promoter.
TextSentencer_T9 1597-1775 Sentence denotes In conclusion, glycogenes can be either up- or down-regulated by MeCP2 directly or indirectly to alter the glycopatterning and affect the proliferation and apoptosis of GC cells.
T1 0-93 Sentence denotes MeCP2 regulated glycogenes contribute to proliferation and apoptosis of gastric cancer cells.
T2 94-306 Sentence denotes Aberrant glycogene and glycan expression is intimately associated with carcinogenesis, invasion, and metastasis of gastric cancer (GC); however the regulatory mechanisms for glycogenes in GC cells remain unclear.
T3 307-512 Sentence denotes Methyl-CpG-binding protein 2 (MeCP2) regulates genes by binding to methylated promoters, and in our previous work we found that it is overexpressed in GC cell lines and tissues, functioning as an oncogene.
T4 513-713 Sentence denotes In this study we detected the expression of 212 glycogenes in MeCP2 silenced GC cells versus control using the Agilent Whole Human Genome Microarray and mining the data through bioinformatic analysis.
T5 714-1082 Sentence denotes A total of 10 glycogenes exhibited increased expression (FC ≥ 2, P < 0.05), while 16 showed decreased expression (FC ≤ 2, P < 0.05) in the MeCP2 silenced cells, which corresponded to down-regulation of Lewis antigens (UEA-I), T/Tn antigens (PNA), and mature N-glycans (PHA-E and PHA-E+L) and up-regulation of lactosylceramide, a precursor oligosaccharide of N-glycans.
T6 1083-1331 Sentence denotes Examination of the TCGA Gastric Cancer databases demonstrated that nine glycogenes (24.6%) were oppositely regulated by MeCP2 in MeCP2 knockdown BGC-823 cells relative to their expression level in GC tissues, and might be downstream genes of MeCP2.
T7 1332-1478 Sentence denotes Individual gene analysis suggested that neutral alpha-glucosidase AB (GANAB) knockdown can rescue the effects of MeCP2 overexpression on GC cells.
T8 1479-1596 Sentence denotes MeCP2 promotes GANAB by binding to the second methylated CpG island (206 bp, -12916 to -13122) of the GANAB promoter.
T9 1597-1775 Sentence denotes In conclusion, glycogenes can be either up- or down-regulated by MeCP2 directly or indirectly to alter the glycopatterning and affect the proliferation and apoptosis of GC cells.

mondo_disease

Id Subject Object Predicate Lexical cue mondo_id
T1 72-86 Disease denotes gastric cancer http://purl.obolibrary.org/obo/MONDO_0001056
T2 209-223 Disease denotes gastric cancer http://purl.obolibrary.org/obo/MONDO_0001056
T3 225-227 Disease denotes GC http://purl.obolibrary.org/obo/MONDO_0001056
T4 282-284 Disease denotes GC http://purl.obolibrary.org/obo/MONDO_0001056
T5 458-460 Disease denotes GC http://purl.obolibrary.org/obo/MONDO_0001056
T6 590-592 Disease denotes GC http://purl.obolibrary.org/obo/MONDO_0001056
T7 983-986 Disease denotes PHA http://purl.obolibrary.org/obo/MONDO_0007710|http://purl.obolibrary.org/obo/MONDO_0008214
T9 993-996 Disease denotes PHA http://purl.obolibrary.org/obo/MONDO_0007710|http://purl.obolibrary.org/obo/MONDO_0008214
T11 1107-1121 Disease denotes Gastric Cancer http://purl.obolibrary.org/obo/MONDO_0001056
T12 1280-1282 Disease denotes GC http://purl.obolibrary.org/obo/MONDO_0001056
T13 1469-1471 Disease denotes GC http://purl.obolibrary.org/obo/MONDO_0001056
T14 1766-1768 Disease denotes GC http://purl.obolibrary.org/obo/MONDO_0001056

HP-phenotype

Id Subject Object Predicate Lexical cue hp_id
T1 72-86 Phenotype denotes gastric cancer HP:0012126
T2 209-223 Phenotype denotes gastric cancer HP:0012126
T3 225-227 Phenotype denotes GC HP:0012126
T4 282-284 Phenotype denotes GC HP:0012126
T5 458-460 Phenotype denotes GC HP:0012126
T6 590-592 Phenotype denotes GC HP:0012126
T7 1107-1121 Phenotype denotes Gastric Cancer HP:0012126
T8 1280-1282 Phenotype denotes GC HP:0012126
T9 1469-1471 Phenotype denotes GC HP:0012126
T10 1766-1768 Phenotype denotes GC HP:0012126

Glycan-GlyCosmos

Id Subject Object Predicate Lexical cue image
T1 1023-1039 Glycan denotes lactosylceramide https://api.glycosmos.org/wurcs2image/latest/png/binary/G84224TW

