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Misplaced prepositions

In sharp contrast to the pancellular distribution of Mirk in cycling myoblasts, a dramatic shift in the localization of Mirk to a solely cytoplasmic location was seen in differentiating G1-arrested myotubes within 2 days of shift to differentiation medium.
('shift in localization of Mirk to location', 'In was seen', 'contrast to distribution of Mirk in cycling myoblasts')

xcomp should be a verb

2016-04-30 15:19:13,446 - single_relation_extraction - DEBUG - SENTENCE: Biosynthesized AgNPs from leaf extract of Vitex negundo L. proved to be an antitumor agent against human colon cancer cell line HCT15.
2016-04-30 15:19:14,018 - single_relation_extraction - DEBUG - (2 AgNPs NNS) amod (1 Biosynthesized VBN)
2016-04-30 15:19:14,018 - single_relation_extraction - DEBUG - (10 proved VBD) nsubj (2 AgNPs NNS)
2016-04-30 15:19:14,018 - single_relation_extraction - DEBUG - (2 AgNPs NNS) prep (3 from IN)
2016-04-30 15:19:14,018 - single_relation_extraction - DEBUG - (5 extract NN) nn (4 leaf NN)
2016-04-30 15:19:14,018 - single_relation_extraction - DEBUG - (3 from IN) pobj (5 extract NN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (5 extract NN) prep (6 of IN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (9 L. NNP) nn (7 Vitex NNP)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (9 L. NNP) nn (8 negundo NNP)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (6 of IN) pobj (9 L. NNP)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (15 agent NN) aux (11 to TO)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (15 agent NN) cop (12 be VB)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (15 agent NN) det (13 an DT)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (15 agent NN) nn (14 antitumor NN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (10 proved VBD) xcomp (15 agent NN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (15 agent NN) prep (16 against IN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (22 HCT15 NN) amod (17 human JJ)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (22 HCT15 NN) nn (18 colon NN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (22 HCT15 NN) nn (19 cancer NN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (22 HCT15 NN) nn (20 cell NN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (22 HCT15 NN) nn (21 line NN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (16 against IN) pobj (22 HCT15 NN)
2016-04-30 15:19:14,019 - single_relation_extraction - DEBUG - (10 proved VBD) punct (23 . .)
2016-04-30 15:19:14,020 - single_relation_extraction - DEBUG - "extract" expanded with noun compound: "leaf"
2016-04-30 15:19:14,020 - single_relation_extraction - DEBUG - "AgNPs" expanded with prep phrase: "from leaf extract"
2016-04-30 15:19:14,020 - single_relation_extraction - DEBUG - "proved" expanded with xcomp: "agent"
2016-04-30 15:19:14,020 - single_relation_extraction - DEBUG - "agent" expanded with aux: "to"
2016-04-30 15:19:14,020 - single_relation_extraction - DEBUG - "HCT15" expanded with noun compound: "colon"
2016-04-30 15:19:14,020 - single_relation_extraction - DEBUG - "HCT15" expanded with noun compound: "cancer"
2016-04-30 15:19:14,020 - single_relation_extraction - DEBUG - "HCT15" expanded with noun compound: "cell"
2016-04-30 15:19:14,021 - single_relation_extraction - DEBUG - "HCT15" expanded with noun compound: "line"
2016-04-30 15:19:14,021 - single_relation_extraction - DEBUG - "agent" expanded with prep phrase: "against colon cancer cell line HCT15"
2016-04-30 15:19:14,021 - single_relation_extraction - DEBUG - RELATION LEMMA: (agnp from leaf extract, prove to agent against, colon cancer cell line hct15)
2016-04-30 15:19:14,021 - single_relation_extraction - DEBUG - RELATION CANONICAL: (agnp from leaf extract, prove to agent against, colon cancer cell line hct15)
2016-04-30 15:19:14,021 - single_relation_extraction - DEBUG - SUBJECT HEAD: AgNPs
2016-04-30 15:19:14,021 - single_relation_extraction - DEBUG - SUBJECT NN HEAD: AgNPs
2016-04-30 15:19:14,021 - single_relation_extraction - DEBUG - OBJECT HEAD: HCT15
2016-04-30 15:19:14,021 - single_relation_extraction - DEBUG - OBJECT NN HEAD: colon cancer cell line HCT15

Resetting head in predicate expansion

In predicate expansion, after resetting the head to xcomp, the object of the original head may be lost.

