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PMC:3589482 / 6809-7109 JSONTXT

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bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T3794 299-300 . denotes .
T3793 298-299 -RRB- denotes )
T3792 288-298 NNPS denotes Biosystems
T3791 280-287 NNP denotes Applied
T3790 279-280 -LRB- denotes (
T3789 277-278 -RRB- denotes )
T3788 264-277 NNP denotes Mm00607939_s1
T3787 263-264 -LRB- denotes (
T3786 255-262 JJ denotes β-actin
T3785 251-254 CC denotes and
T3784 249-250 -RRB- denotes )
T3783 236-249 NNP denotes Mm00843434_s1
T3782 235-236 -LRB- denotes (
T3781 229-234 NNP denotes Cebpb
T3780 227-228 , denotes ,
T3779 226-227 -RRB- denotes )
T3778 213-226 NNP denotes Mm00440905_m1
T3777 212-213 -LRB- denotes (
T3776 194-211 NNP denotes Serpinb2/SerpinB2
T3775 190-193 IN denotes for
T3774 182-189 NNS denotes primers
T3773 178-181 NNP denotes 20X
T3772 167-177 NNP denotes Expression
T3771 162-166 NNP denotes Gene
T3770 160-161 NNP denotes ®
T3769 154-160 NNP denotes TaqMan
T3768 148-153 VBG denotes using
T3767 138-147 VBN denotes performed
T3766 134-137 VBD denotes was
T3765 129-133 NNP denotes qPCR
T3764 127-128 . denotes .
T3763 126-127 -RRB- denotes )
T3762 116-126 NNPS denotes Biosystems
T3761 108-115 NNP denotes Applied
T3760 107-108 -LRB- denotes (
T3759 98-106 NNP denotes Reagents
T3758 84-97 NNP denotes Transcription
T3757 76-83 VB denotes Reverse
T3756 74-75 NNP denotes ®
T3755 68-74 NNP denotes TaqMan
T3754 62-67 VBG denotes using
T3753 50-61 VBN denotes transcribed
T3752 42-49 JJ denotes reverse
T3751 38-41 VBD denotes was
T3750 34-37 NNP denotes RNA
T3749 28-33 JJ denotes total
T3748 25-27 IN denotes of
T3747 22-24 NN denotes µg
T3746 20-21 CD denotes 1
T3745 18-19 , denotes ,
T3744 9-18 NN denotes synthesis
T3743 4-8 NNP denotes cDNA
T3742 0-3 IN denotes For
R2721 T3742 T3751 prep For,was
R2722 T3743 T3744 compound cDNA,synthesis
R2723 T3744 T3742 pobj synthesis,For