GlyCosmos15-HP

Id Subject Object Predicate Lexical cue hp_id
T1 72-86 Phenotype denotes gastric cancer HP:0012126
T2 209-223 Phenotype denotes gastric cancer HP:0012126
T3 225-227 Phenotype denotes GC HP:0012126
T4 282-284 Phenotype denotes GC HP:0012126
T5 458-460 Phenotype denotes GC HP:0012126
T6 590-592 Phenotype denotes GC HP:0012126
T7 1107-1121 Phenotype denotes Gastric Cancer HP:0012126
T8 1280-1282 Phenotype denotes GC HP:0012126
T9 1469-1471 Phenotype denotes GC HP:0012126
T10 1766-1768 Phenotype denotes GC HP:0012126

GlyCosmos15-NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 638-643 OrganismTaxon denotes Human 9606

GlyCosmos15-CL

Id Subject Object Predicate Lexical cue cl_id
T1 80-92 Cell denotes cancer cells http://purl.obolibrary.org/obo/CL:0001064

sentences

Id Subject Object Predicate Lexical cue
TextSentencer_T1 0-93 Sentence denotes MeCP2 regulated glycogenes contribute to proliferation and apoptosis of gastric cancer cells.
TextSentencer_T2 94-306 Sentence denotes Aberrant glycogene and glycan expression is intimately associated with carcinogenesis, invasion, and metastasis of gastric cancer (GC); however the regulatory mechanisms for glycogenes in GC cells remain unclear.
TextSentencer_T3 307-512 Sentence denotes Methyl-CpG-binding protein 2 (MeCP2) regulates genes by binding to methylated promoters, and in our previous work we found that it is overexpressed in GC cell lines and tissues, functioning as an oncogene.
TextSentencer_T4 513-713 Sentence denotes In this study we detected the expression of 212 glycogenes in MeCP2 silenced GC cells versus control using the Agilent Whole Human Genome Microarray and mining the data through bioinformatic analysis.
TextSentencer_T5 714-1082 Sentence denotes A total of 10 glycogenes exhibited increased expression (FC ≥ 2, P < 0.05), while 16 showed decreased expression (FC ≤ 2, P < 0.05) in the MeCP2 silenced cells, which corresponded to down-regulation of Lewis antigens (UEA-I), T/Tn antigens (PNA), and mature N-glycans (PHA-E and PHA-E+L) and up-regulation of lactosylceramide, a precursor oligosaccharide of N-glycans.
TextSentencer_T6 1083-1331 Sentence denotes Examination of the TCGA Gastric Cancer databases demonstrated that nine glycogenes (24.6%) were oppositely regulated by MeCP2 in MeCP2 knockdown BGC-823 cells relative to their expression level in GC tissues, and might be downstream genes of MeCP2.
TextSentencer_T7 1332-1478 Sentence denotes Individual gene analysis suggested that neutral alpha-glucosidase AB (GANAB) knockdown can rescue the effects of MeCP2 overexpression on GC cells.
TextSentencer_T8 1479-1596 Sentence denotes MeCP2 promotes GANAB by binding to the second methylated CpG island (206 bp, -12916 to -13122) of the GANAB promoter.
TextSentencer_T9 1597-1775 Sentence denotes In conclusion, glycogenes can be either up- or down-regulated by MeCP2 directly or indirectly to alter the glycopatterning and affect the proliferation and apoptosis of GC cells.
T1 0-93 Sentence denotes MeCP2 regulated glycogenes contribute to proliferation and apoptosis of gastric cancer cells.
T2 94-306 Sentence denotes Aberrant glycogene and glycan expression is intimately associated with carcinogenesis, invasion, and metastasis of gastric cancer (GC); however the regulatory mechanisms for glycogenes in GC cells remain unclear.
T3 307-512 Sentence denotes Methyl-CpG-binding protein 2 (MeCP2) regulates genes by binding to methylated promoters, and in our previous work we found that it is overexpressed in GC cell lines and tissues, functioning as an oncogene.
T4 513-713 Sentence denotes In this study we detected the expression of 212 glycogenes in MeCP2 silenced GC cells versus control using the Agilent Whole Human Genome Microarray and mining the data through bioinformatic analysis.
T5 714-1082 Sentence denotes A total of 10 glycogenes exhibited increased expression (FC ≥ 2, P < 0.05), while 16 showed decreased expression (FC ≤ 2, P < 0.05) in the MeCP2 silenced cells, which corresponded to down-regulation of Lewis antigens (UEA-I), T/Tn antigens (PNA), and mature N-glycans (PHA-E and PHA-E+L) and up-regulation of lactosylceramide, a precursor oligosaccharide of N-glycans.
T6 1083-1331 Sentence denotes Examination of the TCGA Gastric Cancer databases demonstrated that nine glycogenes (24.6%) were oppositely regulated by MeCP2 in MeCP2 knockdown BGC-823 cells relative to their expression level in GC tissues, and might be downstream genes of MeCP2.
T7 1332-1478 Sentence denotes Individual gene analysis suggested that neutral alpha-glucosidase AB (GANAB) knockdown can rescue the effects of MeCP2 overexpression on GC cells.
T8 1479-1596 Sentence denotes MeCP2 promotes GANAB by binding to the second methylated CpG island (206 bp, -12916 to -13122) of the GANAB promoter.
T9 1597-1775 Sentence denotes In conclusion, glycogenes can be either up- or down-regulated by MeCP2 directly or indirectly to alter the glycopatterning and affect the proliferation and apoptosis of GC cells.

