> top > docs > PubMed:21871071 > annotations

PubMed:21871071 JSONTXT

Annnotations TAB JSON ListView MergeView

sentences

Id Subject Object Predicate Lexical cue
TextSentencer_T1 0-109 Sentence denotes EFS shows biallelic methylation in uveal melanoma with poor prognosis as well as tissue-specific methylation.
TextSentencer_T2 110-121 Sentence denotes BACKGROUND:
TextSentencer_T3 122-162 Sentence denotes Uveal melanoma (UM) is a rare eye tumor.
TextSentencer_T4 163-280 Sentence denotes There are two classes of UM, which can be discriminated by the chromosome 3 status or global mRNA expression profile.
TextSentencer_T5 281-420 Sentence denotes Metastatic progression is predominantly originated from class II tumors or from tumors showing loss of an entire chromosome 3 (monosomy 3).
TextSentencer_T6 421-694 Sentence denotes We performed detailed EFS (embryonal Fyn-associated substrate) methylation analyses in UM, cultured uveal melanocytes and normal tissues, to explore the role of the differentially methylated EFS promoter region CpG island in tumor classification and metastatic progression.
TextSentencer_T7 695-857 Sentence denotes METHODS: EFS methylation was determined by direct sequencing of PCR products from bisulfite-treated DNA or by sequence analysis of individual cloned PCR products.
TextSentencer_T8 858-955 Sentence denotes The results were associated with clinical features of tumors and tumor-related death of patients.
TextSentencer_T9 956-964 Sentence denotes RESULTS:
TextSentencer_T10 965-1109 Sentence denotes Analysis of 16 UM showed full methylation of the EFS CpG island in 8 (50%), no methylation in 5 (31%) and partial methylation in 3 (19%) tumors.
TextSentencer_T11 1110-1224 Sentence denotes Kaplan-Meier analysis revealed a higher risk of metastatic progression for tumors with EFS methylation (p = 0.02).
TextSentencer_T12 1225-1307 Sentence denotes This correlation was confirmed in an independent set of 24 randomly chosen tumors.
TextSentencer_T13 1308-1370 Sentence denotes Notably, only UM with EFS methylation gave rise to metastases.
TextSentencer_T14 1371-1514 Sentence denotes Real-time quantitative RT-PCR expression analysis revealed a significant inverse correlation of EFS mRNA expression with EFS methylation in UM.
TextSentencer_T15 1515-1714 Sentence denotes We further found that EFS methylation is tissue-specific with full methylation in peripheral blood cells, and no methylation in sperm, cultured primary fibroblasts and fetal muscle, kidney and brain.
TextSentencer_T16 1715-1849 Sentence denotes Adult brain samples, cultured melanocytes from the uveal tract, fetal liver and 3 of 4 buccal swab samples showed partial methylation.
TextSentencer_T17 1850-1922 Sentence denotes EFS methylation always affects both alleles in normal and tumor samples.
TextSentencer_T18 1923-1935 Sentence denotes CONCLUSIONS:
TextSentencer_T19 1936-2030 Sentence denotes Biallelic EFS methylation is likely to be the result of a site-directed methylation mechanism.
TextSentencer_T20 2031-2202 Sentence denotes Based on partial methylation as observed in cultured melanocytes we hypothesize that there might be methylated and unmethylated precursor cells located in the uveal tract.
TextSentencer_T21 2203-2300 Sentence denotes The EFS methylation of a UM may depend on which type of precursor cell the tumor originated from.
T1 0-109 Sentence denotes EFS shows biallelic methylation in uveal melanoma with poor prognosis as well as tissue-specific methylation.
T2 110-121 Sentence denotes BACKGROUND:
T3 122-162 Sentence denotes Uveal melanoma (UM) is a rare eye tumor.
T4 163-280 Sentence denotes There are two classes of UM, which can be discriminated by the chromosome 3 status or global mRNA expression profile.
T5 281-420 Sentence denotes Metastatic progression is predominantly originated from class II tumors or from tumors showing loss of an entire chromosome 3 (monosomy 3).
T6 421-694 Sentence denotes We performed detailed EFS (embryonal Fyn-associated substrate) methylation analyses in UM, cultured uveal melanocytes and normal tissues, to explore the role of the differentially methylated EFS promoter region CpG island in tumor classification and metastatic progression.
T7 695-857 Sentence denotes METHODS: EFS methylation was determined by direct sequencing of PCR products from bisulfite-treated DNA or by sequence analysis of individual cloned PCR products.
T8 858-955 Sentence denotes The results were associated with clinical features of tumors and tumor-related death of patients.
T9 956-964 Sentence denotes RESULTS:
T10 965-1109 Sentence denotes Analysis of 16 UM showed full methylation of the EFS CpG island in 8 (50%), no methylation in 5 (31%) and partial methylation in 3 (19%) tumors.
T11 1110-1224 Sentence denotes Kaplan-Meier analysis revealed a higher risk of metastatic progression for tumors with EFS methylation (p = 0.02).
T12 1225-1307 Sentence denotes This correlation was confirmed in an independent set of 24 randomly chosen tumors.
T13 1308-1370 Sentence denotes Notably, only UM with EFS methylation gave rise to metastases.
T14 1371-1514 Sentence denotes Real-time quantitative RT-PCR expression analysis revealed a significant inverse correlation of EFS mRNA expression with EFS methylation in UM.
T15 1515-1714 Sentence denotes We further found that EFS methylation is tissue-specific with full methylation in peripheral blood cells, and no methylation in sperm, cultured primary fibroblasts and fetal muscle, kidney and brain.
T16 1715-1849 Sentence denotes Adult brain samples, cultured melanocytes from the uveal tract, fetal liver and 3 of 4 buccal swab samples showed partial methylation.
T17 1850-1922 Sentence denotes EFS methylation always affects both alleles in normal and tumor samples.
T18 1923-1935 Sentence denotes CONCLUSIONS:
T19 1936-2030 Sentence denotes Biallelic EFS methylation is likely to be the result of a site-directed methylation mechanism.
T20 2031-2202 Sentence denotes Based on partial methylation as observed in cultured melanocytes we hypothesize that there might be methylated and unmethylated precursor cells located in the uveal tract.
T21 2203-2300 Sentence denotes The EFS methylation of a UM may depend on which type of precursor cell the tumor originated from.