R2724 T3745 T3751 punct ",",was
R2725 T3746 T3747 nummod 1,µg
R2726 T3747 T3751 nsubj µg,was
R2727 T3748 T3747 prep of,µg
R2728 T3749 T3750 amod total,RNA
R2729 T3750 T3748 pobj RNA,of
R2730 T3751 T3751 ROOT was,was
R2731 T3752 T3753 advmod reverse,transcribed
R2732 T3753 T3751 conj transcribed,was
R2733 T3754 T3753 advcl using,transcribed
R2734 T3755 T3756 compound TaqMan,®
R2735 T3756 T3757 nsubj ®,Reverse
R2736 T3757 T3754 xcomp Reverse,using
R2737 T3758 T3759 compound Transcription,Reagents
R2738 T3759 T3757 dobj Reagents,Reverse
R2739 T3760 T3762 punct (,Biosystems
R2740 T3761 T3762 compound Applied,Biosystems
R2741 T3762 T3759 appos Biosystems,Reagents
R2742 T3763 T3762 punct ),Biosystems
R2743 T3764 T3757 punct .,Reverse
R2744 T3765 T3767 nsubjpass qPCR,performed
R2745 T3766 T3767 auxpass was,performed
R2746 T3767 T3767 ROOT performed,performed
R2747 T3768 T3767 advcl using,performed
R2748 T3769 T3773 compound TaqMan,20X
R2749 T3770 T3773 compound ®,20X
R2750 T3771 T3773 compound Gene,20X
R2751 T3772 T3773 compound Expression,20X
R2752 T3773 T3774 compound 20X,primers
R2753 T3774 T3768 dobj primers,using
R2754 T3775 T3768 prep for,using
R2755 T3776 T3775 pobj Serpinb2/SerpinB2,for
R2756 T3777 T3778 punct (,Mm00440905_m1
R2757 T3778 T3776 appos Mm00440905_m1,Serpinb2/SerpinB2
R2758 T3779 T3776 punct ),Serpinb2/SerpinB2
R2759 T3780 T3776 punct ",",Serpinb2/SerpinB2
R2760 T3781 T3776 conj Cebpb,Serpinb2/SerpinB2
R2761 T3782 T3783 punct (,Mm00843434_s1
R2762 T3783 T3781 appos Mm00843434_s1,Cebpb
R2763 T3784 T3783 punct ),Mm00843434_s1
R2764 T3785 T3781 cc and,Cebpb
R2765 T3786 T3781 conj β-actin,Cebpb
R2766 T3787 T3786 punct (,β-actin
R2767 T3788 T3786 appos Mm00607939_s1,β-actin
R2768 T3789 T3786 punct ),β-actin
R2769 T3790 T3792 punct (,Biosystems
R2770 T3791 T3792 compound Applied,Biosystems
R2771 T3792 T3786 appos Biosystems,β-actin
R2772 T3793 T3767 punct ),performed
R2773 T3794 T3767 punct .,performed