Capture rcmod relation

2016-05-15 22:00:28,604 - single_relation_extraction - DEBUG - SENTENCE: Nitrate-reducing bacteria, which convert dietary nitrate to nitrite, overgrow in the stomach when intragastric acidity is decreased by atrophic gastritis or gastrectomy.
2016-05-15 22:00:28,898 - single_relation_extraction - DEBUG - (2 bacteria NNS) punct (3 , ,)
2016-05-15 22:00:28,898 - single_relation_extraction - DEBUG - (5 convert VBP) nsubj (4 which WDT)
2016-05-15 22:00:28,898 - single_relation_extraction - DEBUG - (2 bacteria NNS) rcmod (5 convert VBP)
2016-05-15 22:00:28,898 - single_relation_extraction - DEBUG - (7 nitrate NN) amod (6 dietary JJ)
2016-05-15 22:00:28,898 - single_relation_extraction - DEBUG - (5 convert VBP) dobj (7 nitrate NN)
2016-05-15 22:00:28,898 - single_relation_extraction - DEBUG - (9 nitrite VB) aux (8 to TO)
2016-05-15 22:00:28,898 - single_relation_extraction - DEBUG - (5 convert VBP) xcomp (9 nitrite VB)
2016-05-15 22:00:28,898 - single_relation_extraction - DEBUG - (9 nitrite VB) punct (10 , ,)
2016-05-15 22:00:28,898 - single_relation_extraction - DEBUG - (9 nitrite VB) conj (11 overgrow VB)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (11 overgrow VB) prep (12 in IN)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (14 stomach NN) det (13 the DT)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (12 in IN) pobj (14 stomach NN)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (19 decreased VBN) advmod (15 when WRB)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (17 acidity NN) amod (16 intragastric JJ)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (19 decreased VBN) nsubjpass (17 acidity NN)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (19 decreased VBN) auxpass (18 is VBZ)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (11 overgrow VB) advcl (19 decreased VBN)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (19 decreased VBN) prep (20 by IN)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (22 gastritis NN) amod (21 atrophic JJ)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (20 by IN) pobj (22 gastritis NN)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (22 gastritis NN) cc (23 or CC)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (22 gastritis NN) conj:or (24 gastrectomy NN)
2016-05-15 22:00:28,899 - single_relation_extraction - DEBUG - (2 bacteria NNS) punct (25 . .)
2016-05-15 22:00:28,900 - single_relation_extraction - DEBUG - "decreased" expanded with auxpass: "is"
2016-05-15 22:00:28,900 - single_relation_extraction - DEBUG - "decreased" expanded with prep phrase: "by gastritis"
2016-05-15 22:00:28,900 - single_relation_extraction - DEBUG - SUBJECT HEAD: acidity
2016-05-15 22:00:28,900 - single_relation_extraction - DEBUG - SUBJECT NN HEAD: acidity
2016-05-15 22:00:28,900 - single_relation_extraction - DEBUG - OBJECT HEAD: gastritis
2016-05-15 22:00:28,900 - single_relation_extraction - DEBUG - OBJECT NN HEAD: gastritis
2016-05-15 22:00:28,900 - single_relation_extraction - DEBUG - RELATION LEMMA: (u'acidity', u'be decrease by', u'gastritis')
2016-05-15 22:00:28,900 - single_relation_extraction - DEBUG - RELATION CANONICAL: (u'acidity', u'be decrease by', u'gastritis')

Remove misplaced line separators

Some raw text files have misplaced line separators, need to remove them.

