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PMC:1440874 / 16089-17737 JSONTXT

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Id Subject Object Predicate Lexical cue
T3052 0-2 PRP denotes It
T3053 12-17 VBN denotes shown
T3054 3-6 VBZ denotes has
T3055 7-11 VBN denotes been
T3056 18-22 IN denotes that
T3057 72-76 VBP denotes give
T3058 23-30 NN denotes disease
T3059 31-38 VBG denotes causing
T3060 30-31 HYPH denotes -
T3061 39-48 NNS denotes mutations
T3062 49-51 IN denotes in
T3063 52-55 DT denotes the
T3064 67-71 NN denotes gene
T3065 56-61 JJ denotes human
T3066 62-66 NN denotes ATRX
T3067 77-81 NN denotes rise
T3068 82-84 IN denotes to
T3069 85-92 NNS denotes changes
T3070 93-95 IN denotes in
T3071 96-99 DT denotes the
T3072 107-114 NN denotes pattern
T3073 100-106 JJ denotes normal
T3074 115-117 IN denotes of
T3075 118-121 NN denotes DNA
T3076 122-133 NN denotes methylation
T3077 134-136 IN denotes at
T3078 137-144 JJ denotes several
T3079 156-165 NNS denotes sequences
T3080 145-155 JJ denotes repetitive
T3081 166-172 IN denotes within
T3082 173-176 DT denotes the
T3083 183-189 NN denotes genome
T3084 177-182 JJ denotes human
T3085 190-191 -LRB- denotes [
T3086 191-193 CD denotes 11
T3087 193-194 -RRB- denotes ]
T3088 194-195 . denotes .
T3089 195-357 sentence denotes Notably, the transcribed region of the ribosomal DNA (rDNA) repeat was found to be significantly hypomethylated in ATR-X patients relative to normal individuals.
T3090 196-203 RB denotes Notably
T3091 267-272 VBN denotes found
T3092 203-205 , denotes ,
T3093 205-208 DT denotes the
T3094 221-227 NN denotes region
T3095 209-220 VBN denotes transcribed
T3096 228-230 IN denotes of
T3097 231-234 DT denotes the
T3098 256-262 NN denotes repeat
T3099 235-244 JJ denotes ribosomal
T3100 245-248 NN denotes DNA
T3101 249-250 -LRB- denotes (
T3102 250-254 NN denotes rDNA
T3103 254-255 -RRB- denotes )
T3104 263-266 VBD denotes was
T3105 273-275 TO denotes to
T3106 293-307 VBN denotes hypomethylated
T3107 276-278 VB denotes be
T3108 279-292 RB denotes significantly
T3109 308-310 IN denotes in
T3110 311-314 NN denotes ATR
T3111 315-316 NN denotes X
T3112 314-315 HYPH denotes -
T3113 317-325 NNS denotes patients
T3114 326-334 JJ denotes relative
T3115 335-337 IN denotes to
T3116 338-344 JJ denotes normal
T3117 345-356 NNS denotes individuals
T3118 356-357 . denotes .
T3119 357-668 sentence denotes Using methylation-sensitive restriction enzymes, we also observed significant hypomethylation at several sites tested within the mouse rDNA repeats in Atrxnull ES cells and 12-d embryoid bodies relative to ES cells and embryoid bodies bearing a functional Atrx allele (Atrx WT or Atrx flox) (Figure 3B and 3C).
T3120 358-363 VBG denotes Using
T3121 415-423 VBD denotes observed
T3122 364-375 NN denotes methylation
T3123 376-385 JJ denotes sensitive
T3124 375-376 HYPH denotes -
T3125 398-405 NNS denotes enzymes
T3126 386-397 NN denotes restriction
T3127 405-407 , denotes ,
T3128 407-409 PRP denotes we
T3129 410-414 RB denotes also
T3130 424-435 JJ denotes significant
T3131 436-451 NN denotes hypomethylation
T3132 452-454 IN denotes at
T3133 455-462 JJ denotes several
T3134 463-468 NNS denotes sites
T3135 469-475 VBN denotes tested
T3136 476-482 IN denotes within
T3137 483-486 DT denotes the
T3138 498-505 NNS denotes repeats
T3139 487-492 NN denotes mouse
T3140 493-497 NN denotes rDNA
T3141 506-508 IN denotes in
T3142 509-517 JJ denotes Atrxnull
T3143 521-526 NNS denotes cells
T3144 518-520 NN denotes ES
T3145 527-530 CC denotes and
T3146 531-533 CD denotes 12
T3147 534-535 NN denotes d
T3148 533-534 HYPH denotes -
T3149 545-551 NNS denotes bodies
T3150 536-544 JJ denotes embryoid
T3151 552-560 JJ denotes relative
T3152 561-563 IN denotes to
T3153 564-566 NN denotes ES
T3154 567-572 NNS denotes cells
T3155 573-576 CC denotes and
T3156 577-585 JJ denotes embryoid
T3157 586-592 NNS denotes bodies
T3158 593-600 VBG denotes bearing
T3159 601-602 DT denotes a
T3160 619-625 NN denotes allele
T3161 603-613 JJ denotes functional
T3162 614-618 NN denotes Atrx
T3163 626-627 -LRB- denotes (
T3164 627-634 NN denotes Atrx WT
T3165 635-637 CC denotes or
T3166 638-647 NN denotes Atrx flox
T3167 647-648 -RRB- denotes )
T3168 649-650 -LRB- denotes (
T3169 657-659 NN denotes 3B
T3170 650-656 NN denotes Figure
T3171 660-663 CC denotes and
T3172 664-666 NN denotes 3C
T3173 666-667 -RRB- denotes )
T3174 667-668 . denotes .