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T3673 280-281 -RRB- denotes A
T3672 270-280 NNP denotes 7939_s1) (
T3671 263-270 NNP denotes (Mm0060
T3670 261-262 -LRB- denotes n
T3669 260-261 -RRB- denotes i
T3668 247-260 NN denotes s1) and β-act
T3667 246-247 -LRB- denotes _
T3666 239-246 NN denotes 0843434
T3665 236-239 CC denotes Mm0
T3664 235-236 -RRB- denotes (
T3663 221-234 NN denotes 05_m1), Cebpb
T3662 220-221 -LRB- denotes 9
T3661 215-220 NN denotes 00440
T3660 214-215 -COMMA- denotes m
T3659 213-214 -RRB- denotes M
T3658 200-213 NN denotes b2/SerpinB2 (
T3657 199-200 -LRB- denotes n
T3656 182-199 NN denotes primers for Serpi
T3655 179-182 IN denotes 0X
T3654 172-179 NN denotes ssion 2
T3653 169-172 NN denotes pre
T3652 159-169 NN denotes n® Gene Ex
T3651 155-159 NNP denotes aqMa
T3650 148-155 NNP denotes using T
T3649 143-148 VB denotes rmed
T3648 134-143 VB denotes was perfo
T3647 131-134 VB denotes CR
T3646 127-131 NN denotes . qP
T3645 126-127 -RRB- denotes )
T3644 116-126 NNP denotes Biosystems
T3643 108-115 NNP denotes Applied
T3642 107-108 -LRB- denotes (
T3641 98-106 NN denotes Reagents
T3640 84-97 NN denotes Transcription
T3639 76-83 NNP denotes Reverse
T3638 68-75 NNP denotes TaqMan®
T3637 62-67 VB denotes using
T3636 50-61 VB denotes transcribed
T3635 42-49 RB denotes reverse
T3634 38-41 VB denotes was
T3633 34-37 NN denotes RNA
T3632 28-33 JJ denotes total
T3631 25-27 IN denotes of
T3630 22-24 NN denotes µg
T3629 20-21 CD denotes 1
T3628 18-19 -COMMA- denotes ,
T3627 9-18 NN denotes synthesis
T3626 4-8 NN denotes cDNA
T3625 0-3 IN denotes For
R2643 T3627 T3625 arg2Of synthesis,For
R2644 T3627 T3626 arg1Of synthesis,cDNA
R2645 T3630 T3629 arg1Of µg,1
R2646 T3630 T3631 arg1Of µg,of
R2647 T3630 T3634 arg1Of µg,was
R2648 T3630 T3636 arg2Of µg,transcribed
R2649 T3630 T3637 arg1Of µg,using
R2650 T3633 T3631 arg2Of RNA,of
R2651 T3633 T3632 arg1Of RNA,total
R2652 T3636 T3625 arg1Of transcribed,For
R2653 T3636 T3628 arg1Of transcribed,","
R2654 T3636 T3634 arg2Of transcribed,was
R2655 T3636 T3635 arg1Of transcribed,reverse
R2656 T3636 T3637 modOf transcribed,using
R2657 T3639 T3638 arg1Of Reverse,TaqMan®
R2658 T3641 T3637 arg2Of Reagents,using
R2659 T3641 T3639 arg1Of Reagents,Reverse
R2660 T3641 T3640 arg1Of Reagents,Transcription
R2661 T3641 T3642 arg1Of Reagents,(
R2662 T3641 T3647 modOf Reagents,CR
R2663 T3644 T3642 arg2Of Biosystems,(
R2664 T3644 T3643 arg1Of Biosystems,Applied
R2665 T3645 T3642 arg3Of ),(
R2666 T3646 T3647 arg1Of . qP,CR
R2667 T3646 T3648 arg2Of . qP,was perfo
R2668 T3648 T3647 arg2Of was perfo,CR
R2669 T3649 T3648 arg3Of rmed ,was perfo
R2670 T3651 T3650 arg1Of aqMa,using T
R2671 T3654 T3649 arg2Of ssion 2,rmed
R2672 T3654 T3651 arg1Of ssion 2,aqMa
R2673 T3654 T3652 arg1Of ssion 2,n® Gene Ex
R2674 T3654 T3653 arg1Of ssion 2,pre
R2675 T3654 T3655 arg1Of ssion 2,0X
R2676 T3654 T3670 arg1Of ssion 2,n
R2677 T3656 T3657 arg1Of primers for Serpi,n
R2678 T3656 T3660 arg1Of primers for Serpi,m
R2679 T3658 T3657 arg2Of b2/SerpinB2 (,n
R2680 T3659 T3657 arg3Of M,n
R2681 T3660 T3665 arg1Of m,Mm0
R2682 T3661 T3660 arg2Of 00440,m
R2683 T3661 T3662 arg1Of 00440,9
R2684 T3663 T3662 arg2Of "05_m1), Cebpb",9
R2685 T3664 T3662 arg3Of (,9
R2686 T3665 T3655 arg2Of Mm0,0X
R2687 T3666 T3665 arg2Of 0843434,Mm0
R2688 T3666 T3667 arg1Of 0843434,_
R2689 T3668 T3667 arg2Of s1) and β-act,_
R2690 T3669 T3667 arg3Of i,_
R2691 T3672 T3670 arg2Of 7939_s1) (,n
R2692 T3672 T3671 arg1Of 7939_s1) (,(Mm0060
R2693 T3673 T3670 arg3Of A,n