Try Google's parser

https://github.com/tensorflow/models/tree/master/syntaxnet

WDT should not be the subject

Deal with PRT dependency relation

2016-05-01 01:45:17,422 - single_relation_extraction - DEBUG - SENTENCE: TZN interpreted the stress echocardiogram and picked up the RV enlargement, pulmonary HTN and ST elevation.
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (2 interpreted VBD) nsubj (1 TZN NN)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (5 echocardiogram NN) det (3 the DT)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (5 echocardiogram NN) nn (4 stress NN)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (2 interpreted VBD) dobj (5 echocardiogram NN)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (2 interpreted VBD) cc (6 and CC)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (2 interpreted VBD) conj:and (7 picked VBD)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (7 picked VBD) prt (8 up RP)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (11 enlargement NN) det (9 the DT)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (11 enlargement NN) nn (10 RV NN)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (7 picked VBD) dobj (11 enlargement NN)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (11 enlargement NN) punct (12 , ,)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (14 HTN NN) amod (13 pulmonary JJ)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (11 enlargement NN) conj:and (14 HTN NN)
2016-05-01 01:45:17,671 - single_relation_extraction - DEBUG - (11 enlargement NN) cc (15 and CC)
2016-05-01 01:45:17,672 - single_relation_extraction - DEBUG - (17 elevation NN) amod (16 ST JJ)
2016-05-01 01:45:17,672 - single_relation_extraction - DEBUG - (11 enlargement NN) conj:and (17 elevation NN)
2016-05-01 01:45:17,672 - single_relation_extraction - DEBUG - (2 interpreted VBD) punct (18 . .)
2016-05-01 01:45:17,672 - single_relation_extraction - DEBUG - "interpreted" expanded with conjunction: "picked"
2016-05-01 01:45:17,672 - single_relation_extraction - DEBUG - "echocardiogram" expanded with noun compound: "stress"
2016-05-01 01:45:17,672 - single_relation_extraction - DEBUG - "enlargement" expanded with conjunction: "HTN"
2016-05-01 01:45:17,672 - single_relation_extraction - DEBUG - "enlargement" expanded with conjunction: "elevation"
2016-05-01 01:45:17,672 - single_relation_extraction - DEBUG - "enlargement" expanded with noun compound: "RV"
2016-05-01 01:45:17,673 - single_relation_extraction - DEBUG - RELATION LEMMA: (tzn, interpret, stress echocardiogram)
2016-05-01 01:45:17,673 - single_relation_extraction - DEBUG - RELATION CANONICAL: (tzn, interpret, stress echocardiogram)
2016-05-01 01:45:17,673 - single_relation_extraction - DEBUG - SUBJECT HEAD: TZN
2016-05-01 01:45:17,673 - single_relation_extraction - DEBUG - SUBJECT NN HEAD: TZN
2016-05-01 01:45:17,673 - single_relation_extraction - DEBUG - OBJECT HEAD: echocardiogram
2016-05-01 01:45:17,673 - single_relation_extraction - DEBUG - OBJECT NN HEAD: stress echocardiogram
2016-05-01 01:45:17,673 - single_relation_extraction - DEBUG - RELATION LEMMA: (tzn, pick, rv enlargement)
2016-05-01 01:45:17,673 - single_relation_extraction - DEBUG - RELATION CANONICAL: (tzn, pick, rv enlargement)
2016-05-01 01:45:17,673 - single_relation_extraction - DEBUG - SUBJECT HEAD: TZN
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - SUBJECT NN HEAD: TZN
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - OBJECT HEAD: enlargement
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - OBJECT NN HEAD: RV enlargement
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - RELATION LEMMA: (tzn, pick, htn)
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - RELATION CANONICAL: (tzn, pick, htn)
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - SUBJECT HEAD: TZN
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - SUBJECT NN HEAD: TZN
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - OBJECT HEAD: HTN
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - OBJECT NN HEAD: HTN
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - RELATION LEMMA: (tzn, pick, elevation)
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - RELATION CANONICAL: (tzn, pick, elevation)
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - SUBJECT HEAD: TZN
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - SUBJECT NN HEAD: TZN
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - OBJECT HEAD: elevation
2016-05-01 01:45:17,674 - single_relation_extraction - DEBUG - OBJECT NN HEAD: elevation

Extract pcomp

(28 seen VBN) prep (1 In IN)
(3 contrast NN) amod (2 sharp JJ)
(1 In IN) pobj (3 contrast NN)
(3 contrast NN) prep (4 to TO)
(7 distribution NN) det (5 the DT)
(7 distribution NN) amod (6 pancellular JJ)
(4 to TO) pobj (7 distribution NN)
(7 distribution NN) prep (8 of IN)
(8 of IN) pobj (9 Mirk NNP)
(9 Mirk NNP) prep (10 in IN)
(12 myoblasts NNS) nn (11 cycling NN)
(10 in IN) pobj (12 myoblasts NNS)
(28 seen VBN) punct (13 , ,)
(16 shift NN) det (14 a DT)
(16 shift NN) amod (15 dramatic JJ)
(28 seen VBN) nsubjpass (16 shift NN)
(16 shift NN) prep (17 in IN)
(19 localization NN) det (18 the DT)
(17 in IN) pobj (19 localization NN)
(19 localization NN) prep (20 of IN)
(20 of IN) pobj (21 Mirk NNP)
(16 shift NN) prep (22 to TO)
(26 location NN) det (23 a DT)
(26 location NN) advmod (24 solely RB)
(26 location NN) amod (25 cytoplasmic JJ)
(22 to TO) pobj (26 location NN)
(28 seen VBN) auxpass (27 was VBD)
(28 seen VBN) prep (29 in IN)
(29 in IN) pcomp (30 differentiating VBG)
(30 differentiating VBG) dobj (32 myotubes NNS)
(30 differentiating VBG) prep (33 within IN)
(35 days NNS) num (34 2 CD)
(33 within IN) pobj (35 days NNS)
(35 days NNS) prep (36 of IN)
(36 of IN) pobj (37 shift NN)
(37 shift NN) prep (38 to TO)
(40 medium NN) nn (39 differentiation NN)
(38 to TO) pobj (40 medium NN)
(28 seen VBN) punct (41 . .)