T3175 668-899 sentence denotes The observation that rDNA is hypomethylated in the absence of Atrx, even in ES cells, is consistent with the finding that hypomethylation of the human rDNA repeats is detectable from an early developmental stage in ATR-X patients.
T3176 669-672 DT denotes The
T3177 673-684 NN denotes observation
T3178 755-757 VBZ denotes is
T3179 685-689 IN denotes that
T3180 698-712 VBN denotes hypomethylated
T3181 690-694 NN denotes rDNA
T3182 695-697 VBZ denotes is
T3183 713-715 IN denotes in
T3184 716-719 DT denotes the
T3185 720-727 NN denotes absence
T3186 728-730 IN denotes of
T3187 731-735 NN denotes Atrx
T3188 735-737 , denotes ,
T3189 737-741 RB denotes even
T3190 742-744 IN denotes in
T3191 745-747 NN denotes ES
T3192 748-753 NNS denotes cells
T3193 753-755 , denotes ,
T3194 758-768 JJ denotes consistent
T3195 769-773 IN denotes with
T3196 774-777 DT denotes the
T3197 778-785 NN denotes finding
T3198 786-790 IN denotes that
T3199 833-835 VBZ denotes is
T3200 791-806 NN denotes hypomethylation
T3201 807-809 IN denotes of
T3202 810-813 DT denotes the
T3203 825-832 NNS denotes repeats
T3204 814-819 JJ denotes human
T3205 820-824 NN denotes rDNA
T3206 836-846 JJ denotes detectable
T3207 847-851 IN denotes from
T3208 852-854 DT denotes an
T3209 875-880 NN denotes stage
T3210 855-860 JJ denotes early
T3211 861-874 JJ denotes developmental
T3212 881-883 IN denotes in
T3213 884-887 NN denotes ATR
T3214 888-889 NN denotes X
T3215 887-888 HYPH denotes -
T3216 890-898 NNS denotes patients
T3217 898-899 . denotes .
T3218 899-1228 sentence denotes Other mouse repetitive sequence elements surveyed in ES cell DNA include the heterochromatic major satellite (assayed with MaeII) and minor satellite (assayed with HpaII) repeats, as well as interspersed retroviral repeats of the intracisternal A particle (IAP) type and the Line 1 and Sine B1 families (all assayed with HpaII).
T3219 900-905 JJ denotes Other
T3220 932-940 NNS denotes elements
T3221 906-911 NN denotes mouse
T3222 912-922 JJ denotes repetitive
T3223 923-931 NN denotes sequence
T3224 965-972 VBP denotes include
T3225 941-949 VBN denotes surveyed
T3226 950-952 IN denotes in
T3227 953-955 NN denotes ES
T3228 961-964 NN denotes DNA
T3229 956-960 NN denotes cell
T3230 973-976 DT denotes the
T3231 1071-1078 NNS denotes repeats
T3232 977-992 JJ denotes heterochromatic
T3233 999-1008 NN denotes satellite
T3234 993-998 JJ denotes major
T3235 1009-1010 -LRB- denotes (
T3236 1010-1017 VBN denotes assayed
T3237 1018-1022 IN denotes with
T3238 1023-1028 NN denotes MaeII
T3239 1028-1029 -RRB- denotes )
T3240 1030-1033 CC denotes and
T3241 1034-1039 JJ denotes minor
T3242 1040-1049 NN denotes satellite
T3243 1050-1051 -LRB- denotes (
T3244 1051-1058 VBN denotes assayed
T3245 1059-1063 IN denotes with
T3246 1064-1069 NN denotes HpaII
T3247 1069-1070 -RRB- denotes )
T3248 1078-1080 , denotes ,
T3249 1080-1082 RB denotes as
T3250 1088-1090 IN denotes as
T3251 1083-1087 RB denotes well
T3252 1091-1103 VBN denotes interspersed
T3253 1115-1122 NNS denotes repeats
T3254 1104-1114 JJ denotes retroviral
T3255 1123-1125 IN denotes of
T3256 1126-1129 DT denotes the
T3257 1162-1166 NN denotes type
T3258 1130-1144 JJ denotes intracisternal
T3259 1147-1155 NN denotes particle
T3260 1145-1146 NN denotes A
T3261 1156-1157 -LRB- denotes (
T3262 1157-1160 NN denotes IAP
T3263 1160-1161 -RRB- denotes )
T3264 1167-1170 CC denotes and
T3265 1171-1174 DT denotes the
T3266 1194-1202 NNS denotes families
T3267 1175-1179 NN denotes Line
T3268 1180-1181 CD denotes 1
T3269 1182-1185 CC denotes and
T3270 1186-1190 NN denotes Sine
T3271 1191-1193 NN denotes B1
T3272 1203-1204 -LRB- denotes (
T3273 1204-1207 DT denotes all
T3274 1208-1215 VBN denotes assayed
T3275 1216-1220 IN denotes with
T3276 1221-1226 NN denotes HpaII
T3277 1226-1227 -RRB- denotes )
T3278 1227-1228 . denotes .
