> top > docs > PMC:549712 > spans > 57746-59846 > annotations

PMC:549712 / 57746-59846 JSONTXT

Annnotations TAB JSON ListView MergeView

craft-sa-dev

Id Subject Object Predicate Lexical cue
T16844 0-3 IN denotes For
T16845 65-71 VBN denotes plated
T16846 4-15 NN denotes preparation
T16847 16-18 IN denotes of
T16848 19-28 NN denotes monolayer
T16849 29-37 NNS denotes cultures
T16850 38-40 IN denotes of
T16851 41-52 NNS denotes macrophages
T16852 52-54 , denotes ,
T16853 54-59 NNS denotes FLDMs
T16854 60-64 VBD denotes were
T16855 72-74 IN denotes on
T16856 75-80 NN denotes glass
T16857 81-91 NNS denotes coverslips
T16858 92-94 IN denotes in
T16859 95-97 CD denotes 24
T16860 103-109 NNS denotes plates
T16861 98-102 NN denotes well
T16862 110-111 -LRB- denotes (
T16863 119-124 NNS denotes cells
T16864 111-112 CD denotes 2
T16865 115-118 CD denotes 105
T16866 113-114 SYM denotes ×
T16867 125-128 IN denotes per
T16868 129-133 NN denotes well
T16869 133-134 -RRB- denotes )
T16870 135-137 IN denotes in
T16871 138-139 NN denotes X
T16872 140-144 NN denotes Vivo
T16873 139-140 HYPH denotes -
T16874 148-154 NN denotes medium
T16875 145-147 CD denotes 15
T16876 154-155 . denotes .
T16877 155-458 sentence denotes For preparation of apoptotic target cells, primary thymocytes were harvested from the thymus of 4- to 8-week-old C57BL/6J mice, stained with TAMRA for 15 min, and apoptosis was induced either by treating cells with 5 μM staurosporine in medium for 4 h at 37°C or by culturing cells in medium overnight.
T16878 156-159 IN denotes For
T16879 223-232 VBN denotes harvested
T16880 160-171 NN denotes preparation
T16881 172-174 IN denotes of
T16882 175-184 JJ denotes apoptotic
T16883 192-197 NNS denotes cells
T16884 185-191 NN denotes target
T16885 197-199 , denotes ,
T16886 199-206 JJ denotes primary
T16887 207-217 NNS denotes thymocytes
T16888 218-222 VBD denotes were
T16889 233-237 IN denotes from
T16890 238-241 DT denotes the
T16891 242-248 NN denotes thymus
T16892 249-251 IN denotes of
T16893 252-253 CD denotes 4
T16894 258-259 CD denotes 8
T16895 253-254 HYPH denotes -
T16896 255-257 IN denotes to
T16897 260-264 NN denotes week
T16898 259-260 HYPH denotes -
T16899 265-268 JJ denotes old
T16900 264-265 HYPH denotes -
T16901 278-282 NNS denotes mice
T16902 269-274 NN denotes C57BL
T16903 275-277 NN denotes 6J
T16904 274-275 HYPH denotes /
T16905 282-284 , denotes ,
T16906 284-291 VBN denotes stained
T16907 292-296 IN denotes with
T16908 297-302 NN denotes TAMRA
T16909 303-306 IN denotes for
T16910 307-309 CD denotes 15
T16911 310-313 NNS denotes min
T16912 313-315 , denotes ,
T16913 315-318 CC denotes and
T16914 319-328 NN denotes apoptosis
T16915 333-340 VBN denotes induced
T16916 329-332 VBD denotes was
T16917 341-347 CC denotes either
T16918 348-350 IN denotes by
T16919 351-359 VBG denotes treating
T16920 360-365 NNS denotes cells
T16921 366-370 IN denotes with
T16922 371-372 CD denotes 5
T16923 373-375 NN denotes μM
T16924 376-389 NN denotes staurosporine
T16925 390-392 IN denotes in
T16926 393-399 NN denotes medium
T16927 400-403 IN denotes for
T16928 404-405 CD denotes 4
T16929 406-407 NNS denotes h
T16930 408-410 IN denotes at
T16931 411-413 CD denotes 37
T16932 413-415 NN denotes °C
T16933 416-418 CC denotes or
T16934 419-421 IN denotes by
T16935 422-431 VBG denotes culturing
T16936 432-437 NNS denotes cells
T16937 438-440 IN denotes in
T16938 441-447 NN denotes medium
T16939 448-457 RB denotes overnight
T16940 457-458 . denotes .
T16941 458-561 sentence denotes The efficacy of apoptosis induction was compared in thymic target cells and controls by FACS analysis.
T16942 459-462 DT denotes The
T16943 463-471 NN denotes efficacy
T16944 499-507 VBN denotes compared
T16945 472-474 IN denotes of
T16946 475-484 NN denotes apoptosis
T16947 485-494 NN denotes induction
T16948 495-498 VBD denotes was
T16949 508-510 IN denotes in
T16950 511-517 JJ denotes thymic
T16951 525-530 NNS denotes cells
T16952 518-524 NN denotes target
T16953 531-534 CC denotes and
T16954 535-543 NNS denotes controls
T16955 544-546 IN denotes by
T16956 547-551 NN denotes FACS
T16957 552-560 NN denotes analysis
T16958 560-561 . denotes .
T16959 561-775 sentence denotes On average, 60% of the cells of the resulting population were apoptotic, with exposed PS on their surface, and less than 5% of the cells were necrotic, as confirmed by FITC-annexin V and propidium iodide staining.
