Id |
Subject |
Object |
Predicate |
Lexical cue |
T9559 |
0-2 |
TO |
denotes |
To |
T9560 |
3-11 |
VB |
denotes |
identify |
T9561 |
75-83 |
VBD |
denotes |
detected |
T9562 |
12-15 |
DT |
denotes |
the |
T9563 |
58-63 |
NNS |
denotes |
genes |
T9564 |
16-23 |
NN |
denotes |
disease |
T9565 |
24-32 |
JJ |
denotes |
specific |
T9566 |
23-24 |
HYPH |
denotes |
- |
T9567 |
33-47 |
RB |
denotes |
differentially |
T9568 |
48-57 |
VBN |
denotes |
expressed |
T9569 |
64-66 |
IN |
denotes |
in |
T9570 |
67-70 |
NN |
denotes |
CIA |
T9571 |
70-72 |
, |
denotes |
, |
T9572 |
72-74 |
PRP |
denotes |
we |
T9573 |
84-87 |
DT |
denotes |
the |
T9574 |
88-93 |
NNS |
denotes |
genes |
T9575 |
94-98 |
WDT |
denotes |
that |
T9576 |
119-128 |
VBN |
denotes |
expressed |
T9577 |
99-103 |
VBD |
denotes |
were |
T9578 |
104-118 |
RB |
denotes |
differentially |
T9579 |
129-131 |
IN |
denotes |
in |
T9580 |
132-135 |
NNS |
denotes |
LNs |
T9581 |
136-142 |
IN |
denotes |
during |
T9582 |
143-146 |
NN |
denotes |
CIA |
T9583 |
147-149 |
IN |
denotes |
in |
T9584 |
150-153 |
DT |
denotes |
the |
T9585 |
166-172 |
NN |
denotes |
strain |
T9586 |
154-165 |
JJ |
denotes |
susceptible |
T9587 |
172-173 |
. |
denotes |
. |
T9588 |
173-252 |
sentence |
denotes |
Three experimental conditions, PI, OA and CA, were compared with the NC group. |
T9589 |
174-179 |
CD |
denotes |
Three |
T9590 |
193-203 |
NNS |
denotes |
conditions |
T9591 |
180-192 |
JJ |
denotes |
experimental |
T9592 |
225-233 |
VBN |
denotes |
compared |
T9593 |
203-205 |
, |
denotes |
, |
T9594 |
205-207 |
NN |
denotes |
PI |
T9595 |
207-209 |
, |
denotes |
, |
T9596 |
209-211 |
NN |
denotes |
OA |
T9597 |
212-215 |
CC |
denotes |
and |
T9598 |
216-218 |
NN |
denotes |
CA |
T9599 |
218-220 |
, |
denotes |
, |
T9600 |
220-224 |
VBD |
denotes |
were |
T9601 |
234-238 |
IN |
denotes |
with |
T9602 |
239-242 |
DT |
denotes |
the |
T9603 |
246-251 |
NN |
denotes |
group |
T9604 |
243-245 |
NN |
denotes |
NC |
T9605 |
251-252 |
. |
denotes |
. |
T9606 |
252-458 |
sentence |
denotes |
On day 10 after immunisation, 102 genes were differentially expressed – most of them were upregulated (78 out of 102) – while at the onset phase of the disease, only 26 genes were differentially expressed. |
T9607 |
253-255 |
IN |
denotes |
On |
T9608 |
343-354 |
VBN |
denotes |
upregulated |
T9609 |
256-259 |
NN |
denotes |
day |
T9610 |
260-262 |
CD |
denotes |
10 |
T9611 |
263-268 |
IN |
denotes |
after |
T9612 |
269-281 |
NN |
denotes |
immunisation |
T9613 |
281-283 |
, |
denotes |
, |
T9614 |
283-286 |
CD |
denotes |
102 |
T9615 |
287-292 |
NNS |
denotes |
genes |
T9616 |
313-322 |
VBN |
denotes |
expressed |
T9617 |
293-297 |
VBD |
denotes |
were |