DisGeNET

Id Subject Object Predicate Lexical cue
T0 0-3 gene:10278 denotes EFS
T1 35-49 disease:C0220633 denotes uveal melanoma
T2 443-446 gene:10278 denotes EFS
T3 508-510 disease:C0220633 denotes UM
R1 T0 T1 associated_with EFS,uveal melanoma
R2 T2 T3 associated_with EFS,UM

PubmedHPO

Id Subject Object Predicate Lexical cue
T1 122-136 HP_0007716 denotes Uveal melanoma
T2 128-136 HP_0002861 denotes melanoma
T3 152-161 HP_0100012 denotes eye tumor
T4 156-161 HP_0002664 denotes tumor
T5 346-352 HP_0002664 denotes tumors
T6 361-367 HP_0002664 denotes tumors
T7 646-651 HP_0002664 denotes tumor

Allie

Id Subject Object Predicate Lexical cue
SS1_21871071_2_0 122-136 expanded denotes Uveal melanoma
SS2_21871071_2_0 138-140 abbr denotes UM
SS1_21871071_5_0 448-482 expanded denotes embryonal Fyn-associated substrate
SS2_21871071_5_0 443-446 abbr denotes EFS
AE1_21871071_2_0 SS1_21871071_2_0 SS2_21871071_2_0 abbreviatedTo Uveal melanoma,UM
AE1_21871071_5_0 SS1_21871071_5_0 SS2_21871071_5_0 abbreviatedTo embryonal Fyn-associated substrate,EFS

DisGeNET5_gene_disease

Id Subject Object Predicate Lexical cue
21871071-0#0#3#gene10278 0-3 gene10278 denotes EFS
21871071-0#35#49#diseaseC0220633 35-49 diseaseC0220633 denotes uveal melanoma
21871071-10#22#25#gene10278 1330-1333 gene10278 denotes EFS
21871071-10#51#61#diseaseC0027627 1359-1369 diseaseC0027627 denotes metastases
0#3#gene1027835#49#diseaseC0220633 21871071-0#0#3#gene10278 21871071-0#35#49#diseaseC0220633 associated_with EFS,uveal melanoma
22#25#gene1027851#61#diseaseC0027627 21871071-10#22#25#gene10278 21871071-10#51#61#diseaseC0027627 associated_with EFS,metastases

DisGeNet-2017-sample

Id Subject Object Predicate Lexical cue
T772 1330-1333 gene:10278 denotes EFS
T773 1359-1369 disease:C0027627 denotes metastases
R1 T772 T773 associated_with EFS,metastases

UBERON-AE

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 81-87 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T2 1556-1562 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T3 152-155 http://purl.obolibrary.org/obo/UBERON_0000970 denotes eye
PD-UBERON-AE-B_T4 1608-1613 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
PD-UBERON-AE-B_T5 1697-1703 http://purl.obolibrary.org/obo/UBERON_0002113 denotes kidney
PD-UBERON-AE-B_T6 1708-1713 http://purl.obolibrary.org/obo/UBERON_0000955 denotes brain
PD-UBERON-AE-B_T7 1721-1726 http://purl.obolibrary.org/obo/UBERON_0000955 denotes brain
PD-UBERON-AE-B_T8 1785-1790 http://purl.obolibrary.org/obo/UBERON_0002107 denotes liver

performance-test

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 1608-1613 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
PD-UBERON-AE-B_T2 81-87 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T3 550-557 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissues
PD-UBERON-AE-B_T4 1556-1562 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T5 152-155 http://purl.obolibrary.org/obo/UBERON_0000970 denotes eye
PD-UBERON-AE-B_T6 1708-1713 http://purl.obolibrary.org/obo/UBERON_0000955 denotes brain
PD-UBERON-AE-B_T7 1721-1726 http://purl.obolibrary.org/obo/UBERON_0000955 denotes brain
PD-UBERON-AE-B_T8 1697-1703 http://purl.obolibrary.org/obo/UBERON_0002113 denotes kidney
PD-UBERON-AE-B_T9 1785-1790 http://purl.obolibrary.org/obo/UBERON_0002107 denotes liver