GlyCosmos15-Sentences

Id Subject Object Predicate Lexical cue
T1 0-93 Sentence denotes MeCP2 regulated glycogenes contribute to proliferation and apoptosis of gastric cancer cells.
T2 94-306 Sentence denotes Aberrant glycogene and glycan expression is intimately associated with carcinogenesis, invasion, and metastasis of gastric cancer (GC); however the regulatory mechanisms for glycogenes in GC cells remain unclear.
T3 307-512 Sentence denotes Methyl-CpG-binding protein 2 (MeCP2) regulates genes by binding to methylated promoters, and in our previous work we found that it is overexpressed in GC cell lines and tissues, functioning as an oncogene.
T4 513-713 Sentence denotes In this study we detected the expression of 212 glycogenes in MeCP2 silenced GC cells versus control using the Agilent Whole Human Genome Microarray and mining the data through bioinformatic analysis.
T5 714-1082 Sentence denotes A total of 10 glycogenes exhibited increased expression (FC ≥ 2, P < 0.05), while 16 showed decreased expression (FC ≤ 2, P < 0.05) in the MeCP2 silenced cells, which corresponded to down-regulation of Lewis antigens (UEA-I), T/Tn antigens (PNA), and mature N-glycans (PHA-E and PHA-E+L) and up-regulation of lactosylceramide, a precursor oligosaccharide of N-glycans.
T6 1083-1331 Sentence denotes Examination of the TCGA Gastric Cancer databases demonstrated that nine glycogenes (24.6%) were oppositely regulated by MeCP2 in MeCP2 knockdown BGC-823 cells relative to their expression level in GC tissues, and might be downstream genes of MeCP2.
T7 1332-1478 Sentence denotes Individual gene analysis suggested that neutral alpha-glucosidase AB (GANAB) knockdown can rescue the effects of MeCP2 overexpression on GC cells.
T8 1479-1596 Sentence denotes MeCP2 promotes GANAB by binding to the second methylated CpG island (206 bp, -12916 to -13122) of the GANAB promoter.
T9 1597-1775 Sentence denotes In conclusion, glycogenes can be either up- or down-regulated by MeCP2 directly or indirectly to alter the glycopatterning and affect the proliferation and apoptosis of GC cells.

GlyCosmos15-GlycoEpitope

Id Subject Object Predicate Lexical cue glycoepitope_id
T1 1023-1039 http://purl.jp/bio/12/glyco/glycan#Glycan_epitope denotes lactosylceramide http://www.glycoepitope.jp/epitopes/EP0078

GlyCosmos15-Lectin-Jamboree

Id Subject Object Predicate Lexical cue glycosmos_id
T1 955-958 Lectin denotes PNA GL_003655
T2 983-988 Lectin denotes PHA-E GL_002666
T3 993-998 Lectin denotes PHA-E GL_002666

GlyCosmos15-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T1 72-86 Disease denotes gastric cancer MONDO:0001056|MONDO:0004950
T3 209-223 Disease denotes gastric cancer MONDO:0001056|MONDO:0004950
T5 225-227 Disease denotes GC MONDO:0001056
T6 282-284 Disease denotes GC MONDO:0001056
T7 458-460 Disease denotes GC MONDO:0001056
T8 590-592 Disease denotes GC MONDO:0001056
T9 1107-1121 Disease denotes Gastric Cancer MONDO:0001056|MONDO:0004950
T11 1280-1282 Disease denotes GC MONDO:0001056
T12 1469-1471 Disease denotes GC MONDO:0001056
T13 1766-1768 Disease denotes GC MONDO:0001056

GlyCosmos15-FMA

Id Subject Object Predicate Lexical cue db_id
T1 476-483 Body_part denotes tissues FMA:9637
T2 644-650 Body_part denotes Genome FMA:84116
T3 1283-1290 Body_part denotes tissues FMA:9637

GlyCosmos15-Glycan

Id Subject Object Predicate Lexical cue image
T1 1023-1039 Glycan denotes lactosylceramide https://api.glycosmos.org/wurcs2image/latest/png/binary/G84224TW

NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 638-643 OrganismTaxon denotes Human 9606

GlyCosmos-GlycoEpitope

Id Subject Object Predicate Lexical cue glycoepitope_id
T1 1023-1039 http://purl.jp/bio/12/glyco/glycan#Glycan_epitope denotes lactosylceramide http://www.glycoepitope.jp/epitopes/EP0078