T9618 |
298-312 |
RB |
denotes |
differentially |
T9619 |
323-324 |
, |
denotes |
– |
T9620 |
325-329 |
JJS |
denotes |
most |
T9621 |
330-332 |
IN |
denotes |
of |
T9622 |
333-337 |
PRP |
denotes |
them |
T9623 |
338-342 |
VBD |
denotes |
were |
T9624 |
355-356 |
-LRB- |
denotes |
( |
T9625 |
366-369 |
CD |
denotes |
102 |
T9626 |
356-358 |
CD |
denotes |
78 |
T9627 |
359-362 |
IN |
denotes |
out |
T9628 |
363-365 |
IN |
denotes |
of |
T9629 |
369-370 |
-RRB- |
denotes |
) |
T9630 |
371-372 |
, |
denotes |
– |
T9631 |
373-378 |
IN |
denotes |
while |
T9632 |
448-457 |
VBN |
denotes |
expressed |
T9633 |
379-381 |
IN |
denotes |
at |
T9634 |
382-385 |
DT |
denotes |
the |
T9635 |
392-397 |
NN |
denotes |
phase |
T9636 |
386-391 |
NN |
denotes |
onset |
T9637 |
398-400 |
IN |
denotes |
of |
T9638 |
401-404 |
DT |
denotes |
the |
T9639 |
405-412 |
NN |
denotes |
disease |
T9640 |
412-414 |
, |
denotes |
, |
T9641 |
414-418 |
RB |
denotes |
only |
T9642 |
422-427 |
NNS |
denotes |
genes |
T9643 |
419-421 |
CD |
denotes |
26 |
T9644 |
428-432 |
VBD |
denotes |
were |
T9645 |
433-447 |
RB |
denotes |
differentially |
T9646 |
457-458 |
. |
denotes |
. |
T9647 |
458-577 |
sentence |
denotes |
At the chronic phase of the disease, 184 differentially expressed genes were identified, with 156 downregulated genes. |
T9648 |
459-461 |
IN |
denotes |
At |
T9649 |
536-546 |
VBN |
denotes |
identified |
T9650 |
462-465 |
DT |
denotes |
the |
T9651 |
474-479 |
NN |
denotes |
phase |
T9652 |
466-473 |
JJ |
denotes |
chronic |
T9653 |
480-482 |
IN |
denotes |
of |
T9654 |
483-486 |
DT |
denotes |
the |
T9655 |
487-494 |
NN |
denotes |
disease |
T9656 |
494-496 |
, |
denotes |
, |
T9657 |
496-499 |
CD |
denotes |
184 |
T9658 |
525-530 |
NNS |
denotes |
genes |
T9659 |
500-514 |
RB |
denotes |
differentially |
T9660 |
515-524 |
VBN |
denotes |
expressed |
T9661 |
531-535 |
VBD |
denotes |
were |
T9662 |
546-548 |
, |
denotes |
, |
T9663 |
548-552 |
IN |
denotes |
with |
T9664 |
553-556 |
CD |
denotes |
156 |
T9665 |
571-576 |
NNS |
denotes |
genes |
T9666 |
557-570 |
VBN |
denotes |
downregulated |
T9667 |
576-577 |
. |
denotes |
. |
T9668 |
577-648 |
sentence |
denotes |
Only one gene was differentially expressed at all three phases of CIA. |
T9669 |
578-582 |
RB |
denotes |
Only |
T9670 |
587-591 |
NN |
denotes |
gene |
T9671 |
583-586 |
CD |
denotes |
one |
T9672 |
611-620 |
VBN |
denotes |
expressed |
T9673 |
592-595 |
VBD |
denotes |
was |
T9674 |
596-610 |
RB |
denotes |
differentially |
T9675 |
621-623 |
IN |
denotes |
at |
T9676 |
624-627 |
DT |
denotes |
all |
T9677 |
634-640 |
NNS |
denotes |
phases |
T9678 |
628-633 |
CD |
denotes |
three |
T9679 |
641-643 |
IN |
denotes |