T3279 1228-1482 sentence denotes These repeats were found to be moderately (Line 1 and Sine B1) or highly (IAP, major satellite, minor satellite) methylated in wild-type ES cells, and this methylation was not detectably perturbed by the absence of Atrx (Figure S3 and unpublished data).
T3280 1229-1234 DT denotes These
T3281 1235-1242 NNS denotes repeats
T3282 1248-1253 VBN denotes found
T3283 1243-1247 VBD denotes were
T3284 1254-1256 TO denotes to
T3285 1257-1259 VB denotes be
T3286 1260-1270 RB denotes moderately
T3287 1342-1352 JJ denotes methylated
T3288 1271-1272 -LRB- denotes (
T3289 1272-1276 NN denotes Line
T3290 1277-1278 CD denotes 1
T3291 1279-1282 CC denotes and
T3292 1283-1287 NN denotes Sine
T3293 1288-1290 NN denotes B1
T3294 1290-1291 -RRB- denotes )
T3295 1292-1294 CC denotes or
T3296 1295-1301 RB denotes highly
T3297 1302-1303 -LRB- denotes (
T3298 1303-1306 NN denotes IAP
T3299 1306-1308 , denotes ,
T3300 1308-1313 JJ denotes major
T3301 1314-1323 NN denotes satellite
T3302 1323-1325 , denotes ,
T3303 1325-1330 JJ denotes minor
T3304 1331-1340 NN denotes satellite
T3305 1340-1341 -RRB- denotes )
T3306 1353-1355 IN denotes in
T3307 1356-1360 JJ denotes wild
T3308 1361-1365 NN denotes type
T3309 1360-1361 HYPH denotes -
T3310 1369-1374 NNS denotes cells
T3311 1366-1368 NN denotes ES
T3312 1374-1376 , denotes ,
T3313 1376-1379 CC denotes and
T3314 1380-1384 DT denotes this
T3315 1385-1396 NN denotes methylation
T3316 1416-1425 VBN denotes perturbed
T3317 1397-1400 VBD denotes was
T3318 1401-1404 RB denotes not
T3319 1405-1415 RB denotes detectably
T3320 1426-1428 IN denotes by
T3321 1429-1432 DT denotes the
T3322 1433-1440 NN denotes absence
T3323 1441-1443 IN denotes of
T3324 1444-1448 NN denotes Atrx
T3325 1449-1450 -LRB- denotes (
T3326 1457-1459 NN denotes S3
T3327 1450-1456 NN denotes Figure
T3328 1460-1463 CC denotes and
T3329 1464-1475 JJ denotes unpublished
T3330 1476-1480 NNS denotes data
T3331 1480-1481 -RRB- denotes )
T3332 1481-1482 . denotes .
T3333 1482-1648 sentence denotes Taken together, these data indicate that the subtle interplay between the ATRX protein and DNA methylation observed in human patients is also present in mouse cells.
T3334 1483-1488 VBN denotes Taken
T3335 1510-1518 VBP denotes indicate
T3336 1489-1497 RB denotes together
T3337 1497-1499 , denotes ,
T3338 1499-1504 DT denotes these
T3339 1505-1509 NNS denotes data
T3340 1519-1523 IN denotes that
T3341 1617-1619 VBZ denotes is
T3342 1524-1527 DT denotes the
T3343 1535-1544 NN denotes interplay
T3344 1528-1534 JJ denotes subtle
T3345 1545-1552 IN denotes between
T3346 1553-1556 DT denotes the
T3347 1562-1569 NN denotes protein
T3348 1557-1561 NN denotes ATRX
T3349 1570-1573 CC denotes and
T3350 1574-1577 NN denotes DNA
T3351 1578-1589 NN denotes methylation
T3352 1590-1598 VBN denotes observed
T3353 1599-1601 IN denotes in
T3354 1602-1607 JJ denotes human
T3355 1608-1616 NNS denotes patients
T3356 1620-1624 RB denotes also
T3357 1625-1632 JJ denotes present
T3358 1633-1635 IN denotes in
T3359 1636-1641 NN denotes mouse
T3360 1642-1647 NNS denotes cells
T3361 1647-1648 . denotes .