T16960 562-564 IN denotes On
T16961 619-623 VBD denotes were
T16962 565-572 JJ denotes average
T16963 572-574 , denotes ,
T16964 574-576 CD denotes 60
T16965 576-577 NN denotes %
T16966 578-580 IN denotes of
T16967 581-584 DT denotes the
T16968 585-590 NNS denotes cells
T16969 591-593 IN denotes of
T16970 594-597 DT denotes the
T16971 608-618 NN denotes population
T16972 598-607 VBG denotes resulting
T16973 624-633 JJ denotes apoptotic
T16974 633-635 , denotes ,
T16975 635-639 IN denotes with
T16976 640-647 VBN denotes exposed
T16977 648-650 NN denotes PS
T16978 651-653 IN denotes on
T16979 654-659 PRP$ denotes their
T16980 660-667 NN denotes surface
T16981 667-669 , denotes ,
T16982 669-672 CC denotes and
T16983 673-677 JJR denotes less
T16984 683-684 CD denotes 5
T16985 678-682 IN denotes than
T16986 684-685 NN denotes %
T16987 699-703 VBD denotes were
T16988 686-688 IN denotes of
T16989 689-692 DT denotes the
T16990 693-698 NNS denotes cells
T16991 704-712 JJ denotes necrotic
T16992 712-714 , denotes ,
T16993 714-716 IN denotes as
T16994 717-726 VBN denotes confirmed
T16995 727-729 IN denotes by
T16996 730-734 NN denotes FITC
T16997 735-742 NN denotes annexin
T16998 734-735 HYPH denotes -
T16999 743-744 CD denotes V
T17000 745-748 CC denotes and
T17001 749-758 NN denotes propidium
T17002 759-765 NN denotes iodide
T17003 766-774 NN denotes staining
T17004 774-775 . denotes .
T17005 775-884 sentence denotes The apoptotic thymocytes obtained were washed with PBS and added to the prepared FLDM cultures (ratio 10:1).
T17006 776-779 DT denotes The
T17007 790-800 NNS denotes thymocytes
T17008 780-789 JJ denotes apoptotic
T17009 815-821 VBN denotes washed
T17010 801-809 VBN denotes obtained
T17011 810-814 VBD denotes were
T17012 822-826 IN denotes with
T17013 827-830 NN denotes PBS
T17014 831-834 CC denotes and
T17015 835-840 VBN denotes added
T17016 841-843 IN denotes to
T17017 844-847 DT denotes the
T17018 862-870 NNS denotes cultures
T17019 848-856 VBN denotes prepared
T17020 857-861 NN denotes FLDM
T17021 871-872 -LRB- denotes (
T17022 878-880 CD denotes 10
T17023 872-877 NN denotes ratio
T17024 880-881 SYM denotes :
T17025 881-882 CD denotes 1
T17026 882-883 -RRB- denotes )
T17027 883-884 . denotes .
T17028 884-945 sentence denotes Phagocytosis was then allowed to proceed at 37°C and 5% CO2.
T17029 885-897 NN denotes Phagocytosis
T17030 907-914 VBN denotes allowed
T17031 898-901 VBD denotes was
T17032 902-906 RB denotes then
T17033 915-917 TO denotes to
T17034 918-925 VB denotes proceed
T17035 926-928 IN denotes at
T17036 929-931 CD denotes 37
T17037 931-933 NN denotes °C
T17038 934-937 CC denotes and
T17039 938-939 CD denotes 5
T17040 939-940 NN denotes %
T17041 941-944 NN denotes CO2
T17042 944-945 . denotes .
T17043 945-1112 sentence denotes After the indicated time periods, the uptake of apoptotic cells by FLDMs was stopped by intensive washing of co-cultures with cold PBS to remove unphagocytosed cells.
T17044 946-951 IN denotes After
T17045 1023-1030 VBN denotes stopped
T17046 952-955 DT denotes the
T17047 971-978 NNS denotes periods
T17048 956-965 VBN denotes indicated
T17049 966-970 NN denotes time
T17050 978-980 , denotes ,
T17051 980-983 DT denotes the
T17052 984-990 NN denotes uptake
T17053 991-993 IN denotes of
T17054 994-1003 JJ denotes apoptotic
T17055 1004-1009 NNS denotes cells
T17056 1010-1012 IN denotes by
T17057 1013-1018 NNS denotes FLDMs
T17058 1019-1022 VBD denotes was
T17059 1031-1033 IN denotes by
T17060 1034-1043 JJ denotes intensive
T17061 1044-1051 NN denotes washing
T17062 1052-1054 IN denotes of
T17063 1055-1066 NNS denotes co-cultures
T17064 1067-1071 IN denotes with
T17065 1072-1076 JJ denotes cold
T17066 1077-1080 NN denotes PBS
T17067 1081-1083 TO denotes to
T17068 1084-1090 VB denotes remove
T17069 1091-1105 JJ denotes unphagocytosed
T17070 1106-1111 NNS denotes cells
T17071 1111-1112 . denotes .
T17072 1112-1229 sentence denotes To measure phagocytosis of apoptotic thymocytes, macrophages were further processed for immunofluorescence analysis.
T17073 1113-1115 TO denotes To
T17074 1116-1123 VB denotes measure
T17075 1187-1196 VBN denotes processed
T17076 1124-1136 NN denotes phagocytosis
T17077 1137-1139 IN denotes of
T17078 1140-1149 JJ denotes apoptotic
T17079 1150-1160 NNS denotes thymocytes
T17080 1160-1162 , denotes ,
T17081 1162-1173 NNS denotes macrophages
T17082 1174-1178 VBD denotes were
T17083 1179-1186 RB denotes further
T17084 1197-1200 IN denotes for
T17085 1201-1219 NN denotes immunofluorescence
T17086 1220-1228 NN denotes analysis
T17087 1228-1229 . denotes .