Extract conjunction of the head word in prep phrases

However, while a correlation exists between the HER2 overexpression status in breast tumors and their sensitivity to HER2 inhibitors, such a correlation has failed to materialize in clinical trials involving EGFR inhibitors, leaving a gap in our understanding of tumor dependency on EGFR signaling.

(26 failed VBN) advmod (1 However RB)
(26 failed VBN) punct (2 , ,)
(6 exists VBZ) mark (3 while IN)
(5 correlation NN) det (4 a DT)
(6 exists VBZ) nsubj (5 correlation NN)
(26 failed VBN) advcl (6 exists VBZ)
(6 exists VBZ) prep (7 between IN)
(11 status NN) det (8 the DT)
(11 status NN) nn (9 HER2 NN)
(11 status NN) nn (10 overexpression NN)
(7 between IN) pobj (11 status NN)
(11 status NN) prep (12 in IN)
(14 tumors NNS) nn (13 breast NN)
(12 in IN) pobj (14 tumors NNS)
(11 status NN) cc (15 and CC)
(17 sensitivity NN) poss (16 their PRP$)
(11 status NN) conj:and (17 sensitivity NN)
(17 sensitivity NN) prep (18 to TO)
(20 inhibitors NNS) nn (19 HER2 NN)
(18 to TO) pobj (20 inhibitors NNS)
(26 failed VBN) punct (21 , ,)
(24 correlation NN) predet (22 such PDT)
(24 correlation NN) det (23 a DT)
(26 failed VBN) nsubj (24 correlation NN)
(26 failed VBN) aux (25 has VBZ)
(28 materialize VB) aux (27 to TO)
(26 failed VBN) xcomp (28 materialize VB)
(28 materialize VB) prep (29 in IN)
(31 trials NNS) amod (30 clinical JJ)
(29 in IN) pobj (31 trials NNS)
(31 trials NNS) vmod (32 involving VBG)
(34 inhibitors NNS) nn (33 EGFR NN)
(32 involving VBG) dobj (34 inhibitors NNS)
(26 failed VBN) punct (35 , ,)
(26 failed VBN) xcomp (36 leaving VBG)
(38 gap NN) det (37 a DT)
(36 leaving VBG) dobj (38 gap NN)
(38 gap NN) prep (39 in IN)
(41 understanding NN) poss (40 our PRP$)
(39 in IN) pobj (41 understanding NN)
(41 understanding NN) prep (42 of IN)
(44 dependency NN) nn (43 tumor NN)
(42 of IN) pobj (44 dependency NN)
(44 dependency NN) prep (45 on IN)
(47 signaling NN) nn (46 EGFR NN)
(45 on IN) pobj (47 signaling NN)
(26 failed VBN) punct (48 . .)

Conjunctions of verbs should be extracted

The predicate can be more than one verbs. The conjunction should be extracted.

Carbides, along with diamond, may not thus represent Earth’s deepest surviving minerals, and may prove a relatively unexplored window on the nature of the deep mantle environment and the deep carbon cycle.

Add punctuations in conjunctions

Add multi thread processing

Add multi thread processing for sentence parsing and database writing.

Prepositional phrases are too long

Duplicate cultures of C2C12 myoblasts were cultured in differentiation medium for 1 day before partition into nuclear and cytoplasmic fractions and analysis of Mirk protein localization by western blotting.
('Duplicate', 'were cultured in', 'differentiation medium for day before partition into nuclear and cytoplasmic and analysis')

Extract "has the ability to"

Carbon has the ability to bond to itself and to more than 80 other elements in a variety of bonding topologies, most commonly in 2-, 3-, and 4-coordination.