R1801 T3052 T3053 nsubjpass It,shown
R1802 T3054 T3053 aux has,shown
R1803 T3055 T3053 auxpass been,shown
R1804 T3056 T3057 mark that,give
R1805 T3057 T3053 ccomp give,shown
R1806 T3058 T3059 npadvmod disease,causing
R1807 T3059 T3061 amod causing,mutations
R1808 T3060 T3059 punct -,causing
R1809 T3061 T3057 nsubj mutations,give
R1810 T3062 T3061 prep in,mutations
R1811 T3063 T3064 det the,gene
R1812 T3064 T3062 pobj gene,in
R1813 T3065 T3064 amod human,gene
R1814 T3066 T3064 compound ATRX,gene
R1815 T3067 T3057 dobj rise,give
R1816 T3068 T3057 prep to,give
R1817 T3069 T3068 pobj changes,to
R1818 T3070 T3069 prep in,changes
R1819 T3071 T3072 det the,pattern
R1820 T3072 T3070 pobj pattern,in
R1821 T3073 T3072 amod normal,pattern
R1822 T3074 T3072 prep of,pattern
R1823 T3075 T3076 compound DNA,methylation
R1824 T3076 T3074 pobj methylation,of
R1825 T3077 T3069 prep at,changes
R1826 T3078 T3079 amod several,sequences
R1827 T3079 T3077 pobj sequences,at
R1828 T3080 T3079 amod repetitive,sequences
R1829 T3081 T3079 prep within,sequences
R1830 T3082 T3083 det the,genome
R1831 T3083 T3081 pobj genome,within
R1832 T3084 T3083 amod human,genome
R1833 T3085 T3086 punct [,11
R1834 T3086 T3057 parataxis 11,give
R1835 T3087 T3086 punct ],11
R1836 T3088 T3053 punct .,shown
R1837 T3090 T3091 advmod Notably,found
R1838 T3092 T3091 punct ", ",found
R1839 T3093 T3094 det the,region
R1840 T3094 T3091 nsubjpass region,found
R1841 T3095 T3094 amod transcribed,region
R1842 T3096 T3094 prep of,region
R1843 T3097 T3098 det the,repeat
R1844 T3098 T3096 pobj repeat,of
R1845 T3099 T3100 amod ribosomal,DNA
R1846 T3100 T3098 nmod DNA,repeat
R1847 T3101 T3100 punct (,DNA
R1848 T3102 T3100 appos rDNA,DNA
R1849 T3103 T3098 punct ),repeat
R1850 T3104 T3091 auxpass was,found
R1851 T3105 T3106 aux to,hypomethylated
R1852 T3106 T3091 xcomp hypomethylated,found
R1853 T3107 T3106 auxpass be,hypomethylated
R1854 T3108 T3106 advmod significantly,hypomethylated
R1855 T3109 T3106 prep in,hypomethylated
R1856 T3110 T3111 compound ATR,X
R1857 T3111 T3113 compound X,patients
R1858 T3112 T3111 punct -,X
R1859 T3113 T3109 pobj patients,in
R1860 T3114 T3106 advcl relative,hypomethylated
R1861 T3115 T3114 prep to,relative
R1862 T3116 T3117 amod normal,individuals
R1863 T3117 T3115 pobj individuals,to
R1864 T3118 T3091 punct .,found
R1865 T3120 T3121 advcl Using,observed
R1866 T3122 T3123 npadvmod methylation,sensitive
R1867 T3123 T3125 amod sensitive,enzymes
R1868 T3124 T3123 punct -,sensitive
R1869 T3125 T3120 dobj enzymes,Using
R1870 T3126 T3125 compound restriction,enzymes
R1871 T3127 T3121 punct ", ",observed
R1872 T3128 T3121 nsubj we,observed
R1873 T3129 T3121 advmod also,observed
R1874 T3130 T3131 amod significant,hypomethylation
R1875 T3131 T3121 dobj hypomethylation,observed
R1876 T3132 T3121 prep at,observed
R1877 T3133 T3134 amod several,sites
R1878 T3134 T3132 pobj sites,at
R1879 T3135 T3134 acl tested,sites
R1880 T3136 T3135 prep within,tested
R1881 T3137 T3138 det the,repeats
R1882 T3138 T3136 pobj repeats,within
R1883 T3139 T3140 compound mouse,rDNA
R1884 T3140 T3138 compound rDNA,repeats
R1885 T3141 T3138 prep in,repeats
R1886 T3142 T3143 amod Atrxnull,cells
R1887 T3143 T3141 pobj cells,in
R1888 T3144 T3143 compound ES,cells
R1889 T3145 T3143 cc and,cells
R1890 T3146 T3147 nummod 12,d