of |
T9680 |
644-647 |
NN |
denotes |
CIA |
T9681 |
647-648 |
. |
denotes |
. |
T9682 |
648-796 |
sentence |
denotes |
Besides this gene, five, one and six differentially expressed genes were shared by PI with OA, PI with CA and OA with CA, respectively (Figure 2a). |
T9683 |
649-656 |
IN |
denotes |
Besides |
T9684 |
722-728 |
VBN |
denotes |
shared |
T9685 |
657-661 |
DT |
denotes |
this |
T9686 |
662-666 |
NN |
denotes |
gene |
T9687 |
666-668 |
, |
denotes |
, |
T9688 |
668-672 |
CD |
denotes |
five |
T9689 |
711-716 |
NNS |
denotes |
genes |
T9690 |
672-674 |
, |
denotes |
, |
T9691 |
674-677 |
CD |
denotes |
one |
T9692 |
678-681 |
CC |
denotes |
and |
T9693 |
682-685 |
CD |
denotes |
six |
T9694 |
686-700 |
RB |
denotes |
differentially |
T9695 |
701-710 |
VBN |
denotes |
expressed |
T9696 |
717-721 |
VBD |
denotes |
were |
T9697 |
729-731 |
IN |
denotes |
by |
T9698 |
732-734 |
NN |
denotes |
PI |
T9699 |
735-739 |
IN |
denotes |
with |
T9700 |
740-742 |
NN |
denotes |
OA |
T9701 |
742-744 |
, |
denotes |
, |
T9702 |
744-746 |
NN |
denotes |
PI |
T9703 |
747-751 |
IN |
denotes |
with |
T9704 |
752-754 |
NN |
denotes |
CA |
T9705 |
755-758 |
CC |
denotes |
and |
T9706 |
759-761 |
NN |
denotes |
OA |
T9707 |
762-766 |
IN |
denotes |
with |
T9708 |
767-769 |
NN |
denotes |
CA |
T9709 |
769-771 |
, |
denotes |
, |
T9710 |
771-783 |
RB |
denotes |
respectively |
T9711 |
784-785 |
-LRB- |
denotes |
( |
T9712 |
792-794 |
NN |
denotes |
2a |
T9713 |
785-791 |
NN |
denotes |
Figure |
T9714 |
794-795 |
-RRB- |
denotes |
) |
T9715 |
795-796 |
. |
denotes |
. |
T9716 |
796-940 |
sentence |
denotes |
Taken together, 310 disease-specific differentially expressed genes were differentially regulated during CIA in DBA/1 mice (Additional file 2). |
T9717 |
797-802 |
VBN |
denotes |
Taken |
T9718 |
885-894 |
VBN |
denotes |
regulated |
T9719 |
803-811 |
RB |
denotes |
together |
T9720 |
811-813 |
, |
denotes |
, |
T9721 |
813-816 |
CD |
denotes |
310 |
T9722 |
859-864 |
NNS |
denotes |
genes |
T9723 |
817-824 |
NN |
denotes |
disease |
T9724 |
825-833 |
JJ |
denotes |
specific |
T9725 |
824-825 |
HYPH |
denotes |
- |
T9726 |
834-848 |
RB |
denotes |
differentially |
T9727 |
849-858 |
VBN |
denotes |
expressed |
T9728 |
865-869 |
VBD |
denotes |
were |
T9729 |
870-884 |
RB |
denotes |
differentially |
T9730 |
895-901 |
IN |
denotes |
during |
T9731 |
902-905 |
NN |
denotes |
CIA |
T9732 |
906-908 |
IN |
denotes |
in |
T9733 |
909-912 |
NN |
denotes |
DBA |
T9734 |
915-919 |
NNS |
denotes |
mice |
T9735 |
912-913 |
HYPH |
denotes |
/ |
T9736 |
913-914 |
CD |
denotes |
1 |
T9737 |
920-921 |
-LRB- |
denotes |
( |
T9738 |
932-936 |
NN |
denotes |
file |
T9739 |
921-931 |
JJ |
