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PubMed:20935156 JSONTXT

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sentences

Id Subject Object Predicate Lexical cue
TextSentencer_T1 0-144 Sentence denotes Differential gene expression in benign prostate epithelium of men with and without prostate cancer: evidence for a prostate cancer field effect.
TextSentencer_T2 145-156 Sentence denotes BACKGROUND:
TextSentencer_T3 157-328 Sentence denotes Several malignancies are known to exhibit a "field effect," whereby regions beyond tumor boundaries harbor histologic or molecular changes that are associated with cancer.
TextSentencer_T4 329-499 Sentence denotes We sought to determine if histologically benign prostate epithelium collected from men with prostate cancer exhibits features indicative of premalignancy or field effect.
TextSentencer_T5 500-520 Sentence denotes EXPERIMENTAL DESIGN:
TextSentencer_T6 521-700 Sentence denotes Prostate needle biopsies from 15 men with high-grade (Gleason 8-10) prostate cancer and 15 age- and body mass index-matched controls were identified from a biospecimen repository.
TextSentencer_T7 701-783 Sentence denotes Benign epithelia from each patient were isolated by laser capture microdissection.
TextSentencer_T8 784-851 Sentence denotes RNA was isolated, amplified, and used for microarray hybridization.
TextSentencer_T9 852-936 Sentence denotes Quantitative PCR was used to determine the expression of specific genes of interest.
TextSentencer_T10 937-1014 Sentence denotes Alterations in protein expression were analyzed through immunohistochemistry.
TextSentencer_T11 1015-1023 Sentence denotes RESULTS:
TextSentencer_T12 1024-1190 Sentence denotes Overall patterns of gene expression in microdissected benign prostate-associated benign epithelium (BABE) and cancer-associated benign epithelium (CABE) were similar.
TextSentencer_T13 1191-1337 Sentence denotes Two genes previously associated with prostate cancer, PSMA and SSTR1, were significantly upregulated in the CABE group (false discovery rate <1%).
TextSentencer_T14 1338-1611 Sentence denotes Expression of other prostate cancer-associated genes, including ERG, HOXC4, HOXC5, and MME, were also increased in CABE by quantitative reverse transcription-PCR, although other genes commonly altered in prostate cancer were not different between the BABE and CABE samples.
TextSentencer_T15 1612-1714 Sentence denotes The expression of MME and PSMA proteins on immunohistochemistry coincided with their mRNA alterations.
TextSentencer_T16 1715-1726 Sentence denotes CONCLUSION:
TextSentencer_T17 1727-1839 Sentence denotes Gene expression profiles between benign epithelia of patients with and without prostate cancer are very similar.
TextSentencer_T18 1840-1995 Sentence denotes However, these tissues exhibit differences in the expression levels of several genes previously associated with prostate cancer development or progression.
TextSentencer_T19 1996-2087 Sentence denotes These differences may comprise a field effect and represent early events in carcinogenesis.
T1 0-144 Sentence denotes Differential gene expression in benign prostate epithelium of men with and without prostate cancer: evidence for a prostate cancer field effect.
T2 145-156 Sentence denotes BACKGROUND:
T3 157-328 Sentence denotes Several malignancies are known to exhibit a "field effect," whereby regions beyond tumor boundaries harbor histologic or molecular changes that are associated with cancer.
T4 329-499 Sentence denotes We sought to determine if histologically benign prostate epithelium collected from men with prostate cancer exhibits features indicative of premalignancy or field effect.
T5 500-520 Sentence denotes EXPERIMENTAL DESIGN:
T6 521-700 Sentence denotes Prostate needle biopsies from 15 men with high-grade (Gleason 8-10) prostate cancer and 15 age- and body mass index-matched controls were identified from a biospecimen repository.
T7 701-783 Sentence denotes Benign epithelia from each patient were isolated by laser capture microdissection.
T8 784-851 Sentence denotes RNA was isolated, amplified, and used for microarray hybridization.
T9 852-936 Sentence denotes Quantitative PCR was used to determine the expression of specific genes of interest.
T10 937-1014 Sentence denotes Alterations in protein expression were analyzed through immunohistochemistry.
T11 1015-1023 Sentence denotes RESULTS:
T12 1024-1190 Sentence denotes Overall patterns of gene expression in microdissected benign prostate-associated benign epithelium (BABE) and cancer-associated benign epithelium (CABE) were similar.
T13 1191-1337 Sentence denotes Two genes previously associated with prostate cancer, PSMA and SSTR1, were significantly upregulated in the CABE group (false discovery rate <1%).
T14 1338-1611 Sentence denotes Expression of other prostate cancer-associated genes, including ERG, HOXC4, HOXC5, and MME, were also increased in CABE by quantitative reverse transcription-PCR, although other genes commonly altered in prostate cancer were not different between the BABE and CABE samples.
T15 1612-1714 Sentence denotes The expression of MME and PSMA proteins on immunohistochemistry coincided with their mRNA alterations.
T16 1715-1726 Sentence denotes CONCLUSION:
T17 1727-1839 Sentence denotes Gene expression profiles between benign epithelia of patients with and without prostate cancer are very similar.
T18 1840-1995 Sentence denotes However, these tissues exhibit differences in the expression levels of several genes previously associated with prostate cancer development or progression.
T19 1996-2087 Sentence denotes These differences may comprise a field effect and represent early events in carcinogenesis.