T17088 1229-1436 sentence denotes Cells were fixed in 4% paraformaldehyde, blocked in 0.5% BSA/PBS and stained with an anti-F4/80 antibody (Serotec) followed by a secondary antibody coupled to Alexa 488 (Molecular Probes Inc., Eugene, USA).
T17089 1230-1235 NNS denotes Cells
T17090 1241-1246 VBN denotes fixed
T17091 1236-1240 VBD denotes were
T17092 1247-1249 IN denotes in
T17093 1250-1251 CD denotes 4
T17094 1251-1252 NN denotes %
T17095 1253-1269 NN denotes paraformaldehyde
T17096 1269-1271 , denotes ,
T17097 1271-1278 VBD denotes blocked
T17098 1279-1281 IN denotes in
T17099 1282-1285 CD denotes 0.5
T17100 1285-1286 NN denotes %
T17101 1291-1294 NN denotes PBS
T17102 1287-1290 NN denotes BSA
T17103 1290-1291 HYPH denotes /
T17104 1295-1298 CC denotes and
T17105 1299-1306 VBD denotes stained
T17106 1307-1311 IN denotes with
T17107 1312-1314 DT denotes an
T17108 1326-1334 NN denotes antibody
T17109 1315-1322 JJ denotes anti-F4
T17110 1323-1325 CD denotes 80
T17111 1322-1323 HYPH denotes /
T17112 1335-1336 -LRB- denotes (
T17113 1336-1343 NNP denotes Serotec
T17114 1343-1344 -RRB- denotes )
T17115 1345-1353 VBN denotes followed
T17116 1354-1356 IN denotes by
T17117 1357-1358 DT denotes a
T17118 1369-1377 NN denotes antibody
T17119 1359-1368 JJ denotes secondary
T17120 1378-1385 VBN denotes coupled
T17121 1386-1388 IN denotes to
T17122 1389-1394 NNP denotes Alexa
T17123 1395-1398 CD denotes 488
T17124 1399-1400 -LRB- denotes (
T17125 1417-1421 NNP denotes Inc.
T17126 1400-1409 NNP denotes Molecular
T17127 1410-1416 NNP denotes Probes
T17128 1421-1423 , denotes ,
T17129 1423-1429 NNP denotes Eugene
T17130 1429-1431 , denotes ,
T17131 1431-1434 NNP denotes USA
T17132 1434-1435 -RRB- denotes )
T17133 1435-1436 . denotes .
T17134 1436-1538 sentence denotes Coverslips were mounted on slides and engulfed thymocytes were enumerated by fluorescence microscopy.
T17135 1437-1447 NNS denotes Coverslips
T17136 1453-1460 VBN denotes mounted
T17137 1448-1452 VBD denotes were
T17138 1461-1463 IN denotes on
T17139 1464-1470 NNS denotes slides
T17140 1471-1474 CC denotes and
T17141 1475-1483 VBN denotes engulfed
T17142 1484-1494 NNS denotes thymocytes
T17143 1500-1510 VBN denotes enumerated
T17144 1495-1499 VBD denotes were
T17145 1511-1513 IN denotes by
T17146 1514-1526 NN denotes fluorescence
T17147 1527-1537 NN denotes microscopy
T17148 1537-1538 . denotes .
T17149 1538-1703 sentence denotes The percentage of phagocytosis was calculated by counting at least 300 macrophages and determining the number of macrophages that had engulfed apoptotic thymocytes.
T17150 1539-1542 DT denotes The
T17151 1543-1553 NN denotes percentage
T17152 1574-1584 VBN denotes calculated
T17153 1554-1556 IN denotes of
T17154 1557-1569 NN denotes phagocytosis
T17155 1570-1573 VBD denotes was
T17156 1585-1587 IN denotes by
T17157 1588-1596 VBG denotes counting
T17158 1597-1599 RB denotes at
T17159 1606-1609 CD denotes 300
T17160 1600-1605 RBS denotes least
T17161 1610-1621 NNS denotes macrophages
T17162 1622-1625 CC denotes and
T17163 1626-1637 VBG denotes determining
T17164 1638-1641 DT denotes the
T17165 1642-1648 NN denotes number
T17166 1649-1651 IN denotes of
T17167 1652-1663 NNS denotes macrophages
T17168 1664-1668 WDT denotes that
T17169 1673-1681 VBN denotes engulfed
T17170 1669-1672 VBD denotes had
T17171 1682-1691 JJ denotes apoptotic
T17172 1692-1702 NNS denotes thymocytes
T17173 1702-1703 . denotes .
T17174 1703-1962 sentence denotes The phagocytotic index was calculated according to the following formula: phagocytotic index = (total number of engulfed cells/total number of counted macrophages) × (number of macrophages containing engulfed cells/total number of counted macrophages) × 100.
T17175 1704-1707 DT denotes The
T17176 1721-1726 NN denotes index
T17177 1708-1720 JJ denotes phagocytotic
T17178 1731-1741 VBN denotes calculated
T17179 1727-1730 VBD denotes was
T17180 1806-1812 NN denotes number
T17181 1742-1751 VBG denotes according
T17182 1752-1754 IN denotes to
T17183 1755-1758 DT denotes the
T17184 1769-1776 NN denotes formula
T17185 1759-1768 VBG denotes following
T17186 1776-1778 : denotes :
T17187 1778-1790 JJ denotes phagocytotic
T17188 1791-1796 NN denotes index
T17189 1797-1798 SYM denotes =
T17190 1799-1800 -LRB- denotes (
T17191 1800-1805 JJ denotes total
T17192 1813-1815 IN denotes of
T17193 1816-1824 VBN denotes engulfed
T17194 1825-1830 NNS denotes cells
T17195 1830-1831 SYM denotes /
T17196 1837-1843 NN denotes number
T17197 1831-1836 JJ denotes total
T17198 1844-1846 IN denotes of
T17199 1847-1854 VBN denotes counted
T17200 1855-1866 NNS denotes macrophages
T17201 1866-1867 -RRB- denotes )
T17202 1868-1869 SYM denotes ×
T17203 1871-1877 NN denotes number
T17204 1870-1871 -LRB- denotes (
T17205 1878-1880 IN denotes of
T17206 1881-1892 NNS denotes macrophages
T17207 1893-1903 VBG denotes containing
T17208 1904-1912 VBN denotes engulfed
T17209 1913-1918 NNS denotes cells
T17210 1918-1919 SYM denotes /
T17211 1925-1931 NN denotes number
T17212 1919-1924 JJ denotes total
T17213 1932-1934 IN denotes of
T17214 1935-1942 VBN denotes counted
T17215 1943-1954 NNS denotes macrophages
T17216 1954-1955 -RRB- denotes )
T17217 1956-1957 SYM denotes ×
T17218 1958-1961 CD denotes 100
T17219 1961-1962 . denotes .
