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PMC:1942070 / 5012-5283 JSONTXT

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pmc-enju-pas

Id Subject Object Predicate Lexical cue
T2369 0-5 RB denotes Hence
T2370 5-6 -COMMA- denotes ,
T2371 7-9 IN denotes in
T2372 10-13 DT denotes the
T2373 14-22 NN denotes presence
T2374 23-25 IN denotes of
T2375 26-37 NN denotes doxycycline
T2376 37-38 -COMMA- denotes ,
T2377 39-48 NN denotes Flag-PKD3
T2378 49-59 NN denotes expression
T2379 60-62 IN denotes in
T2380 63-69 NN denotes PKD1/3
T2381 70-76 JJ denotes double
T2382 77-85 JJ denotes knockout
T2383 86-91 NN denotes cells
T2384 92-94 VB denotes is
T2385 95-105 JJ denotes comparable
T2386 106-108 TO denotes to
T2387 109-119 JJ denotes endogenous
T2388 120-124 NN denotes PKD3
T2389 125-132 JJ denotes present
T2390 133-135 IN denotes in
T2391 136-145 JJ denotes wild-type
T2392 146-150 NN denotes DT40
T2393 151-156 NN denotes cells
T2394 157-160 CC denotes and
T2395 161-168 NN denotes removal
T2396 169-171 IN denotes of
T2397 172-183 NN denotes doxycycline
T2398 184-188 IN denotes from
T2399 189-192 DT denotes the
T2400 193-200 NN denotes culture
T2401 201-206 NN denotes media
T2402 207-210 IN denotes for
T2403 211-212 CD denotes 5
T2404 213-217 NN denotes days
T2405 218-225 VB denotes results
T2406 226-228 IN denotes in
T2407 229-230 DT denotes a
T2408 231-241 RB denotes completely
T2409 242-246 JJ denotes null
T2410 247-250 NN denotes PKD
T2411 251-260 NN denotes phenotype
T2412 261-262 -LRB- denotes (
T2413 262-266 NN denotes Fig.
T2414 267-269 NN denotes 1A
T2415 269-270 -RRB- denotes )
R1966 T2373 T2371 arg2Of presence,in
R1967 T2373 T2372 arg1Of presence,the
R1968 T2373 T2374 arg1Of presence,of
R1969 T2375 T2374 arg2Of doxycycline,of
R1970 T2378 T2377 arg1Of expression,Flag-PKD3
R1971 T2378 T2379 arg1Of expression,in
R1972 T2378 T2384 arg1Of expression,is
R1973 T2378 T2385 arg1Of expression,comparable
R1974 T2383 T2379 arg2Of cells,in
R1975 T2383 T2380 arg1Of cells,PKD1/3
R1976 T2383 T2381 arg1Of cells,double
R1977 T2383 T2382 arg1Of cells,knockout
R1978 T2384 T2394 arg1Of is,and
R1979 T2385 T2384 arg2Of comparable,is
R1980 T2385 T2386 arg1Of comparable,to
R1981 T2385 T2390 arg1Of comparable,in
R1982 T2388 T2386 arg2Of PKD3,to
R1983 T2388 T2387 arg1Of PKD3,endogenous
R1984 T2388 T2389 arg1Of PKD3,present
R1985 T2393 T2390 arg2Of cells,in
R1986 T2393 T2391 arg1Of cells,wild-type
R1987 T2393 T2392 arg1Of cells,DT40
R1988 T2394 T2369 arg1Of and,Hence
R1989 T2394 T2370 arg1Of and,","
R1990 T2394 T2371 arg1Of and,in
R1991 T2394 T2376 arg1Of and,","
R1992 T2395 T2396 arg1Of removal,of
R1993 T2395 T2405 arg1Of removal,results
R1994 T2397 T2396 arg2Of doxycycline,of
R1995 T2397 T2398 arg1Of doxycycline,from
R1996 T2397 T2402 arg1Of doxycycline,for
R1997 T2401 T2398 arg2Of media,from
R1998 T2401 T2399 arg1Of media,the
R1999 T2401 T2400 arg1Of media,culture
R2000 T2404 T2402 arg2Of days,for
R2001 T2404 T2403 arg1Of days,5
R2002 T2405 T2394 arg2Of results,and
R2003 T2405 T2406 arg1Of results,in
R2004 T2409 T2408 arg1Of null,completely
R2005 T2411 T2406 arg2Of phenotype,in
R2006 T2411 T2407 arg1Of phenotype,a
R2007 T2411 T2409 arg1Of phenotype,null
R2008 T2411 T2410 arg1Of phenotype,PKD
R2009 T2411 T2412 arg1Of phenotype,(
R2010 T2414 T2412 arg2Of 1A,(
R2011 T2414 T2413 arg1Of 1A,Fig.
R2012 T2415 T2412 arg3Of ),(

bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T2817 0-5 RB denotes Hence
T2818 5-6 , denotes ,
T2819 7-9 IN denotes in
T2820 10-13 DT denotes the
T2821 14-22 NN denotes presence
T2822 23-25 IN denotes of
T2823 26-37 NN denotes doxycycline
T2824 37-38 , denotes ,
T2825 39-48 NN denotes Flag-PKD3
T2826 49-59 NN denotes expression
T2827 60-62 IN denotes in
T2828 63-69 CD denotes PKD1/3
T2829 70-76 JJ denotes double
T2830 77-85 NN denotes knockout
T2831 86-91 NNS denotes cells
T2832 92-94 VBZ denotes is
T2833 95-105 JJ denotes comparable
T2834 106-108 TO denotes to
T2835 109-119 JJ denotes endogenous
T2836 120-124 JJ denotes PKD3
T2837 125-132 NN denotes present
T2838 133-135 IN denotes in
T2839 136-145 JJ denotes wild-type
T2840 146-150 NNP denotes DT40
T2841 151-156 NNS denotes cells
T2842 157-160 CC denotes and
T2843 161-168 NN denotes removal
T2844 169-171 IN denotes of
T2845 172-183 NN denotes doxycycline
T2846 184-188 IN denotes from
T2847 189-192 DT denotes the
T2848 193-200 NN denotes culture
T2849 201-206 NNS denotes media
T2850 207-210 IN denotes for
T2851 211-212 CD denotes 5
T2852 213-217 NNS denotes days
T2853 218-225 NNS denotes results
T2854 226-228 IN denotes in
T2855 229-230 DT denotes a
T2856 231-241 RB denotes completely
T2857 242-246 JJ denotes null
T2858 247-250 NNP denotes PKD
T2859 251-260 NN denotes phenotype
T2860 261-262 -LRB- denotes (
T2861 262-266 NNP denotes Fig.
T2862 267-269 NNP denotes 1A
T2863 269-270 -RRB- denotes )
T2864 270-271 . denotes .
R2366 T2817 T2832 advmod Hence,is
R2367 T2818 T2832 punct ",",is
R2368 T2819 T2826 nmod in,expression
R2369 T2820 T2821 det the,presence
R2370 T2821 T2819 pobj presence,in
R2371 T2822 T2821 prep of,presence
R2372 T2823 T2822 pobj doxycycline,of
R2373 T2824 T2821 punct ",",presence
R2374 T2825 T2826 compound Flag-PKD3,expression
R2375 T2826 T2832 nsubj expression,is
R2376 T2827 T2826 prep in,expression
R2377 T2828 T2831 nummod PKD1/3,cells
R2378 T2829 T2831 amod double,cells
R2379 T2830 T2831 compound knockout,cells
R2380 T2831 T2827 pobj cells,in
R2381 T2832 T2832 ROOT is,is
R2382 T2833 T2832 acomp comparable,is
R2383 T2834 T2833 prep to,comparable
R2384 T2835 T2837 amod endogenous,present
R2385 T2836 T2837 amod PKD3,present
R2386 T2837 T2834 pobj present,to
R2387 T2838 T2837 prep in,present
R2388 T2839 T2841 amod wild-type,cells
R2389 T2840 T2841 compound DT40,cells
R2390 T2841 T2838 pobj cells,in
R2391 T2842 T2837 cc and,present
R2392 T2843 T2837 conj removal,present
R2393 T2844 T2843 prep of,removal
R2394 T2845 T2844 pobj doxycycline,of
R2395 T2846 T2843 prep from,removal
R2396 T2847 T2849 det the,media
R2397 T2848 T2849 compound culture,media
R2398 T2849 T2846 pobj media,from
R2399 T2850 T2832 prep for,is
R2400 T2851 T2852 nummod 5,days
R2401 T2852 T2853 compound days,results
R2402 T2853 T2850 pobj results,for
R2403 T2854 T2853 prep in,results
R2404 T2855 T2859 det a,phenotype
R2405 T2856 T2857 advmod completely,null
R2406 T2857 T2859 amod null,phenotype
R2407 T2858 T2859 compound PKD,phenotype
R2408 T2859 T2854 pobj phenotype,in
R2409 T2860 T2862 punct (,1A
R2410 T2861 T2862 compound Fig.,1A
R2411 T2862 T2859 appos 1A,phenotype
R2412 T2863 T2862 punct ),1A
R2413 T2864 T2832 punct .,is