R1891 T3147 T3149 nmod d,bodies
R1892 T3148 T3147 punct -,d
R1893 T3149 T3143 conj bodies,cells
R1894 T3150 T3149 amod embryoid,bodies
R1895 T3151 T3121 advcl relative,observed
R1896 T3152 T3151 prep to,relative
R1897 T3153 T3154 compound ES,cells
R1898 T3154 T3152 pobj cells,to
R1899 T3155 T3154 cc and,cells
R1900 T3156 T3157 amod embryoid,bodies
R1901 T3157 T3154 conj bodies,cells
R1902 T3158 T3154 acl bearing,cells
R1903 T3159 T3160 det a,allele
R1904 T3160 T3158 dobj allele,bearing
R1905 T3161 T3160 amod functional,allele
R1906 T3162 T3160 compound Atrx,allele
R1907 T3163 T3160 punct (,allele
R1908 T3164 T3160 appos Atrx WT,allele
R1909 T3165 T3164 cc or,Atrx WT
R1910 T3166 T3164 conj Atrx flox,Atrx WT
R1911 T3167 T3121 punct ),observed
R1912 T3168 T3169 punct (,3B
R1913 T3169 T3121 parataxis 3B,observed
R1914 T3170 T3169 compound Figure,3B
R1915 T3171 T3169 cc and,3B
R1916 T3172 T3169 conj 3C,3B
R1917 T3173 T3169 punct ),3B
R1918 T3174 T3121 punct .,observed
R1919 T3176 T3177 det The,observation
R1920 T3177 T3178 nsubj observation,is
R1921 T3179 T3180 mark that,hypomethylated
R1922 T3180 T3177 acl hypomethylated,observation
R1923 T3181 T3180 nsubjpass rDNA,hypomethylated
R1924 T3182 T3180 auxpass is,hypomethylated
R1925 T3183 T3180 prep in,hypomethylated
R1926 T3184 T3185 det the,absence
R1927 T3185 T3183 pobj absence,in
R1928 T3186 T3185 prep of,absence
R1929 T3187 T3186 pobj Atrx,of
R1930 T3188 T3180 punct ", ",hypomethylated
R1931 T3189 T3190 advmod even,in
R1932 T3190 T3180 prep in,hypomethylated
R1933 T3191 T3192 compound ES,cells
R1934 T3192 T3190 pobj cells,in
R1935 T3193 T3178 punct ", ",is
R1936 T3194 T3178 acomp consistent,is
R1937 T3195 T3194 prep with,consistent
R1938 T3196 T3197 det the,finding
R1939 T3197 T3195 pobj finding,with
R1940 T3198 T3199 mark that,is
R1941 T3199 T3197 acl is,finding
R1942 T3200 T3199 nsubj hypomethylation,is
R1943 T3201 T3200 prep of,hypomethylation
R1944 T3202 T3203 det the,repeats
R1945 T3203 T3201 pobj repeats,of
R1946 T3204 T3205 amod human,rDNA
R1947 T3205 T3203 compound rDNA,repeats
R1948 T3206 T3199 acomp detectable,is
R1949 T3207 T3199 prep from,is
R1950 T3208 T3209 det an,stage
R1951 T3209 T3207 pobj stage,from
R1952 T3210 T3209 amod early,stage
R1953 T3211 T3209 amod developmental,stage
R1954 T3212 T3199 prep in,is
R1955 T3213 T3214 compound ATR,X
R1956 T3214 T3216 compound X,patients
R1957 T3215 T3214 punct -,X
R1958 T3216 T3212 pobj patients,in
R1959 T3217 T3178 punct .,is
R1960 T3219 T3220 amod Other,elements
R1961 T3220 T3224 nsubj elements,include
R1962 T3221 T3220 nmod mouse,elements
R1963 T3222 T3223 amod repetitive,sequence
R1964 T3223 T3220 compound sequence,elements
R1965 T3225 T3220 acl surveyed,elements
R1966 T3226 T3225 prep in,surveyed
R1967 T3227 T3228 compound ES,DNA
R1968 T3228 T3226 pobj DNA,in
R1969 T3229 T3228 compound cell,DNA
R1970 T3230 T3231 det the,repeats
R1971 T3231 T3224 dobj repeats,include
R1972 T3232 T3233 amod heterochromatic,satellite
R1973 T3233 T3231 nmod satellite,repeats
R1974 T3234 T3233 amod major,satellite
R1975 T3235 T3236 punct (,assayed
R1976 T3236 T3233 parataxis assayed,satellite
R1977 T3237 T3236 prep with,assayed
R1978 T3238 T3237 pobj MaeII,with
R1979 T3239 T3236 punct ),assayed
R1980 T3240 T3233 cc and,satellite
R1981 T3241 T3242 amod minor,satellite