denotes |
Additional |
T9740 |
937-938 |
CD |
denotes |
2 |
T9741 |
938-939 |
-RRB- |
denotes |
) |
T9742 |
939-940 |
. |
denotes |
. |
R2729 |
T9559 |
T9560 |
aux |
To,identify |
R2730 |
T9560 |
T9561 |
advcl |
identify,detected |
R2731 |
T9562 |
T9563 |
det |
the,genes |
R2732 |
T9563 |
T9560 |
dobj |
genes,identify |
R2733 |
T9564 |
T9565 |
npadvmod |
disease,specific |
R2734 |
T9565 |
T9563 |
amod |
specific,genes |
R2735 |
T9566 |
T9565 |
punct |
-,specific |
R2736 |
T9567 |
T9568 |
advmod |
differentially,expressed |
R2737 |
T9568 |
T9563 |
amod |
expressed,genes |
R2738 |
T9569 |
T9560 |
prep |
in,identify |
R2739 |
T9570 |
T9569 |
pobj |
CIA,in |
R2740 |
T9571 |
T9561 |
punct |
", ",detected |
R2741 |
T9572 |
T9561 |
nsubj |
we,detected |
R2742 |
T9573 |
T9574 |
det |
the,genes |
R2743 |
T9574 |
T9561 |
dobj |
genes,detected |
R2744 |
T9575 |
T9576 |
dep |
that,expressed |
R2745 |
T9576 |
T9574 |
relcl |
expressed,genes |
R2746 |
T9577 |
T9576 |
auxpass |
were,expressed |
R2747 |
T9578 |
T9576 |
advmod |
differentially,expressed |
R2748 |
T9579 |
T9576 |
prep |
in,expressed |
R2749 |
T9580 |
T9579 |
pobj |
LNs,in |
R2750 |
T9581 |
T9576 |
prep |
during,expressed |
R2751 |
T9582 |
T9581 |
pobj |
CIA,during |
R2752 |
T9583 |
T9576 |
prep |
in,expressed |
R2753 |
T9584 |
T9585 |
det |
the,strain |
R2754 |
T9585 |
T9583 |
pobj |
strain,in |
R2755 |
T9586 |
T9585 |
amod |
susceptible,strain |
R2756 |
T9587 |
T9561 |
punct |
.,detected |
R2757 |
T9589 |
T9590 |
nummod |
Three,conditions |
R2758 |
T9590 |
T9592 |
nsubjpass |
conditions,compared |
R2759 |
T9591 |
T9590 |
amod |
experimental,conditions |
R2760 |
T9593 |
T9590 |
punct |
", ",conditions |
R2761 |
T9594 |
T9590 |
appos |
PI,conditions |
R2762 |
T9595 |
T9594 |
punct |
", ",PI |
R2763 |
T9596 |
T9594 |
conj |
OA,PI |
R2764 |
T9597 |
T9596 |
cc |
and,OA |
R2765 |
T9598 |
T9596 |
conj |
CA,OA |
R2766 |
T9599 |
T9592 |
punct |
", ",compared |
R2767 |
T9600 |
T9592 |
auxpass |
were,compared |
R2768 |
T9601 |
T9592 |
prep |
with,compared |
R2769 |
T9602 |
T9603 |
det |
the,group |
R2770 |
T9603 |
T9601 |
pobj |
group,with |
R2771 |
T9604 |
T9603 |
compound |
NC,group |
R2772 |
T9605 |
T9592 |
punct |
.,compared |
R2773 |
T9607 |
T9608 |
prep |
On,upregulated |
R2774 |
T9609 |
T9607 |
pobj |
day,On |
R2775 |
T9610 |
T9609 |
nummod |
10,day |
R2776 |
T9611 |
T9609 |
prep |
after,day |
R2777 |
T9612 |
T9611 |
pobj |
immunisation,after |
R2778 |
T9613 |
T9608 |
punct |
", ",upregulated |
R2779 |
T9614 |
T9615 |
nummod |
102,genes |
R2780 |
T9615 |
T9616 |
nsubjpass |
genes,expressed |
R2781 |
T9616 |
T9608 |
ccomp |
expressed,upregulated |
R2782 |
T9617 |
T9616 |
auxpass |
were,expressed |
R2783 |
T9618 |