(2 has VBZ) nsubj (1 Carbon NNP)
(4 ability NN) det (3 the DT)
(2 has VBZ) dobj (4 ability NN)
(4 ability NN) prep (5 to TO)
(5 to TO) pobj (6 bond NN)
(4 ability NN) prep (7 to TO)
(7 to TO) pobj (8 itself PRP)
(7 to TO) cc (9 and CC)
(7 to TO) conj:and (10 to TO)
(12 than IN) mwe (11 more JJR)
(13 80 CD) quantmod (12 than IN)
(15 elements NNS) num (13 80 CD)
(15 elements NNS) amod (14 other JJ)
(10 to TO) pobj (15 elements NNS)
(15 elements NNS) prep (16 in IN)
(18 variety NN) det (17 a DT)
(16 in IN) pobj (18 variety NN)
(18 variety NN) prep (19 of IN)
(21 topologies NNS) nn (20 bonding NN)
(19 of IN) pobj (21 topologies NNS)
(15 elements NNS) punct (22 , ,)
(15 elements NNS) amod (23 most JJS)
(25 in IN) advmod (24 commonly RB)
(23 most JJS) prep (25 in IN)
(25 in IN) pobj (26 2 LS)
(29 3 LS) punct (28 , ,)
(26 2 LS) dep (29 3 LS)
(29 3 LS) punct (31 , ,)
(29 3 LS) cc (32 and CC)
(2 has VBZ) punct (34 . .)

Extract "be able to"

It is certainly possible that the mTORC2-mediated phosphorylation events on DUSP10 or additional post-translational modifications are able to regulate substrate specificity.

Extract acomp

Mirk becomes restricted to the cytoplasm during myogenesis.
(2 becomes VBZ) nsubj (1 Mirk NNP)
(2 becomes VBZ) acomp (3 restricted JJ)
(3 restricted JJ) prep (4 to TO)
(6 cytoplasm NN) det (5 the DT)
(4 to TO) pobj (6 cytoplasm NN)
(2 becomes VBZ) prep (7 during IN)
(7 during IN) pobj (8 myogenesis NN)
('Mirk', 'becomes during', 'myogenesis')

Provide more information in the README on how to use the code

Can you provide more information in the README on how to use this code? Especially, what are the input data requirements, etc.

Extract ccomp

It was unclear what muscle function is maintained in these cancer cells.

(3 unclear JJ) nsubj (1 It PRP)
(3 unclear JJ) cop (2 was VBD)
(6 function NN) det (4 what WP)
(6 function NN) nn (5 muscle NN)
(8 maintained VBN) nsubjpass (6 function NN)
(8 maintained VBN) auxpass (7 is VBZ)
(3 unclear JJ) ccomp (8 maintained VBN)
(8 maintained VBN) prep (9 in IN)
(12 cells NNS) det (10 these DT)
(12 cells NNS) nn (11 cancer NN)
(9 in IN) pobj (12 cells NNS)
(3 unclear JJ) punct (13 . .)

Should iobj be extracted?

vmod of a verb should be extracted

Mirk acts to promote the survival of differentiating myoblasts, at least in part, by phosphorylating the CDK inhibitor p21, causing p21 to accumulate in the cytoplasm where it functions as an anti-apoptotic signaling molecule.

(2 acts VBZ) nsubj (1 Mirk NNP)
(4 promote VB) aux (3 to TO)
(2 acts VBZ) xcomp (4 promote VB)
(6 survival NN) det (5 the DT)
(4 promote VB) dobj (6 survival NN)
(6 survival NN) prep (7 of IN)
(9 myoblasts NNS) amod (8 differentiating VBG)
(7 of IN) pobj (9 myoblasts NNS)
(2 acts VBZ) punct (10 , ,)
(13 in IN) advmod (11 at IN)
(11 at IN) pobj (12 least JJS)
(2 acts VBZ) prep (13 in IN)
(13 in IN) pobj (14 part NN)
(2 acts VBZ) punct (15 , ,)
(2 acts VBZ) prep (16 by IN)
(16 by IN) pcomp (17 phosphorylating VBG)
(21 p21 NN) det (18 the DT)
(21 p21 NN) nn (19 CDK NN)
(21 p21 NN) nn (20 inhibitor NN)
(17 phosphorylating VBG) dobj (21 p21 NN)
(2 acts VBZ) punct (22 , ,)
(2 acts VBZ) vmod (23 causing VBG)
(23 causing VBG) dobj (24 p21 NN)
(26 accumulate VB) aux (25 to TO)
(23 causing VBG) vmod (26 accumulate VB)
(26 accumulate VB) prep (27 in IN)
(29 cytoplasm NN) det (28 the DT)
(27 in IN) pobj (29 cytoplasm NN)
(32 functions VBZ) advmod (30 where WRB)
(32 functions VBZ) nsubj (31 it PRP)
(29 cytoplasm NN) rcmod (32 functions VBZ)
(32 functions VBZ) prep (33 as IN)
(37 molecule NN) det (34 an DT)
(37 molecule NN) nn (36 signaling NN)
(33 as IN) pobj (37 molecule NN)
(23 causing VBG) punct (40 . .)

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