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T3590 255-262 Protein denotes β-actin
T3589 229-234 Protein denotes Cebpb
T3588 203-211 Protein denotes SerpinB2
T3587 194-202 Protein denotes Serpinb2

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T3680 255-262 http://www.uniprot.org/uniprot/P60709 denotes β-actin
T3679 229-234 http://www.uniprot.org/uniprot/P28033 denotes Cebpb

GO-BP

Id Subject Object Predicate Lexical cue
T3594 162-177 http://purl.obolibrary.org/obo/GO_0010467 denotes Gene Expression
T3593 84-97 http://purl.obolibrary.org/obo/GO_0006351 denotes Transcription
T3592 76-97 http://purl.obolibrary.org/obo/GO_0001171 denotes Reverse Transcription
T3591 9-18 http://purl.obolibrary.org/obo/GO_0009058 denotes synthesis

sentences

Id Subject Object Predicate Lexical cue
T3582 0-300 Sentence denotes For cDNA synthesis, 1 µg of total RNA was reverse transcribed using TaqMan® Reverse Transcription Reagents (Applied Biosystems). qPCR was performed using TaqMan® Gene Expression 20X primers for Serpinb2/SerpinB2 (Mm00440905_m1), Cebpb (Mm00843434_s1) and β-actin (Mm00607939_s1) (Applied Biosystems).
T44 0-300 Sentence denotes For cDNA synthesis, 1 µg of total RNA was reverse transcribed using TaqMan® Reverse Transcription Reagents (Applied Biosystems). qPCR was performed using TaqMan® Gene Expression 20X primers for Serpinb2/SerpinB2 (Mm00440905_m1), Cebpb (Mm00843434_s1) and β-actin (Mm00607939_s1) (Applied Biosystems).

simple1

Id Subject Object Predicate Lexical cue
T3603 255-262 Protein denotes β-actin
T3602 229-234 Protein denotes Cebpb
T3601 203-211 Protein denotes SerpinB2
T3600 194-202 Protein denotes Serpinb2

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T3678 167-177 Gene_expression denotes Expression
T3677 255-262 Protein denotes β-actin
T3676 229-234 Protein denotes Cebpb
T3675 203-211 Protein denotes SerpinB2
T3674 194-202 Protein denotes Serpinb2
R2694 T3674 T3678 themeOf Serpinb2,Expression
R2695 T3675 T3678 themeOf SerpinB2,Expression
R2696 T3676 T3678 themeOf Cebpb,Expression
R2697 T3677 T3678 themeOf β-actin,Expression

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T3692 255-262 Protein denotes β-actin
T3691 229-234 Protein denotes Cebpb
T3690 203-211 Protein denotes SerpinB2
T3689 194-202 Protein denotes Serpinb2

DLUT931

Id Subject Object Predicate Lexical cue
T3684 255-262 Protein denotes β-actin
T3683 229-234 Protein denotes Cebpb
T3682 203-211 Protein denotes SerpinB2
T3681 194-202 Protein denotes Serpinb2

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T3719 154-189 Gene_expression denotes TaqMan® Gene Expression 20X primers
T3717 28-37 Protein denotes total RNA
T3713 229-250 Protein denotes Cebpb (Mm00843434_s1)
T3711 255-278 Protein denotes β-actin (Mm00607939_s1)
T3710 154-166 Protein denotes TaqMan® Gene
T3709 68-127 Entity denotes TaqMan® Reverse Transcription Reagents (Applied Biosystems)
T3708 4-18 Entity denotes cDNA synthesis
T3707 194-228 Protein denotes Serpinb2/SerpinB2 (Mm00440905_m1),
R2698 T3710 T3719 themeOf TaqMan® Gene,TaqMan® Gene Expression 20X primers

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T3699 264-277 Protein denotes Mm00607939_s1
T3698 255-262 Protein denotes β-actin
T3697 236-249 Protein denotes Mm00843434_s1
T3696 229-234 Protein denotes Cebpb
T3695 213-226 Protein denotes Mm00440905_m1
T3694 203-211 Protein denotes SerpinB2
T3693 194-202 Protein denotes Serpinb2

testone

Id Subject Object Predicate Lexical cue
T3571 255-262 Protein denotes β-actin
T3570 229-234 Protein denotes Cebpb
T3569 203-211 Protein denotes SerpinB2
T3568 194-202 Protein denotes Serpinb2

test3

Id Subject Object Predicate Lexical cue
T3579 255-262 Protein denotes β-actin
T3578 229-234 Protein denotes Cebpb
T3577 203-211 Protein denotes SerpinB2
T3576 194-202 Protein denotes Serpinb2
T3575 255-262 Protein denotes β-actin
T3574 229-234 Protein denotes Cebpb
T3573 203-211 Protein denotes SerpinB2
T3572 194-202 Protein denotes Serpinb2