T9616 |
advmod |
differentially,expressed |
R2784 |
T9619 |
T9608 |
punct |
–,upregulated |
R2785 |
T9620 |
T9608 |
nsubjpass |
most,upregulated |
R2786 |
T9621 |
T9620 |
prep |
of,most |
R2787 |
T9622 |
T9621 |
pobj |
them,of |
R2788 |
T9623 |
T9608 |
auxpass |
were,upregulated |
R2789 |
T9624 |
T9625 |
punct |
(,102 |
R2790 |
T9625 |
T9608 |
parataxis |
102,upregulated |
R2791 |
T9626 |
T9625 |
quantmod |
78,102 |
R2792 |
T9627 |
T9625 |
quantmod |
out,102 |
R2793 |
T9628 |
T9625 |
quantmod |
of,102 |
R2794 |
T9629 |
T9625 |
punct |
),102 |
R2795 |
T9630 |
T9608 |
punct |
–,upregulated |
R2796 |
T9631 |
T9632 |
mark |
while,expressed |
R2797 |
T9632 |
T9608 |
advcl |
expressed,upregulated |
R2798 |
T9633 |
T9632 |
prep |
at,expressed |
R2799 |
T9634 |
T9635 |
det |
the,phase |
R2800 |
T9635 |
T9633 |
pobj |
phase,at |
R2801 |
T9636 |
T9635 |
compound |
onset,phase |
R2802 |
T9637 |
T9635 |
prep |
of,phase |
R2803 |
T9638 |
T9639 |
det |
the,disease |
R2804 |
T9639 |
T9637 |
pobj |
disease,of |
R2805 |
T9640 |
T9632 |
punct |
", ",expressed |
R2806 |
T9641 |
T9642 |
advmod |
only,genes |
R2807 |
T9642 |
T9632 |
nsubjpass |
genes,expressed |
R2808 |
T9643 |
T9642 |
nummod |
26,genes |
R2809 |
T9644 |
T9632 |
auxpass |
were,expressed |
R2810 |
T9645 |
T9632 |
advmod |
differentially,expressed |
R2811 |
T9646 |
T9608 |
punct |
.,upregulated |
R2812 |
T9648 |
T9649 |
prep |
At,identified |
R2813 |
T9650 |
T9651 |
det |
the,phase |
R2814 |
T9651 |
T9648 |
pobj |
phase,At |
R2815 |
T9652 |
T9651 |
amod |
chronic,phase |
R2816 |
T9653 |
T9651 |
prep |
of,phase |
R2817 |
T9654 |
T9655 |
det |
the,disease |
R2818 |
T9655 |
T9653 |
pobj |
disease,of |
R2819 |
T9656 |
T9649 |
punct |
", ",identified |
R2820 |
T9657 |
T9658 |
nummod |
184,genes |
R2821 |
T9658 |
T9649 |
nsubjpass |
genes,identified |
R2822 |
T9659 |
T9660 |
advmod |
differentially,expressed |
R2823 |
T9660 |
T9658 |
amod |
expressed,genes |
R2824 |
T9661 |
T9649 |
auxpass |
were,identified |
R2825 |
T9662 |
T9649 |
punct |
", ",identified |
R2826 |
T9663 |
T9649 |
prep |
with,identified |
R2827 |
T9664 |
T9665 |
nummod |
156,genes |
R2828 |
T9665 |
T9663 |
pobj |
genes,with |
R2829 |
T9666 |
T9665 |
amod |
downregulated,genes |
R2830 |
T9667 |
T9649 |
punct |
.,identified |
R2831 |
T9669 |
T9670 |
advmod |
Only,gene |
R2832 |
T9670 |
T9672 |
nsubjpass |
gene,expressed |
R2833 |
T9671 |
T9670 |
nummod |
one,gene |
R2834 |
T9673 |
T9672 |
auxpass |
was,expressed |
R2835 |
T9674 |
T9672 |
advmod |
differentially,expressed |
R2836 |
T9675 |
T9672 |
prep |
at,expressed |
R2837 |
T9676 |
T9677 |
det |
all,phases |
R2838 |
T9677 |
T9675 |
pobj |
phases,at |
R2839 |
T9678 |
T9677 |
nummod |
three,phases |
R2840 |
T9679 |
