;PMID: 8633516 ;source_file_1410.mrg ;Release 0.9 of PennBioIE ;Funded by NSF ITR EIA-0205448 ;0)section:[e:0..41] = [t:0..41] ;1)sentence:[e:46..155] = [t:46..155] ;2)section:[e:159..242] = [t:159..242] ;3)section:[e:246..329] = [t:246..329] ;4)sentence:[e:333..485] = [t:333..485] ;5)sentence:[e:487..621] = [t:487..621] ;6)sentence:[e:622..726] = [t:622..726] ;7)sentence:[e:727..976] = [t:727..976] ;8)sentence:[e:977..1087] = [t:977..1087] ;9)sentence:[e:1088..1207] = [t:1088..1207] ;10)sentence:[e:1208..1321] = [t:1208..1321] ;11)section:[e:1325..1343] = [t:1325..1343] ;12)section:[e:1345..1351] = [t:1345..1351] ;13)section:[e:1353..1377] = [t:1353..1377] ;14)section:[e:1381..1425] = [t:1381..1425] ;section 0 Span:0..41 ;Am J Gastroenterol 1996 Mar;91(3):587-91 (SEC (FRAG (NNP:[0..2] Am) (NNP:[3..4] J) (NNP:[5..18] Gastroenterol) (CD:[20..24] 1996) (CD:[25..32] Mar;91-LRB-) (CD:[32..33] 3) (-RRB-:[33..34] -RRB-) (CD:[34..38] :587) (HYPH:[38..39] -) (CD:[39..41] 91))) ;sentence 1 Span:46..155 ;K-ras mutation in a tubular adenoma originating at an ileostomy in a familial ; adenomatous polyposis patient. ;[46..51]:gene-rna:"K-ras" ;[66..81]:malignancy:"tubular adenoma" ;[115..146]:malignancy:"familial adenomatous polyposis" (SENT (NP-HLN (NP (NN:[46..51] K-ras) (NN:[52..60] mutation)) (PP-LOC (IN:[61..63] in) (NP (NP (DT:[64..65] a) (JJ:[66..73] tubular) (NN:[74..81] adenoma)) (VP (VBG:[82..93] originating) (PP-LOC (IN:[94..96] at) (NP (NP (DT:[97..99] an) (NN:[100..109] ileostomy)) (PP-LOC (IN:[110..112] in) (NP (DT:[113..114] a) (JJ:[115..123] familial) (NML (JJ:[125..136] adenomatous) (NN:[137..146] polyposis)) (NN:[147..154] patient)))))))) (.:[154..155] .))) ;section 2 Span:159..242 ;Herring JA, Hall CC, Johnson JA, Poole GV, Subramony C, Suvarna-Gurram V, ;Hall TJ. (SEC (FRAG (NNP:[159..166] Herring) (NNP:[167..169] JA) (,:[169..170] ,) (NNP:[171..175] Hall) (NNP:[176..178] CC) (,:[178..179] ,) (NNP:[180..187] Johnson) (NNP:[188..190] JA) (,:[190..191] ,) (NNP:[192..197] Poole) (NNP:[198..200] GV) (,:[200..201] ,) (NNP:[202..211] Subramony) (NNP:[212..213] C) (,:[213..214] ,) (NNP:[215..222] Suvarna) (HYPH:[222..223] -) (NNP:[223..229] Gurram) (NNP:[230..231] V) (,:[231..232] ,) (NNP:[233..237] Hall) (NNP:[239..242] TJ.))) ;section 3 Span:246..329 ;Department of Biochemistry, University of Mississippi Medical Center, Jackson ; USA. (SEC (FRAG (NNP:[246..256] Department) (IN:[257..259] of) (NNP:[260..272] Biochemistry) (,:[272..273] ,) (NNP:[274..284] University) (IN:[285..287] of) (NNP:[288..299] Mississippi) (NNP:[300..307] Medical) (NNP:[308..314] Center) (,:[314..315] ,) (NNP:[316..323] Jackson) (NNP:[325..328] USA) (.:[328..329] .))) ;sentence 4 Span:333..485 ;Genetic alterations in a tubular adenoma with severe dysplasia arising in a ;Brooke ileostomy of a familial adenomatous polyposis patient were analyzed. ;[358..373]:malignancy:"tubular adenoma" ;[386..395]:malignancy:"dysplasia" ;[432..462]:malignancy:"familial adenomatous polyposis" (SENT (S (NP-SBJ-1 (NP (JJ:[333..340] Genetic) (NNS:[341..352] alterations)) (PP-LOC (IN:[353..355] in) (NP (NP (NP (DT:[356..357] a) (JJ:[358..365] tubular) (NN:[366..373] adenoma)) (PP (IN:[374..378] with) (NP (JJ:[379..385] severe) (NN:[386..395] dysplasia)))) (VP (VBG:[396..403] arising) (PP-LOC (IN:[404..406] in) (NP (NP (DT:[407..408] a) (NNP:[410..416] Brooke) (NN:[417..426] ileostomy)) (PP (IN:[427..429] of) (NP (DT:[430..431] a) (JJ:[432..440] familial) (NML (JJ:[441..452] adenomatous) (NN:[453..462] polyposis)) (NN:[463..470] patient))))))))) (VP (VBD:[471..475] were) (VP (VBN:[476..484] analyzed) (NP-1 (-NONE-:[484..484] *)))) (.:[484..485] .))) ;sentence 5 Span:487..621 ;Clinical and morphological characteristics suggest that ileal mucosa ;progressed to colonic metaplasia and then to dysplastic adenoma. ;[571..589]:malignancy:"colonic metaplasia" ;[602..620]:malignancy:"dysplastic adenoma" (SENT (S (NP-SBJ (NP (JJ:[487..495] Clinical) (NML-1 (-NONE-:[495..495] *P*))) (CC:[496..499] and) (NP (JJ:[500..513] morphological) (NML-1 (NNS:[514..529] characteristics)))) (VP (VBP:[530..537] suggest) (SBAR (IN:[538..542] that) (S (NP-SBJ (JJ:[543..548] ileal) (NN:[549..555] mucosa)) (VP (VBD:[556..566] progressed) (PP (PP (TO:[568..570] to) (NP (JJ:[571..578] colonic) (NN:[579..589] metaplasia))) (CONJP (CC:[590..593] and) (RB:[594..598] then)) (PP (TO:[599..601] to) (NP (JJ:[602..612] dysplastic) (NN:[613..620] adenoma)))))))) (.:[620..621] .))) ;sentence 6 Span:622..726 ;Such changes at ileostomy sites are rare, and little is known about the ;associated genetic alterations. (SENT (S (S (NP-SBJ (NP (JJ:[622..626] Such) (NNS:[627..634] changes)) (PP-LOC (IN:[635..637] at) (NP (NN:[638..647] ileostomy) (NNS:[649..654] sites)))) (VP (VBP:[655..658] are) (ADJP-PRD (JJ:[659..663] rare)))) (,:[663..664] ,) (CC:[665..668] and) (S (NP-SBJ-1 (JJ:[669..675] little)) (VP (VBZ:[676..678] is) (VP (VBN:[679..684] known) (NP-1 (-NONE-:[684..684] *)) (PP (IN:[685..690] about) (NP (DT:[691..694] the) (VBN:[695..705] associated) (JJ:[706..713] genetic) (NNS:[714..725] alterations)))))) (.:[725..726] .))) ;sentence 7 Span:727..976 ;To determine whether metaplastic epithelium progression to adenoma in the ;ileum is subject to the same mutations identified in colon carcinogenesis, ;we evaluated somatic genetic alterations associated with sporadic colorectal ;cancer development. ;[787..807]:malignancy:"adenoma in the ileum" ;[832..841]:variation-event:"mutations" ;[936..962]:malignancy:"sporadic colorectal cancer" (SENT (S (S-PRP (NP-SBJ (-NONE-:[727..727] *)) (VP (TO:[727..729] To) (VP (VB:[731..740] determine) (SBAR (IN:[741..748] whether) (S (NP-SBJ (NP (JJ:[749..760] metaplastic) (NN:[761..771] epithelium) (NN:[772..783] progression)) (PP (TO:[784..786] to) (NP (NN:[787..794] adenoma))) (PP-LOC (IN:[795..797] in) (NP (DT:[798..801] the) (NN:[802..807] ileum)))) (VP (VBZ:[808..810] is) (ADJP-PRD (JJ:[812..819] subject) (PP (TO:[820..822] to) (NP (NP (DT:[823..826] the) (JJ:[827..831] same) (NNS:[832..841] mutations)) (VP (VBN:[842..852] identified) (NP (-NONE-:[852..852] *)) (PP (IN:[853..855] in) (NP (NN:[856..861] colon) (NN:[862..876] carcinogenesis))))))))))))) (,:[876..877] ,) (NP-SBJ (PRP:[878..880] we)) (VP (VBD:[881..890] evaluated) (NP (NP (JJ:[892..899] somatic) (JJ:[900..907] genetic) (NNS:[908..919] alterations)) (VP (VBN:[920..930] associated) (NP (-NONE-:[930..930] *)) (PP-CLR (IN:[931..935] with) (NP (JJ:[936..944] sporadic) (JJ:[945..955] colorectal) (NN:[956..962] cancer) (NN:[964..975] development)))))) (.:[975..976] .))) ;sentence 8 Span:977..1087 ;Sequences examined included mutation cluster regions of the p53 tumor ;suppressor gene and the k-ras oncogene. ;[1037..1040]:gene-rna:"p53" ;[1072..1077]:gene-rna:"k-ras" (SENT (S (NP-SBJ (NP (NNS:[977..986] Sequences)) (VP (VBN:[987..995] examined) (NP (-NONE-:[995..995] *)))) (VP (VBD:[996..1004] included) (NP (NP (NN:[1005..1013] mutation) (NN:[1014..1021] cluster) (NNS:[1022..1029] regions)) (PP (IN:[1030..1032] of) (NP (NP (DT:[1033..1036] the) (NN:[1037..1040] p53) (NML (NN:[1042..1047] tumor) (NN:[1048..1058] suppressor)) (NN:[1059..1063] gene)) (CC:[1064..1067] and) (NP (DT:[1068..1071] the) (NN:[1072..1077] k-ras) (NN:[1078..1086] oncogene)))))) (.:[1086..1087] .))) ;sentence 9 Span:1088..1207 ;Using polymerase chain reaction and DNA sequencing, we identified a point ;mutation at codon 12 of the K-ras oncogene. ;[1094..1104]:gene-protein:"polymerase" ;[1157..1171]:variation-type:"point mutation" ;[1175..1183]:variation-location:"codon 12" ;[1191..1196]:gene-rna:"K-ras" (SENT (S (S-MNR (NP-SBJ (-NONE-:[1088..1088] *)) (VP (VBG:[1088..1093] Using) (NP (NP (NN:[1094..1104] polymerase) (NN:[1105..1110] chain) (NN:[1111..1119] reaction)) (CC:[1121..1124] and) (NP (NN:[1125..1128] DNA) (NN:[1129..1139] sequencing))))) (,:[1139..1140] ,) (NP-SBJ (PRP:[1141..1143] we)) (VP (VBD:[1144..1154] identified) (NP (DT:[1155..1156] a) (NN:[1157..1162] point) (NN:[1163..1171] mutation)) (PP-LOC (IN:[1172..1174] at) (NP (NP (NN:[1175..1180] codon) (CD:[1181..1183] 12)) (PP (IN:[1184..1186] of) (NP (DT:[1187..1190] the) (NN:[1191..1196] K-ras) (NN:[1198..1206] oncogene)))))) (.:[1206..1207] .))) ;sentence 10 Span:1208..1321 ;To our knowledge, this is the first report of a ras mutation occurring in a ;tumor originating from ileal mucosa. ;[1256..1259]:gene-rna:"ras" ;[1285..1290]:malignancy:"tumor" (SENT (S (PP (TO:[1208..1210] To) (NP (PRP$:[1211..1214] our) (NN:[1215..1224] knowledge))) (,:[1224..1225] ,) (NP-SBJ (DT:[1226..1230] this)) (VP (VBZ:[1231..1233] is) (NP-PRD (NP (DT:[1234..1237] the) (JJ:[1238..1243] first) (NN:[1244..1250] report)) (PP (IN:[1251..1253] of) (S-NOM (NP-SBJ (DT:[1254..1255] a) (NN:[1256..1259] ras) (NN:[1260..1268] mutation)) (VP (VBG:[1269..1278] occurring) (PP-LOC (IN:[1280..1282] in) (NP (NP (DT:[1283..1284] a) (NN:[1285..1290] tumor)) (VP (VBG:[1291..1302] originating) (PP (IN:[1303..1307] from) (NP (JJ:[1308..1313] ileal) (NN:[1314..1320] mucosa))))))))))) (.:[1320..1321] .))) ;section 11 Span:1325..1343 ;Publication Types: (SEC (FRAG (NNP:[1325..1336] Publication) (NNP:[1337..1342] Types) (NNP:[1342..1343] :))) ;section 12 Span:1345..1351 ;Review (SEC (FRAG (NNP:[1345..1351] Review))) ;section 13 Span:1353..1377 ;Review of Reported Cases (SEC (FRAG (NNP:[1353..1359] Review) (IN:[1360..1362] of) (NNP:[1363..1371] Reported) (NNP:[1372..1377] Cases))) ;section 14 Span:1381..1425 ;PMID: 8633516 [PubMed - indexed for MEDLINE] (SEC (FRAG (NNP:[1381..1385] PMID) (::[1385..1386] :) (CD:[1387..1394] 8633516) (IN:[1395..1396] -LSB-) (NNP:[1396..1402] PubMed) (HYPH:[1403..1404] -) (JJ:[1405..1412] indexed) (IN:[1413..1416] for) (NNP:[1417..1425] MEDLINE-RSB-)))