R1982 T3242 T3233 conj satellite,satellite
R1983 T3243 T3244 punct (,assayed
R1984 T3244 T3242 parataxis assayed,satellite
R1985 T3245 T3244 prep with,assayed
R1986 T3246 T3245 pobj HpaII,with
R1987 T3247 T3244 punct ),assayed
R1988 T3248 T3231 punct ", ",repeats
R1989 T3249 T3250 advmod as,as
R1990 T3250 T3231 cc as,repeats
R1991 T3251 T3250 advmod well,as
R1992 T3252 T3253 amod interspersed,repeats
R1993 T3253 T3231 conj repeats,repeats
R1994 T3254 T3253 amod retroviral,repeats
R1995 T3255 T3253 prep of,repeats
R1996 T3256 T3257 det the,type
R1997 T3257 T3255 pobj type,of
R1998 T3258 T3259 amod intracisternal,particle
R1999 T3259 T3257 nmod particle,type
R2000 T3260 T3259 nmod A,particle
R2001 T3261 T3259 punct (,particle
R2002 T3262 T3259 appos IAP,particle
R2003 T3263 T3257 punct ),type
R2004 T3264 T3257 cc and,type
R2005 T3265 T3266 det the,families
R2006 T3266 T3257 conj families,type
R2007 T3267 T3266 nmod Line,families
R2008 T3268 T3267 nummod 1,Line
R2009 T3269 T3267 cc and,Line
R2010 T3270 T3271 compound Sine,B1
R2011 T3271 T3267 conj B1,Line
R2012 T3272 T3273 punct (,all
R2013 T3273 T3266 parataxis all,families
R2014 T3274 T3273 acl assayed,all
R2015 T3275 T3274 prep with,assayed
R2016 T3276 T3275 pobj HpaII,with
R2017 T3277 T3273 punct ),all
R2018 T3278 T3224 punct .,include
R2019 T3280 T3281 det These,repeats
R2020 T3281 T3282 nsubjpass repeats,found
R2021 T3283 T3282 auxpass were,found
R2022 T3284 T3285 aux to,be
R2023 T3285 T3282 xcomp be,found
R2024 T3286 T3287 advmod moderately,methylated
R2025 T3287 T3285 acomp methylated,be
R2026 T3288 T3289 punct (,Line
R2027 T3289 T3286 parataxis Line,moderately
R2028 T3290 T3289 nummod 1,Line
R2029 T3291 T3289 cc and,Line
R2030 T3292 T3293 compound Sine,B1
R2031 T3293 T3289 conj B1,Line
R2032 T3294 T3289 punct ),Line
R2033 T3295 T3286 cc or,moderately
R2034 T3296 T3286 conj highly,moderately
R2035 T3297 T3298 punct (,IAP
R2036 T3298 T3296 parataxis IAP,highly
R2037 T3299 T3298 punct ", ",IAP
R2038 T3300 T3301 amod major,satellite
R2039 T3301 T3298 appos satellite,IAP
R2040 T3302 T3298 punct ", ",IAP
R2041 T3303 T3304 amod minor,satellite
R2042 T3304 T3298 appos satellite,IAP
R2043 T3305 T3298 punct ),IAP
R2044 T3306 T3285 prep in,be
R2045 T3307 T3308 amod wild,type
R2046 T3308 T3310 compound type,cells
R2047 T3309 T3308 punct -,type
R2048 T3310 T3306 pobj cells,in
R2049 T3311 T3310 compound ES,cells
R2050 T3312 T3282 punct ", ",found
R2051 T3313 T3282 cc and,found
R2052 T3314 T3315 det this,methylation
R2053 T3315 T3316 nsubjpass methylation,perturbed
R2054 T3316 T3282 conj perturbed,found
R2055 T3317 T3316 auxpass was,perturbed
R2056 T3318 T3316 neg not,perturbed
R2057 T3319 T3316 advmod detectably,perturbed
R2058 T3320 T3316 agent by,perturbed
R2059 T3321 T3322 det the,absence
R2060 T3322 T3320 pobj absence,by
R2061 T3323 T3322 prep of,absence
R2062 T3324 T3323 pobj Atrx,of
R2063 T3325 T3326 punct (,S3
R2064 T3326 T3316 parataxis S3,perturbed
R2065 T3327 T3326 compound Figure,S3
R2066 T3328 T3326 cc and,S3
R2067 T3329 T3330 amod unpublished,data
R2068 T3330 T3326 conj data,S3
R2069 T3331 T3326 punct ),S3
R2070 T3332 T3316 punct .,perturbed
R2071 T3334 T3335 advcl Taken,indicate
R2072 T3336 T3334 advmod together,Taken
R2073 T3337 T3335 punct ", ",indicate
R2074 T3338 T3339 det these,data