T9677 |
prep |
of,phases |
R2841 |
T9680 |
T9679 |
pobj |
CIA,of |
R2842 |
T9681 |
T9672 |
punct |
.,expressed |
R2843 |
T9683 |
T9684 |
prep |
Besides,shared |
R2844 |
T9685 |
T9686 |
det |
this,gene |
R2845 |
T9686 |
T9683 |
pobj |
gene,Besides |
R2846 |
T9687 |
T9684 |
punct |
", ",shared |
R2847 |
T9688 |
T9689 |
nummod |
five,genes |
R2848 |
T9689 |
T9684 |
nsubjpass |
genes,shared |
R2849 |
T9690 |
T9688 |
punct |
", ",five |
R2850 |
T9691 |
T9688 |
conj |
one,five |
R2851 |
T9692 |
T9691 |
cc |
and,one |
R2852 |
T9693 |
T9691 |
conj |
six,one |
R2853 |
T9694 |
T9695 |
advmod |
differentially,expressed |
R2854 |
T9695 |
T9689 |
amod |
expressed,genes |
R2855 |
T9696 |
T9684 |
auxpass |
were,shared |
R2856 |
T9697 |
T9684 |
agent |
by,shared |
R2857 |
T9698 |
T9697 |
pobj |
PI,by |
R2858 |
T9699 |
T9698 |
prep |
with,PI |
R2859 |
T9700 |
T9699 |
pobj |
OA,with |
R2860 |
T9701 |
T9698 |
punct |
", ",PI |
R2861 |
T9702 |
T9698 |
conj |
PI,PI |
R2862 |
T9703 |
T9702 |
prep |
with,PI |
R2863 |
T9704 |
T9703 |
pobj |
CA,with |
R2864 |
T9705 |
T9702 |
cc |
and,PI |
R2865 |
T9706 |
T9702 |
conj |
OA,PI |
R2866 |
T9707 |
T9706 |
prep |
with,OA |
R2867 |
T9708 |
T9707 |
pobj |
CA,with |
R2868 |
T9709 |
T9684 |
punct |
", ",shared |
R2869 |
T9710 |
T9684 |
advmod |
respectively,shared |
R2870 |
T9711 |
T9712 |
punct |
(,2a |
R2871 |
T9712 |
T9684 |
parataxis |
2a,shared |
R2872 |
T9713 |
T9712 |
compound |
Figure,2a |
R2873 |
T9714 |
T9712 |
punct |
),2a |
R2874 |
T9715 |
T9684 |
punct |
.,shared |
R2875 |
T9717 |
T9718 |
advcl |
Taken,regulated |
R2876 |
T9719 |
T9717 |
advmod |
together,Taken |
R2877 |
T9720 |
T9718 |
punct |
", ",regulated |
R2878 |
T9721 |
T9722 |
nummod |
310,genes |
R2879 |
T9722 |
T9718 |
nsubjpass |
genes,regulated |
R2880 |
T9723 |
T9724 |
npadvmod |
disease,specific |
R2881 |
T9724 |
T9722 |
amod |
specific,genes |
R2882 |
T9725 |
T9724 |
punct |
-,specific |
R2883 |
T9726 |
T9727 |
advmod |
differentially,expressed |
R2884 |
T9727 |
T9722 |
amod |
expressed,genes |
R2885 |
T9728 |
T9718 |
auxpass |
were,regulated |
R2886 |
T9729 |
T9718 |
advmod |
differentially,regulated |
R2887 |
T9730 |
T9718 |
prep |
during,regulated |
R2888 |
T9731 |
T9730 |
pobj |
CIA,during |
R2889 |
T9732 |
T9718 |
prep |
in,regulated |
R2890 |
T9733 |
T9734 |
nmod |
DBA,mice |
R2891 |
T9734 |
T9732 |
pobj |
mice,in |
R2892 |
T9735 |
T9733 |
punct |
/,DBA |
R2893 |
T9736 |
T9733 |
nummod |
1,DBA |
R2894 |
T9737 |
T9738 |
punct |
(,file |
R2895 |
T9738 |
T9718 |
parataxis |
file,regulated |
R2896 |
T9739 |
T9738 |
amod |
Additional,file |
R2897 |
T9740 |
T9738 |
nummod |
2,file |
R2898 |
T9741 |
T9738 |
punct |
),file |
R2899 |
T9742 |
T9718 |
punct |
.,regulated |