T17220 1962-2100 sentence denotes The experiments were performed at least three times, each time in triplicate, and the counting was done by three different investigators.
T17221 1963-1966 DT denotes The
T17222 1967-1978 NNS denotes experiments
T17223 1984-1993 VBN denotes performed
T17224 1979-1983 VBD denotes were
T17225 1994-1996 RB denotes at
T17226 2003-2008 CD denotes three
T17227 1997-2002 RBS denotes least
T17228 2009-2014 NNS denotes times
T17229 2014-2016 , denotes ,
T17230 2016-2020 DT denotes each
T17231 2021-2025 NN denotes time
T17232 2026-2028 IN denotes in
T17233 2029-2039 NN denotes triplicate
T17234 2039-2041 , denotes ,
T17235 2041-2044 CC denotes and
T17236 2045-2048 DT denotes the
T17237 2049-2057 NN denotes counting
T17238 2062-2066 VBN denotes done
T17239 2058-2061 VBD denotes was
T17240 2067-2069 IN denotes by
T17241 2070-2075 CD denotes three
T17242 2086-2099 NNS denotes investigators
T17243 2076-2085 JJ denotes different
T17244 2099-2100 . denotes .
R10278 T16844 T16845 prep For,plated
R10279 T16846 T16844 pobj preparation,For
R10280 T16847 T16846 prep of,preparation
R10281 T16848 T16849 compound monolayer,cultures
R10282 T16849 T16847 pobj cultures,of
R10283 T16850 T16849 prep of,cultures
R10284 T16851 T16850 pobj macrophages,of
R10285 T16852 T16845 punct ", ",plated
R10286 T16853 T16845 nsubjpass FLDMs,plated
R10287 T16854 T16845 auxpass were,plated
R10288 T16855 T16845 prep on,plated
R10289 T16856 T16857 compound glass,coverslips
R10290 T16857 T16855 pobj coverslips,on
R10291 T16858 T16845 prep in,plated
R10292 T16859 T16860 nummod 24,plates
R10293 T16860 T16858 pobj plates,in
R10294 T16861 T16860 compound well,plates
R10295 T16862 T16863 punct (,cells
R10296 T16863 T16858 parataxis cells,in
R10297 T16864 T16865 quantmod 2,105
R10298 T16865 T16863 nummod 105,cells
R10299 T16866 T16865 punct ×,105
R10300 T16867 T16863 prep per,cells
R10301 T16868 T16867 pobj well,per
R10302 T16869 T16863 punct ),cells
R10303 T16870 T16845 prep in,plated
R10304 T16871 T16872 nmod X,Vivo
R10305 T16872 T16874 nmod Vivo,medium
R10306 T16873 T16872 punct -,Vivo
R10307 T16874 T16870 pobj medium,in
R10308 T16875 T16872 nummod 15,Vivo
R10309 T16876 T16845 punct .,plated
R10310 T16878 T16879 prep For,harvested
R10311 T16880 T16878 pobj preparation,For
R10312 T16881 T16880 prep of,preparation
R10313 T16882 T16883 amod apoptotic,cells
R10314 T16883 T16881 pobj cells,of
R10315 T16884 T16883 compound target,cells
R10316 T16885 T16879 punct ", ",harvested
R10317 T16886 T16887 amod primary,thymocytes
R10318 T16887 T16879 nsubjpass thymocytes,harvested
R10319 T16888 T16879 auxpass were,harvested
R10320 T16889 T16879 prep from,harvested
R10321 T16890 T16891 det the,thymus
R10322 T16891 T16889 pobj thymus,from
R10323 T16892 T16891 prep of,thymus
R10324 T16893 T16894 quantmod 4,8
R10325 T16894 T16897 nummod 8,week
R10326 T16895 T16894 punct -,8
R10327 T16896 T16894 quantmod to,8
R10328 T16897 T16899 npadvmod week,old
R10329 T16898 T16897 punct -,week
R10330 T16899 T16901 amod old,mice
R10331 T16900 T16899 punct -,old
R10332 T16901 T16892 pobj mice,of
R10333 T16902 T16903 compound C57BL,6J
R10334 T16903 T16901 compound 6J,mice
R10335 T16904 T16903 punct /,6J
R10336 T16905 T16879 punct ", ",harvested
R10337 T16906 T16879 dep stained,harvested
R10338 T16907 T16906 prep with,stained
R10339 T16908 T16907 pobj TAMRA,with
R10340 T16909 T16906 prep for,stained
R10341 T16910 T16911 nummod 15,min
R10342 T16911 T16909 pobj min,for
R10343 T16912 T16879 punct ", ",harvested
R10344 T16913 T16879 cc and,harvested
R10345 T16914 T16915 nsubjpass apoptosis,induced
R10346 T16915 T16879 conj induced,harvested
R10347 T16916 T16915 auxpass was,induced
R10348 T16917 T16918 preconj either,by
R10349 T16918 T16915 prep by,induced
R10350 T16919 T16918 pcomp treating,by
R10351 T16920 T16919 dobj cells,treating