Allie

Id Subject Object Predicate Lexical cue
SS1_20935156_11_0 1078-1122 expanded denotes benign prostate-associated benign epithelium
SS2_20935156_11_0 1124-1128 abbr denotes BABE
SS1_20935156_11_1 1134-1169 expanded denotes cancer-associated benign epithelium
SS2_20935156_11_1 1171-1175 abbr denotes CABE
AE1_20935156_11_0 SS1_20935156_11_0 SS2_20935156_11_0 abbreviatedTo benign prostate-associated benign epithelium,BABE
AE1_20935156_11_1 SS1_20935156_11_1 SS2_20935156_11_1 abbreviatedTo cancer-associated benign epithelium,CABE

PubmedHPO

Id Subject Object Predicate Lexical cue
T1 240-245 HP_0002664 denotes tumor
T2 321-327 HP_0002664 denotes cancer
T3 421-436 HP_0012125 denotes prostate cancer
T4 430-436 HP_0002664 denotes cancer

DisGeNET5_gene_disease

Id Subject Object Predicate Lexical cue
20935156-10#87#90#gene4311 1425-1428 gene4311 denotes MME
20935156-10#204#219#diseaseC0376358 1542-1557 diseaseC0376358 denotes prostate cancer
20935156-10#204#219#diseaseC0600139 1542-1557 diseaseC0600139 denotes prostate cancer
87#90#gene4311204#219#diseaseC0376358 20935156-10#87#90#gene4311 20935156-10#204#219#diseaseC0376358 associated_with MME,prostate cancer
87#90#gene4311204#219#diseaseC0600139 20935156-10#87#90#gene4311 20935156-10#204#219#diseaseC0600139 associated_with MME,prostate cancer

DisGeNet-2017-sample

Id Subject Object Predicate Lexical cue
T812 1425-1428 gene:4311 denotes MME
T813 1542-1557 disease:C0376358 denotes prostate cancer
R1 T812 T813 associated_with MME,prostate cancer
R2 T812 T813 associated_with MME,prostate cancer

UBERON-AE

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 39-58 http://purl.obolibrary.org/obo/UBERON_0000428 denotes prostate epithelium
PD-UBERON-AE-B_T2 377-396 http://purl.obolibrary.org/obo/UBERON_0000428 denotes prostate epithelium
PD-UBERON-AE-B_T3 48-58 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
PD-UBERON-AE-B_T4 386-396 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
PD-UBERON-AE-B_T5 1112-1122 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
PD-UBERON-AE-B_T6 1159-1169 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
PD-UBERON-AE-B_T7 1855-1862 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissues

performance-test

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 1855-1862 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissues
PD-UBERON-AE-B_T2 48-58 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
PD-UBERON-AE-B_T3 386-396 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
PD-UBERON-AE-B_T4 1112-1122 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
PD-UBERON-AE-B_T5 1159-1169 http://purl.obolibrary.org/obo/UBERON_0000483 denotes epithelium
PD-UBERON-AE-B_T6 39-58 http://purl.obolibrary.org/obo/UBERON_0000428 denotes prostate epithelium
PD-UBERON-AE-B_T7 377-396 http://purl.obolibrary.org/obo/UBERON_0000428 denotes prostate epithelium