R2075 T3339 T3335 nsubj data,indicate
R2076 T3340 T3341 mark that,is
R2077 T3341 T3335 ccomp is,indicate
R2078 T3342 T3343 det the,interplay
R2079 T3343 T3341 nsubj interplay,is
R2080 T3344 T3343 amod subtle,interplay
R2081 T3345 T3343 prep between,interplay
R2082 T3346 T3347 det the,protein
R2083 T3347 T3345 pobj protein,between
R2084 T3348 T3347 compound ATRX,protein
R2085 T3349 T3347 cc and,protein
R2086 T3350 T3351 compound DNA,methylation
R2087 T3351 T3347 conj methylation,protein
R2088 T3352 T3343 acl observed,interplay
R2089 T3353 T3352 prep in,observed
R2090 T3354 T3355 amod human,patients
R2091 T3355 T3353 pobj patients,in
R2092 T3356 T3341 advmod also,is
R2093 T3357 T3341 acomp present,is
R2094 T3358 T3341 prep in,is
R2095 T3359 T3360 compound mouse,cells
R2096 T3360 T3358 pobj cells,in
R2097 T3361 T3335 punct .,indicate

craft-ca-core-ex-dev

Below, discontinuous spans are shown in the chain model. You can change it to the bag model.

Id Subject Object Predicate Lexical cue
T2459 39-48 SO_EXT:sequence_alteration_entity_or_process denotes mutations
T2460 56-61 NCBITaxon:9606 denotes human
T2461 62-66 PR_EXT:000004503 denotes ATRX
T2462 67-71 SO_EXT:0000704 denotes gene
T2463 118-121 CHEBI_SO_EXT:DNA denotes DNA
T2464 118-133 GO:0006306 denotes DNA methylation
T2465 122-133 GO_MOP_EXT:methylation denotes methylation
T2466 145-155 SO_EXT:sequence_repeat_unit_or_region denotes repetitive
T2467 156-165 SO_EXT:biological_sequence denotes sequences
T2468 177-182 NCBITaxon:9606 denotes human
T2469 183-189 SO_EXT:0001026 denotes genome
T2470 209-220 GO_EXT:transcription denotes transcribed
T2471 235-244 GO:0005840 denotes ribosomal
T2472 245-248 CHEBI_SO_EXT:DNA denotes DNA
T2473 256-262 SO_EXT:sequence_repeat_unit_or_region denotes repeat
T2474 297-307 GO_MOP_EXT:methylation denotes methylated
T2475 315-316 GO:0000805 denotes X
T2476 345-356 NCBITaxon:1 denotes individuals
T2477 364-375 GO_MOP_EXT:methylation denotes methylation
T2478 386-405 GO_EXT:0015666 denotes restriction enzymes
T2479 398-405 CHEBI_GO_SO_EXT:enzyme denotes enzymes
T2480 440-451 GO_MOP_EXT:methylation denotes methylation
T2481 487-492 NCBITaxon:10088 denotes mouse
T2482 498-505 SO_EXT:sequence_repeat_unit_or_region denotes repeats
T2483 509-513 PR_EXT:000004503 denotes Atrx
T2484 513-517 SO_EXT:sequence_nullness denotes null
T2485 518-526 CL:0002322 denotes ES cells
T2486 521-526 CL_GO_EXT:cell denotes cells
T2487 536-551 UBERON:0014374 denotes embryoid bodies
T2488 564-572 CL:0002322 denotes ES cells
T2489 567-572 CL_GO_EXT:cell denotes cells
T2490 577-592 UBERON:0014374 denotes embryoid bodies
T2491 614-618 PR_EXT:000004503 denotes Atrx
T2492 619-625 SO_EXT:0001023 denotes allele
T2493 627-631 PR_EXT:000004503 denotes Atrx
T2494 632-634 SO_EXT:wild_type_entity_or_quality denotes WT
T2495 638-642 PR_EXT:000004503 denotes Atrx
T2496 643-647 SO:0000359 denotes flox
T2497 702-712 GO_MOP_EXT:methylation denotes methylated
T2498 731-735 PR_EXT:000004503 denotes Atrx
T2499 745-753 CL:0002322 denotes ES cells
T2500 748-753 CL_GO_EXT:cell denotes cells
T2501 795-806 GO_MOP_EXT:methylation denotes methylation
T2502 814-819 NCBITaxon:9606 denotes human
T2503 825-832 SO_EXT:sequence_repeat_unit_or_region denotes repeats
T2504 888-889 GO:0000805 denotes X
T2505 906-911 NCBITaxon:10088 denotes mouse