R10352 T16921 T16919 prep with,treating
R10353 T16922 T16923 nummod 5,μM
R10354 T16923 T16924 compound μM,staurosporine
R10355 T16924 T16921 pobj staurosporine,with
R10356 T16925 T16919 prep in,treating
R10357 T16926 T16925 pobj medium,in
R10358 T16927 T16919 prep for,treating
R10359 T16928 T16929 nummod 4,h
R10360 T16929 T16927 pobj h,for
R10361 T16930 T16919 prep at,treating
R10362 T16931 T16932 nummod 37,°C
R10363 T16932 T16930 pobj °C,at
R10364 T16933 T16918 cc or,by
R10365 T16934 T16918 conj by,by
R10366 T16935 T16934 pcomp culturing,by
R10367 T16936 T16935 dobj cells,culturing
R10368 T16937 T16935 prep in,culturing
R10369 T16938 T16937 pobj medium,in
R10370 T16939 T16935 advmod overnight,culturing
R10371 T16940 T16879 punct .,harvested
R10372 T16942 T16943 det The,efficacy
R10373 T16943 T16944 nsubjpass efficacy,compared
R10374 T16945 T16943 prep of,efficacy
R10375 T16946 T16947 compound apoptosis,induction
R10376 T16947 T16945 pobj induction,of
R10377 T16948 T16944 auxpass was,compared
R10378 T16949 T16944 prep in,compared
R10379 T16950 T16951 amod thymic,cells
R10380 T16951 T16949 pobj cells,in
R10381 T16952 T16951 compound target,cells
R10382 T16953 T16951 cc and,cells
R10383 T16954 T16951 conj controls,cells
R10384 T16955 T16944 prep by,compared
R10385 T16956 T16957 compound FACS,analysis
R10386 T16957 T16955 pobj analysis,by
R10387 T16958 T16944 punct .,compared
R10388 T16960 T16961 prep On,were
R10389 T16962 T16960 amod average,On
R10390 T16963 T16961 punct ", ",were
R10391 T16964 T16965 nummod 60,%
R10392 T16965 T16961 nsubj %,were
R10393 T16966 T16965 prep of,%
R10394 T16967 T16968 det the,cells
R10395 T16968 T16966 pobj cells,of
R10396 T16969 T16965 prep of,%
R10397 T16970 T16971 det the,population
R10398 T16971 T16969 pobj population,of
R10399 T16972 T16971 amod resulting,population
R10400 T16973 T16961 acomp apoptotic,were
R10401 T16974 T16961 punct ", ",were
R10402 T16975 T16961 prep with,were
R10403 T16976 T16977 amod exposed,PS
R10404 T16977 T16975 pobj PS,with
R10405 T16978 T16977 prep on,PS
R10406 T16979 T16980 poss their,surface
R10407 T16980 T16978 pobj surface,on
R10408 T16981 T16961 punct ", ",were
R10409 T16982 T16961 cc and,were
R10410 T16983 T16984 amod less,5
R10411 T16984 T16986 nummod 5,%
R10412 T16985 T16984 quantmod than,5
R10413 T16986 T16987 nsubj %,were
R10414 T16987 T16961 conj were,were
R10415 T16988 T16986 prep of,%
R10416 T16989 T16990 det the,cells
R10417 T16990 T16988 pobj cells,of
R10418 T16991 T16987 acomp necrotic,were
R10419 T16992 T16987 punct ", ",were
R10420 T16993 T16994 mark as,confirmed
R10421 T16994 T16987 advcl confirmed,were
R10422 T16995 T16994 prep by,confirmed
R10423 T16996 T16997 compound FITC,annexin
R10424 T16997 T16995 pobj annexin,by
R10425 T16998 T16997 punct -,annexin
R10426 T16999 T16997 nummod V,annexin
R10427 T17000 T16997 cc and,annexin
R10428 T17001 T17002 compound propidium,iodide
R10429 T17002 T17003 compound iodide,staining
R10430 T17003 T16997 conj staining,annexin
R10431 T17004 T16987 punct .,were
R10432 T17006 T17007 det The,thymocytes
R10433 T17007 T17009 nsubjpass thymocytes,washed
R10434 T17008 T17007 amod apoptotic,thymocytes
R10435 T17010 T17007 acl obtained,thymocytes
R10436 T17011 T17009 auxpass were,washed
R10437 T17012 T17009 prep with,washed
R10438 T17013 T17012 pobj PBS,with
R10439 T17014 T17009 cc and,washed
R10440 T17015 T17009 conj added,washed
R10441 T17016 T17015 prep to,added
R10442 T17017 T17018 det the,cultures
R10443 T17018 T17016 pobj cultures,to
R10444 T17019 T17018 amod prepared,cultures
R10445 T17020 T17018 compound FLDM,cultures
R10446 T17021 T17022 punct (,10
R10447 T17022 T17015 parataxis 10,added
R10448 T17023 T17022 dep ratio,10
R10449 T17024 T17025 punct :,1
R10450 T17025 T17022 prep 1,10
R10451 T17026 T17022 punct ),10
R10452 T17027 T17009 punct .,washed