GO-CC

Id Subject Object Predicate Lexical cue
T3139 86-91 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T3140 151-156 http://purl.obolibrary.org/obo/GO_0005623 denotes cells

sentences

Id Subject Object Predicate Lexical cue
T2262 0-271 Sentence denotes Hence, in the presence of doxycycline, Flag-PKD3 expression in PKD1/3 double knockout cells is comparable to endogenous PKD3 present in wild-type DT40 cells and removal of doxycycline from the culture media for 5 days results in a completely null PKD phenotype (Fig. 1A).
T40 0-271 Sentence denotes Hence, in the presence of doxycycline, Flag-PKD3 expression in PKD1/3 double knockout cells is comparable to endogenous PKD3 present in wild-type DT40 cells and removal of doxycycline from the culture media for 5 days results in a completely null PKD phenotype (Fig. 1A).

events-check-again

Id Subject Object Predicate Lexical cue
T3563 120-124 Protein denotes PKD3
T3557 44-48 Protein denotes PKD3
T3558 49-59 Gene_expression denotes expression
T3559 63-67 Protein denotes PKD1
T3560 68-69 Protein denotes 3
T3561 70-85 Negative_regulation denotes double knockout
T3562 70-85 Negative_regulation denotes double knockout
R2939 T3557 T3558 themeOf PKD3,expression
R2940 T3559 T3562 themeOf PKD1,double knockout
R2943 T3560 T3561 themeOf 3,double knockout

bionlp-st-ge-2016-reference-tees

Id Subject Object Predicate Lexical cue
T3648 39-43 Protein denotes Flag
T3649 44-48 Protein denotes PKD3
T3650 63-69 Protein denotes PKD1/3
T3651 120-124 Protein denotes PKD3
T3652 49-59 Gene_expression denotes expression
T3653 49-59 Gene_expression denotes expression
R2995 T3648 T3652 themeOf Flag,expression
R2999 T3649 T3653 themeOf PKD3,expression

bionlp-st-ge-2016-reference

Id Subject Object Predicate Lexical cue
T2194 44-48 Protein denotes PKD3
T2195 49-59 Gene_expression denotes expression
T2196 63-67 Protein denotes PKD1
T2197 68-69 Protein denotes 3
T2198 70-85 Negative_regulation denotes double knockout
T2199 70-85 Negative_regulation denotes double knockout
T2200 120-124 Protein denotes PKD3
R1844 T2194 T2195 themeOf PKD3,expression
R1845 T2196 T2199 themeOf PKD1,double knockout
R1846 T2197 T2198 themeOf 3,double knockout

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T2684 44-48 Q99853 denotes PKD3
T2685 63-67 P98161 denotes PKD1
T2686 120-124 Q99853 denotes PKD3

test2

Id Subject Object Predicate Lexical cue Speculation
T2116 44-48 Protein denotes PKD3
T2117 49-59 Gene_expression denotes expression true
T2118 63-67 Protein denotes PKD1
T2119 68-69 Protein denotes 3
T2120 77-85 Negative_regulation denotes knockout
T2121 120-124 Protein denotes PKD3
R1797 T2116 T2117 themeOf PKD3,expression
R1798 T2118 T2120 themeOf PKD1,knockout