T2506 912-922 SO_EXT:sequence_repeat_unit_or_region denotes repetitive
T2507 923-931 SO_EXT:biological_sequence denotes sequence
T2508 953-960 CL:0002322 denotes ES cell
T2509 956-960 CL_GO_EXT:cell denotes cell
T2510 961-964 CHEBI_SO_EXT:DNA denotes DNA
T2511 977-992 GO:0000792 denotes heterochromatic
T2512 999-1008 SO_EXT:satellite_unit_or_region denotes satellite
T2513 1040-1049 _FRAGMENT denotes satellite
T2514 1071-1078 SO_EXT:satellite_unit_or_region denotes repeats
T2515 1104-1114 NCBITaxon:11632 denotes retroviral
T2516 1115-1122 SO_EXT:sequence_repeat_unit_or_region denotes repeats
T2517 1235-1242 SO_EXT:sequence_repeat_unit_or_region denotes repeats
T2518 1314-1323 SO_EXT:satellite_unit_or_region denotes satellite
T2519 1331-1340 SO_EXT:satellite_unit_or_region denotes satellite
T2520 1342-1352 GO_MOP_EXT:methylation denotes methylated
T2521 1356-1365 SO_EXT:wild_type_entity_or_quality denotes wild-type
T2522 1366-1374 CL:0002322 denotes ES cells
T2523 1369-1374 CL_GO_EXT:cell denotes cells
T2524 1385-1396 GO_MOP_EXT:methylation denotes methylation
T2525 1444-1448 PR_EXT:000004503 denotes Atrx
T2526 1557-1561 PR_EXT:000004503 denotes ATRX
T2527 1562-1569 CHEBI_PR_EXT:protein denotes protein
T2528 1574-1577 CHEBI_SO_EXT:DNA denotes DNA
T2529 1574-1589 GO:0006306 denotes DNA methylation
T2530 1578-1589 GO_MOP_EXT:methylation denotes methylation
T2531 1602-1607 NCBITaxon:9606 denotes human
T2532 1636-1641 NCBITaxon:10088 denotes mouse
T2533 1642-1647 CL_GO_EXT:cell denotes cells
R1312 T2514 T2513 _lexicallyChainedTo repeats,satellite

2_test

Id Subject Object Predicate Lexical cue
16628246-10742099-85799749 191-193 10742099 denotes 11
T31994 191-193 10742099 denotes 11

craft-ca-core-dev

Below, discontinuous spans are shown in the chain model. You can change it to the bag model.

Id Subject Object Predicate Lexical cue
T2288 56-61 NCBITaxon:9606 denotes human
T2289 62-66 PR:000004503 denotes ATRX
T2290 67-71 SO:0000704 denotes gene
T2291 118-133 GO:0006306 denotes DNA methylation
T2292 177-182 NCBITaxon:9606 denotes human
T2293 183-189 SO:0001026 denotes genome
T2294 235-244 GO:0005840 denotes ribosomal
T2295 315-316 GO:0000805 denotes X
T2296 345-356 NCBITaxon:1 denotes individuals
T2297 487-492 NCBITaxon:10088 denotes mouse
T2298 509-513 PR:000004503 denotes Atrx
T2299 518-526 CL:0002322 denotes ES cells
T2300 536-551 UBERON:0014374 denotes embryoid bodies
T2301 564-572 CL:0002322 denotes ES cells
T2302 577-592 UBERON:0014374 denotes embryoid bodies
T2303 614-618 PR:000004503 denotes Atrx
T2304 619-625 SO:0001023 denotes allele
T2305 627-631 PR:000004503 denotes Atrx
T2306 638-642 PR:000004503 denotes Atrx
T2307 643-647 SO:0000359 denotes flox
T2308 731-735 PR:000004503 denotes Atrx
T2309 745-753 CL:0002322 denotes ES cells
T2310 814-819 NCBITaxon:9606 denotes human
T2311 888-889 GO:0000805 denotes X
T2312 906-911 NCBITaxon:10088 denotes mouse
T2313 953-960 CL:0002322 denotes ES cell
T2314 977-992 GO:0000792 denotes heterochromatic
T2315 1104-1114 NCBITaxon:11632 denotes retroviral
T2316 1366-1374 CL:0002322 denotes ES cells
T2317 1444-1448 PR:000004503 denotes Atrx
T2318 1557-1561 PR:000004503 denotes ATRX
T2319 1574-1589 GO:0006306 denotes DNA methylation
T2320 1602-1607 NCBITaxon:9606 denotes human
T2321 1636-1641 NCBITaxon:10088 denotes mouse