R10453 T17029 T17030 nsubjpass Phagocytosis,allowed
R10454 T17031 T17030 auxpass was,allowed
R10455 T17032 T17030 advmod then,allowed
R10456 T17033 T17034 aux to,proceed
R10457 T17034 T17030 xcomp proceed,allowed
R10458 T17035 T17034 prep at,proceed
R10459 T17036 T17037 nummod 37,°C
R10460 T17037 T17035 pobj °C,at
R10461 T17038 T17037 cc and,°C
R10462 T17039 T17040 nummod 5,%
R10463 T17040 T17041 compound %,CO2
R10464 T17041 T17037 conj CO2,°C
R10465 T17042 T17030 punct .,allowed
R10466 T17044 T17045 prep After,stopped
R10467 T17046 T17047 det the,periods
R10468 T17047 T17044 pobj periods,After
R10469 T17048 T17047 amod indicated,periods
R10470 T17049 T17047 compound time,periods
R10471 T17050 T17045 punct ", ",stopped
R10472 T17051 T17052 det the,uptake
R10473 T17052 T17045 nsubjpass uptake,stopped
R10474 T17053 T17052 prep of,uptake
R10475 T17054 T17055 amod apoptotic,cells
R10476 T17055 T17053 pobj cells,of
R10477 T17056 T17052 prep by,uptake
R10478 T17057 T17056 pobj FLDMs,by
R10479 T17058 T17045 auxpass was,stopped
R10480 T17059 T17045 prep by,stopped
R10481 T17060 T17061 amod intensive,washing
R10482 T17061 T17059 pobj washing,by
R10483 T17062 T17061 prep of,washing
R10484 T17063 T17062 pobj co-cultures,of
R10485 T17064 T17061 prep with,washing
R10486 T17065 T17066 amod cold,PBS
R10487 T17066 T17064 pobj PBS,with
R10488 T17067 T17068 aux to,remove
R10489 T17068 T17045 advcl remove,stopped
R10490 T17069 T17070 amod unphagocytosed,cells
R10491 T17070 T17068 dobj cells,remove
R10492 T17071 T17045 punct .,stopped
R10493 T17073 T17074 aux To,measure
R10494 T17074 T17075 advcl measure,processed
R10495 T17076 T17074 dobj phagocytosis,measure
R10496 T17077 T17076 prep of,phagocytosis
R10497 T17078 T17079 amod apoptotic,thymocytes
R10498 T17079 T17077 pobj thymocytes,of
R10499 T17080 T17075 punct ", ",processed
R10500 T17081 T17075 nsubjpass macrophages,processed
R10501 T17082 T17075 auxpass were,processed
R10502 T17083 T17075 advmod further,processed
R10503 T17084 T17075 prep for,processed
R10504 T17085 T17086 compound immunofluorescence,analysis
R10505 T17086 T17084 pobj analysis,for
R10506 T17087 T17075 punct .,processed
R10507 T17089 T17090 nsubjpass Cells,fixed
R10508 T17091 T17090 auxpass were,fixed
R10509 T17092 T17090 prep in,fixed
R10510 T17093 T17094 nummod 4,%
R10511 T17094 T17095 compound %,paraformaldehyde
R10512 T17095 T17092 pobj paraformaldehyde,in
R10513 T17096 T17090 punct ", ",fixed
R10514 T17097 T17090 conj blocked,fixed
R10515 T17098 T17097 prep in,blocked
R10516 T17099 T17100 nummod 0.5,%
R10517 T17100 T17101 compound %,PBS
R10518 T17101 T17098 pobj PBS,in
R10519 T17102 T17101 compound BSA,PBS
R10520 T17103 T17101 punct /,PBS
R10521 T17104 T17097 cc and,blocked
R10522 T17105 T17097 conj stained,blocked
R10523 T17106 T17105 prep with,stained
R10524 T17107 T17108 det an,antibody
R10525 T17108 T17106 pobj antibody,with
R10526 T17109 T17110 amod anti-F4,80
R10527 T17110 T17108 nummod 80,antibody
R10528 T17111 T17110 punct /,80
R10529 T17112 T17113 punct (,Serotec
R10530 T17113 T17108 parataxis Serotec,antibody
R10531 T17114 T17113 punct ),Serotec
R10532 T17115 T17108 acl followed,antibody
R10533 T17116 T17115 agent by,followed
R10534 T17117 T17118 det a,antibody
R10535 T17118 T17116 pobj antibody,by
R10536 T17119 T17118 amod secondary,antibody
R10537 T17120 T17118 acl coupled,antibody
R10538 T17121 T17120 prep to,coupled
R10539 T17122 T17121 pobj Alexa,to
R10540 T17123 T17122 nummod 488,Alexa
R10541 T17124 T17125 punct (,Inc.
R10542 T17125 T17122 parataxis Inc.,Alexa
R10543 T17126 T17125 compound Molecular,Inc.
R10544 T17127 T17125 compound Probes,Inc.
R10545 T17128 T17125 punct ", ",Inc.
R10546 T17129 T17125 npadvmod Eugene,Inc.
R10547 T17130 T17125 punct ", ",Inc.
R10548 T17131 T17125 npadvmod USA,Inc.
R10549 T17132 T17125 punct ),Inc.
R10550 T17133 T17090 punct .,fixed
R10551 T17135 T17136 nsubjpass Coverslips,mounted
R10552 T17137 T17136 auxpass were,mounted
R10553 T17138 T17136 prep on,mounted
R10554 T17139 T17138 pobj slides,on
R10555 T17140 T17136 cc and,mounted
R10556 T17141 T17142 amod engulfed,thymocytes
R10557 T17142 T17143 nsubjpass thymocytes,enumerated
R10558 T17143 T17136 conj enumerated,mounted
R10559 T17144 T17143 auxpass were,enumerated
R10560 T17145 T17143 prep by,enumerated
R10561 T17146 T17147 compound fluorescence,microscopy
R10562 T17147 T17145 pobj microscopy,by
R10563 T17148 T17143 punct .,enumerated
R10564 T17150 T17151 det The,percentage
R10565 T17151 T17152 nsubjpass percentage,calculated
R10566 T17153 T17151 prep of,percentage
R10567 T17154 T17153 pobj phagocytosis,of
R10568 T17155 T17152 auxpass was,calculated
R10569 T17156 T17152 prep by,calculated
R10570 T17157 T17156 pcomp counting,by
R10571 T17158 T17159 advmod at,300
R10572 T17159 T17161 nummod 300,macrophages
R10573 T17160 T17159 advmod least,300
R10574 T17161 T17157 dobj macrophages,counting
R10575 T17162 T17157 cc and,counting
R10576 T17163 T17157 conj determining,counting
R10577 T17164 T17165 det the,number
R10578 T17165 T17163 dobj number,determining
R10579 T17166 T17165 prep of,number
R10580 T17167 T17166 pobj macrophages,of
R10581 T17168 T17169 dep that,engulfed
R10582 T17169 T17167 relcl engulfed,macrophages
R10583 T17170 T17169 aux had,engulfed
R10584 T17171 T17172 amod apoptotic,thymocytes
R10585 T17172 T17169 dobj thymocytes,engulfed
R10586 T17173 T17152 punct .,calculated
R10587 T17175 T17176 det The,index
R10588 T17176 T17178 nsubjpass index,calculated
R10589 T17177 T17176 amod phagocytotic,index
R10590 T17178 T17180 ccomp calculated,number
R10591 T17179 T17178 auxpass was,calculated
R10592 T17181 T17178 prep according,calculated
R10593 T17182 T17181 prep to,according
R10594 T17183 T17184 det the,formula
R10595 T17184 T17182 pobj formula,to
R10596 T17185 T17184 amod following,formula
R10597 T17186 T17180 punct : ,number
R10598 T17187 T17188 amod phagocytotic,index
R10599 T17188 T17180 nsubj index,number
R10600 T17189 T17180 punct =,number
R10601 T17190 T17180 punct (,number
R10602 T17191 T17180 amod total,number
R10603 T17192 T17180 prep of,number
R10604 T17193 T17194 amod engulfed,cells
R10605 T17194 T17192 pobj cells,of
R10606 T17195 T17196 punct /,number
R10607 T17196 T17180 prep number,number
R10608 T17197 T17196 amod total,number
R10609 T17198 T17196 prep of,number
R10610 T17199 T17200 amod counted,macrophages
R10611 T17200 T17198 pobj macrophages,of
R10612 T17201 T17180 punct ),number
R10613 T17202 T17203 punct ×,number
R10614 T17203 T17180 prep number,number
R10615 T17204 T17203 punct (,number
R10616 T17205 T17203 prep of,number
R10617 T17206 T17205 pobj macrophages,of
R10618 T17207 T17206 acl containing,macrophages
R10619 T17208 T17209 amod engulfed,cells
R10620 T17209 T17207 dobj cells,containing
R10621 T17210 T17211 punct /,number
R10622 T17211 T17203 prep number,number
R10623 T17212 T17211 amod total,number
R10624 T17213 T17211 prep of,number
R10625 T17214 T17215 amod counted,macrophages
R10626 T17215 T17213 pobj macrophages,of
R10627 T17216 T17203 punct ),number
R10628 T17217 T17218 punct ×,100
R10629 T17218 T17180 prep 100,number
R10630 T17219 T17180 punct .,number
R10631 T17221 T17222 det The,experiments
R10632 T17222 T17223 nsubjpass experiments,performed
R10633 T17224 T17223 auxpass were,performed
R10634 T17225 T17226 advmod at,three
R10635 T17226 T17228 nummod three,times
R10636 T17227 T17226 advmod least,three
R10637 T17228 T17223 npadvmod times,performed
R10638 T17229 T17223 punct ", ",performed
R10639 T17230 T17231 det each,time
R10640 T17231 T17223 npadvmod time,performed
R10641 T17232 T17231 prep in,time
R10642 T17233 T17232 pobj triplicate,in
R10643 T17234 T17223 punct ", ",performed
R10644 T17235 T17223 cc and,performed
R10645 T17236 T17237 det the,counting
R10646 T17237 T17238 nsubjpass counting,done
R10647 T17238 T17223 conj done,performed
R10648 T17239 T17238 auxpass was,done
R10649 T17240 T17238 agent by,done
R10650 T17241 T17242 nummod three,investigators
R10651 T17242 T17240 pobj investigators,by
R10652 T17243 T17242 amod different,investigators
R10653 T17244 T17238 punct .,done

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
T16779 41-52 CL:0000235 denotes macrophages
T16780 119-124 CL_GO_EXT:cell denotes cells
T16781 175-184 GO_PATO_EXT:apoptotic_process_or_quality denotes apoptotic
T16782 175-184 _FRAGMENT denotes apoptotic
T16783 192-197 CL:0000445 denotes cells
T16784 192-197 CL_GO_EXT:cell denotes cells
T16785 207-217 CL:0000893 denotes thymocytes
T16786 242-248 UBERON:0002370 denotes thymus
T16787 278-282 NCBITaxon:10088 denotes mice
T16788 297-302 CHEBI:51657 denotes TAMRA
T16789 319-328 GO:0006915 denotes apoptosis
T16790 360-365 CL_GO_EXT:cell denotes cells
T16791 376-389 CHEBI:15738 denotes staurosporine
T16792 432-437 CL_GO_EXT:cell denotes cells
T16793 475-484 GO:0006915 denotes apoptosis
T16794 511-517 UBERON:0002370 denotes thymic
T16795 525-530 CL_GO_EXT:cell denotes cells
T16796 585-590 CL_GO_EXT:cell denotes cells
T16797 624-633 GO_PATO_EXT:apoptotic_process_or_quality denotes apoptotic
T16798 648-650 CHEBI:18303 denotes PS
T16799 660-667 GO:0009986 denotes surface
T16800 693-698 CL_GO_EXT:cell denotes cells
T16801 704-712 GO_PATO_EXT:necrosis_or_necrotic_quality denotes necrotic
T16802 730-734 CHEBI:37926 denotes FITC
T16803 735-744 PR_EXT:000004078 denotes annexin V
T16804 749-765 CHEBI:51240 denotes propidium iodide
T16805 780-789 GO_PATO_EXT:apoptotic_process_or_quality denotes apoptotic
T16806 790-800 CL:0000893 denotes thymocytes
T16807 885-897 GO:0006909 denotes Phagocytosis
T16808 941-944 CHEBI:16526 denotes CO2
T16809 984-1009 GO:0043652 denotes uptake of apoptotic cells
T16810 994-1009 CL:0000445 denotes apoptotic cells
T16811 1004-1009 CL_GO_EXT:cell denotes cells
T16812 1093-1105 GO:0006909 denotes phagocytosed
T16813 1106-1111 CL_GO_EXT:cell denotes cells
T16814 1124-1136 GO:0006909 denotes phagocytosis
T16815 1140-1149 GO_PATO_EXT:apoptotic_process_or_quality denotes apoptotic
T16816 1150-1160 CL:0000893 denotes thymocytes
T16817 1162-1173 CL:0000235 denotes macrophages
T16818 1230-1235 CL_GO_EXT:cell denotes Cells
T16819 1253-1269 CHEBI_EXT:paraformaldehye denotes paraformaldehyde
T16820 1320-1325 PR_EXT:000001813 denotes F4/80
T16821 1326-1334 GO:0042571 denotes antibody
T16822 1369-1377 GO:0042571 denotes antibody
T16823 1378-1385 MOP:0000779 denotes coupled
T16824 1389-1398 CHEBI:52661 denotes Alexa 488
T16825 1400-1409 CHEBI_EXT:polyatomic_entity_or_group denotes Molecular
T16826 1410-1416 CHEBI_SO_EXT:molecular_probe denotes Probes
T16827 1484-1494 CL:0000893 denotes thymocytes
T16828 1557-1569 GO:0006909 denotes phagocytosis
T16829 1610-1621 CL:0000235 denotes macrophages
T16830 1652-1663 CL:0000235 denotes macrophages
T16831 1682-1691 GO_PATO_EXT:apoptotic_process_or_quality denotes apoptotic
T16832 1692-1702 CL:0000893 denotes thymocytes
T16833 1708-1720 GO:0006909 denotes phagocytotic
T16834 1778-1790 GO:0006909 denotes phagocytotic
T16835 1825-1830 CL_GO_EXT:cell denotes cells
T16836 1855-1866 CL:0000235 denotes macrophages
T16837 1881-1892 CL:0000235 denotes macrophages
T16838 1913-1918 CL_GO_EXT:cell denotes cells
T16839 1943-1954 CL:0000235 denotes macrophages
R10275 T16783 T16782 _lexicallyChainedTo cells,apoptotic

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
T16737 41-52 CL:0000235 denotes macrophages
T16738 175-184 _FRAGMENT denotes apoptotic
T16739 192-197 CL:0000445 denotes cells
T16740 207-217 CL:0000893 denotes thymocytes
T16741 242-248 UBERON:0002370 denotes thymus
T16742 278-282 NCBITaxon:10088 denotes mice
T16743 297-302 CHEBI:51657 denotes TAMRA
T16744 319-328 GO:0006915 denotes apoptosis
T16745 376-389 CHEBI:15738 denotes staurosporine
T16746 475-484 GO:0006915 denotes apoptosis
T16747 511-517 UBERON:0002370 denotes thymic
T16748 648-650 CHEBI:18303 denotes PS
T16749 660-667 GO:0009986 denotes surface
T16750 730-734 CHEBI:37926 denotes FITC
T16751 735-744 PR:000004078 denotes annexin V
T16752 749-765 CHEBI:51240 denotes propidium iodide
T16753 790-800 CL:0000893 denotes thymocytes
T16754 885-897 GO:0006909 denotes Phagocytosis
T16755 941-944 CHEBI:16526 denotes CO2
T16756 984-1009 GO:0043652 denotes uptake of apoptotic cells
T16757 994-1009 CL:0000445 denotes apoptotic cells
T16758 1093-1105 GO:0006909 denotes phagocytosed
T16759 1124-1136 GO:0006909 denotes phagocytosis
T16760 1150-1160 CL:0000893 denotes thymocytes
T16761 1162-1173 CL:0000235 denotes macrophages
T16762 1320-1325 PR:000001813 denotes F4/80
T16763 1326-1334 GO:0042571 denotes antibody
T16764 1369-1377 GO:0042571 denotes antibody
T16765 1378-1385 MOP:0000779 denotes coupled
T16766 1389-1398 CHEBI:52661 denotes Alexa 488
T16767 1484-1494 CL:0000893 denotes thymocytes
T16768 1557-1569 GO:0006909 denotes phagocytosis
T16769 1610-1621 CL:0000235 denotes macrophages
T16770 1652-1663 CL:0000235 denotes macrophages
T16771 1692-1702 CL:0000893 denotes thymocytes
T16772 1708-1720 GO:0006909 denotes phagocytotic
T16773 1778-1790 GO:0006909 denotes phagocytotic
T16774 1855-1866 CL:0000235 denotes macrophages
T16775 1881-1892 CL:0000235 denotes macrophages
T16776 1943-1954 CL:0000235 denotes macrophages
R10274 T16739 T16738 _lexicallyChainedTo cells,apoptotic