PMID: 10503549-8 Sentence 0 The results indicate an overlap between the GENEXXX regulon and the GENEXXX regulon , and the physiological implications of this overlap are discussed . Parse 0 +------------------COMP_between:N-N-----------------+ +------COMP_between:N-N-----+ | +---------SUBJ:V_PASS-N---------+ +SUBJ:V-+--OBJ:V-N--+ +MOD_ATT+ +MOD_ATT+ +MOD_ATT:N-AD+----COMP_of:N-N---+ | | | | | | | | | | | | The results indicate an overlap between the GENEXXX regulon and the GENEXXX regulon , and the physiological implications of this overlap are discussed . SUBJ:V_PASS-N (discussed,implications) SUBJ:V-N (indicate,results) MOD_ATT:N-N (regulon,GENEXXX) MOD_ATT:N-N (regulon,GENEXXX) MOD_ATT:N-ADJ (implications,physiological) OBJ:V-N (indicate,overlap) COMP_between:N-N (overlap,regulon) COMP_of:N-N (implications,overlap) COMP_between:N-N (overlap,regulon) PMID: 1569009-3 Sentence 1 We directly tested this hypothesis by performing in vitro transcription assays with reconstituted GENEXXX and a set of plasmids containing the GENEXXX , GENEXXX , and GENEXXX promoter regions . Parse 0 +------------------------OBJ:V-N-----------------------+ +-------------COMP_with:N-N------------+ | +----------MOD_ATT:N-N----------+ | +---SUBJ:V-N--+--------COMP_by:V-V--------+------------OBJ:V-N------------+-------COMP_with:N-N------+ | | | +-----MOD_ATT:N-N-----+ | | +MOD:V-A+---OBJ:V-N---+ | +COMP_in:A+MOD_ATT:N+ +MOD_ATT:N-+ +COMP_of:+-SUBJ:V-N+ | | +MOD_ATT+MOD_ATT:+ | | | | | | | | | | | | | | | | | | We directly tested this hypothesis by performing in vitro transcription assays with reconstituted GENEXXX and a set of plasmids containing the GENEXXX , GENEXXX , and GENEXXX promoter regions . COMP_by:V-V (tested,performing) COMP_with:N-N (assays,set) COMP_with:N-N (assays,GENEXXX) MOD_ATT:N-N (promoter,GENEXXX) OBJ:V-N (containing,regions) MOD_ATT:N-ADJ (GENEXXX,reconstituted) SUBJ:V-N (tested,We) MOD_ATT:N-N (assays,transcription) OBJ:V-N (performing,assays) MOD_ATT:N-N (promoter,GENEXXX) COMP_in:ADJ-N (transcription,vitro) MOD:V-ADV (tested,directly) MOD_ATT:N-N (regions,promoter) SUBJ:V-N (containing,plasmids) MOD_ATT:N-N (promoter,GENEXXX) OBJ:V-N (tested,hypothesis) COMP_of:N-N (set,plasmids) PMID: 1784821-1 Sentence 2 Two RNA polymerase sigma factors , GENEXXX and GENEXXX , are produced during the first two hours of endospore formation in SPXXX . Parse 0 +-----------SUBJ:V_PASS-N-----------+ +--MOD_ATT:N-N--+--------APPOS--------+ | +-----COMP_of:N-N----+ +MOD_AT+ +MOD_AT+--APPOS--+ | +----COMP_during:V_PASS-N----+ +MOD_ATT:N+COMP_in:N-+ | | | | | | | | | | | Two RNA polymerase sigma factors , GENEXXX and GENEXXX , are produced during the first two hours of endospore formation in SPXXX . COMP_of:N-N (hours,formation) MOD_ATT:N-N (factors,sigma) MOD_ATT:N-ADJ (formation,endospore) MOD_ATT:N-N (factors,polymerase) COMP_in:N-N (formation,SPXXX) APPOS (factors,GENEXXX) MOD_ATT:N-N (polymerase,RNA) SUBJ:V_PASS-N (produced,factors) APPOS (factors,GENEXXX) COMP_during:V_PASS-N (produced,hours) PMID: 2997585-5 Sentence 3 Both GENEXXX and GENEXXX were transcribed in the same direction , counterclockwise on the chromosome . Parse 0 +-------SUBJ:V_PASS-N------+ | +-SUBJ:V_PASS-N+---COMP_in:V_PASS-N---+MOD_POST:N-ADJ+----COMP_on:ADJ-N---+ | | | | | | Both GENEXXX and GENEXXX were transcribed in the same direction , counterclockwise on the chromosome . SUBJ:V_PASS-N (transcribed,GENEXXX) COMP_on:ADJ-N (counterclockwise,chromosome) SUBJ:V_PASS-N (transcribed,GENEXXX) COMP_in:V_PASS-N (transcribed,direction) MOD_POST:N-ADJ (direction,counterclockwise) PMID: 3134591-1 Sentence 4 Nuclease S1 mapping was used to identify the transcription start points of the GENEXXX and GENEXXX operons of SPXXX . Parse 0 +------------COMP_of:N-N-----------+ +MOD_ATT:N-N+ +------------OBJ:V-N------------+ +----MOD_ATT:N-N----+ | +MOD_A+SUBJ:V_PA+COMP_to:V+ +MOD_ATT:N+MOD_A+ | +MOD_ATT+COMP_of:N+ | | | | | | | | | | | | Nuclease S1 mapping was used to identify the transcription start points of the GENEXXX and GENEXXX operons of SPXXX . COMP_to:V_PASS-V (used,identify) MOD_ATT:N-N (mapping,Nuclease) MOD_ATT:N-N (start,transcription) MOD_ATT:N-N (points,start) OBJ:V-N (identify,points) COMP_of:N-N (points,operons) COMP_of:N-N (operons,SPXXX) MOD_ATT:N-N (mapping,S1) MOD_ATT:N-N (operons,GENEXXX) MOD_ATT:N-N (operons,GENEXXX) SUBJ:V_PASS-N (used,mapping) PMID: 3919021-2 Sentence 5 We have now determined the 1809-base pair sequence of the GENEXXX coding region , which precedes GENEXXX and is transcribed in the same counterclockwise direction on the chromosome . Parse 0 +----SUBJ:V-N---+-----------OBJ:V-N----------+---------COMP_of:N-N---------+--------------SUBJ:V_PASS-N--------------+------------COMP_in:V_PASS-N-----------+ | +MOD:V-+ +MOD_AT+MOD_AT+ +MOD_AT+MOD_AT+----SUBJ:V-N---+-OBJ:V-N+ | +MOD_ATT:N-ADJ+---COMP_on:N-N--+ | | | | | | | | | | | | | | | We have now determined the 1809-base pair sequence of the GENEXXX coding region , which precedes GENEXXX and is transcribed in the same counterclockwise direction on the chromosome . MOD_ATT:ADJ-N (coding,GENEXXX) MOD_ATT:N-ADJ (direction,counterclockwise) MOD_ATT:N-N (pair,1809-base) SUBJ:V-N (precedes,region) COMP_of:N-N (sequence,region) OBJ:V-N (determined,sequence) COMP_on:N-N (direction,chromosome) MOD_ATT:N-ADJ (region,coding) SUBJ:V_PASS-N (transcribed,region) MOD_ATT:N-N (sequence,pair) MOD:V-ADV (determined,now) COMP_in:V_PASS-N (transcribed,direction) OBJ:V-N (precedes,GENEXXX) SUBJ:V-N (determined,We) PMID: 8169223-4 Sentence 6 The predicted GENEXXX gene product contains an amino-terminal GENEXXX homologous domain linked to a response regulator domain of the GENEXXX family , suggesting that either or both of these functions are duplicated . Parse 0 +-------------------OBJ:V-N------------------+ +-------------SUBJ:V_PASS-N-------------+ +----MOD_ATT:N-ADJ----+ | +--------MOD_ATT:N-ADJ--------+ +-------COMP_to:V_PASS-N-------+-----COMP_of:N-N-----+ | +---------SUBJ:V_PASS-N--------+ | +MOD_A+MOD_AT+SUBJ:V-+ | +MOD_ATT:+MOD_ATT:+SUBJ:V+ +MOD_ATT:N+MOD_ATT+ +MOD_AT+ | +---COMP_of:N-N--+ | | | | | | | | | | | | | | | | | | | | The predicted GENEXXX gene product contains an amino-terminal GENEXXX homologous domain linked to a response regulator domain of the GENEXXX family , suggesting that either or both of these functions are duplicated . MOD_ATT:ADJ-N (homologous,GENEXXX) COMP_of:N-N (both,functions) SUBJ:V_PASS-N (linked,domain) SUBJ:V_PASS-N (duplicated,either) SUBJ:V_PASS-N (duplicated,both) MOD_ATT:N-N (regulator,response) MOD_ATT:N-ADJ (domain,amino-terminal) MOD_ATT:N-N (product,gene) COMP_to:V_PASS-N (linked,domain) SUBJ:V-N (contains,product) MOD_ATT:N-N (gene,GENEXXX) COMP_of:N-N (domain,family) OBJ:V-N (contains,domain) MOD_ATT:N-ADJ (product,predicted) MOD_ATT:N-N (domain,regulator) MOD_ATT:N-N (family,GENEXXX) MOD_ATT:N-ADJ (domain,homologous) PMID: 9324264-2 Sentence 7 Among them are two sigma factors , GENEXXX and GENEXXX , and a DNA-binding protein , GENEXXX . Parse 0 +-----------------------------SUBJ:V-N----------------------------+ +----SUBJ:V-N---+--------APPOS--------+ | +COMP+ +MOD_AT+--APPOS--+ | +MOD_ATT:N+--APPOS--+ | | | | | | | | | Among them are two sigma factors , GENEXXX and GENEXXX , and a DNA-binding protein , GENEXXX . MOD_ATT:N-N (factors,sigma) MOD_ATT:N-N (protein,DNA-binding) APPOS (factors,GENEXXX) APPOS (protein,GENEXXX) APPOS (factors,GENEXXX) SUBJ:V-N (are,factors) SUBJ:V-N (are,protein) COMP_among:ADJ-N (are,them) PMID: 10197994-8 Sentence 8 At its peak , the concentration of GENEXXX was some twofold higher than that of GENEXXX . Parse 0 +------------MOD_PRED:N-ADJ-----------+ +------------COMP_at:V-N------------+ +MOD:AD+MOD:AD+COMP_than:+COMP_of:V+ | | | | | | | | At its peak , the concentration of GENEXXX was some twofold higher than that of GENEXXX . COMP_at:V-N (was,peak) MOD_PRED:N-ADJ (concentration,higher) MOD:ADJ-ADV (twofold,some) MOD:ADJ-ADV (higher,twofold) COMP_than:ADJ-N (higher,that) COMP_of:V-N (that,GENEXXX) PMID: 10220166-11 Sentence 9 GENEXXX shows weak similarities to potassium ion channel proteins and GENEXXX shows resemblance to the GENEXXX suppressor protein GENEXXX . Parse 0 +---OBJ:V-N---+------------COMP_to:N-N------------+ +----------------COMP_to:N-N----------------+ +SUBJ:V+ +MOD_ATT:+ +MOD_AT+MOD_A+MOD_ATT+ +SUBJ:V+-OBJ:V-N+ +MOD_ATT:+MOD_ATT:N+MOD_ATT+ | | | | | | | | | | | | | | | GENEXXX shows weak similarities to potassium ion channel proteins and GENEXXX shows resemblance to the GENEXXX suppressor protein GENEXXX . COMP_to:N-N (resemblance,GENEXXX) COMP_to:N-N (similarities,proteins) MOD_ATT:N-N (GENEXXX,protein) SUBJ:V-N (shows,GENEXXX) MOD_ATT:N-N (protein,suppressor) OBJ:V-N (shows,resemblance) MOD_ATT:N-N (proteins,channel) MOD_ATT:N-ADJ (similarities,weak) MOD_ATT:N-N (channel,ion) MOD_ATT:N-N (ion,potassium) MOD_ATT:N-N (suppressor,GENEXXX) OBJ:V-N (shows,similarities) SUBJ:V-N (shows,GENEXXX) PMID: 10463184-1 Sentence 10 The GENEXXX , GENEXXX ( GENEXXX homologue ) , GENEXXX and GENEXXX ( oxidoreductase homologue ) genes , which are located upstream of the GENEXXX locus , have been identified in the SPXXX genome . Parse 0 +-----------------------------------------------------MOD_ATT:N-N-----------------------------------------------------+ +---------------------------------------MOD_ATT:N-N---------------------------------------+ | | +----------------------------------MOD_ATT:N-N----------------------------------+ | | | | +------------MOD_ATT:N-N------------+----------------------------SUBJ:V_PASS-N----------------------------+ | +-------APPOS------+ | +----------APPOS----------+ | +-----COMP_of:ADV-N----+ +---COMP_in:V_PASS-N--+ | | +MOD_ATT:+ | | +-MOD_ATT:N-N+ +---SUBJ:V_PASS-N--+MOD:V_P+ +MOD_AT+ | +MOD_A+ | | | | | | | | | | | | | | | | The GENEXXX , GENEXXX ( GENEXXX homologue ) , GENEXXX and GENEXXX ( oxidoreductase homologue ) genes , which are located upstream of the GENEXXX locus , have been identified in the SPXXX genome . MOD:V_PASS-ADV (located,upstream) MOD_ATT:N-N (genome,SPXXX) COMP_of:ADV-N (upstream,locus) SUBJ:V_PASS-N (located,genes) MOD_ATT:N-N (identified,GENEXXX) MOD_ATT:N-N (homologue,oxidoreductase) MOD_ATT:N-N (genes,GENEXXX) APPOS (GENEXXX,homologue) MOD_ATT:N-N (genes,GENEXXX) MOD_ATT:N-N (locus,GENEXXX) APPOS (GENEXXX,homologue) COMP_in:V_PASS-N (identified,genome) MOD_ATT:N-N (genes,GENEXXX) SUBJ:V_PASS-N (identified,genes) MOD_ATT:N-N (homologue,GENEXXX) PMID: 10481082-2 Sentence 11 The genes were designated GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , orf10 and GENEXXX . Parse 0 +-------------------------------------------------------MOD_PRED:N-N-------------------------------------------------------+ +--------------------------------------------------MOD_PRED:N-N-------------------------------------------------+ | +---------------------------------------------MOD_PRED:N-N---------------------------------------------+ | | +----------------------------------------MOD_PRED:N-N----------------------------------------+ | | | +-----------------------------------MOD_PRED:N-N-----------------------------------+ | | | | +------------------------------MOD_PRED:N-N------------------------------+ | | | | | +-------------------------MOD_PRED:N-N-------------------------+ | | | | | | +--------------------MOD_PRED:N-N--------------------+ | | | | | | | +---------------MOD_PRED:N-N---------------+ | | | | | | | | +----------MOD_PRED:N-N----------+ | | | | | | | | | +-----MOD_PRED:N-N-----+ | | | | | | | | | | | | | | | | | | | | | | The genes were designated GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , GENEXXX , orf10 and GENEXXX . MOD_PRED:N-N (genes,GENEXXX) MOD_PRED:N-N (genes,GENEXXX) MOD_PRED:N-N (genes,GENEXXX) MOD_PRED:N-N (genes,GENEXXX) MOD_PRED:N-N (genes,orf10) MOD_PRED:N-N (genes,GENEXXX) MOD_PRED:N-N (genes,GENEXXX) MOD_PRED:N-N (genes,GENEXXX) MOD_PRED:N-N (genes,GENEXXX) MOD_PRED:N-N (genes,GENEXXX) MOD_PRED:N-N (genes,GENEXXX) PMID: 10878124-3 Sentence 12 Phylogenetic analyses of various sigma factor sequences from endospore-forming bacteria revealed that homologues of GENEXXX , GENEXXX and GENEXXX clustered together regardless of genus , suggesting a common origin of sporulation sigma factors . Parse 0 +------------------SUBJ:V-N-----------------+------------------------COMP_of:V-N-----------------------+ +---------------------------------SUBJ:V-N---------------------------------+ +------------COMP_of:N-N-----------+ +---------------MOD_ATT:V-V--------------+ +---------COMP_of:N-N--------+ +-----------COMP_of:N-N-----------+---------COMP_from:N-N---------+ | +------COMP_of:N-N-----+ | +-----MOD:V-ADV----+ +-----OBJ:V-N-----+ +--MOD_ATT:N-N--+ +MOD_ATT:N-+ +MOD_AT+MOD_A+MOD_ATT:+ +-MOD_ATT:N-N+ | +-COMP_of:N-N+ | | +MOD:V-AD+ +COMP_of:ADV+ | +MOD_AT+ | +MOD_AT+ | | | | | | | | | | | | | | | | | | | | | | | Phylogenetic analyses of various sigma factor sequences from endospore-forming bacteria revealed that homologues of GENEXXX , GENEXXX and GENEXXX clustered together regardless of genus , suggesting a common origin of sporulation sigma factors . COMP_of:N-N (homologues,GENEXXX) SUBJ:V-N (revealed,analyses) MOD_ATT:N-ADJ (origin,common) MOD_ATT:N-N (factor,sigma) MOD_ATT:N-N (bacteria,endospore-forming) COMP_of:N-N (analyses,sequences) MOD_ATT:N-N (sequences,factor) COMP_of:N-N (homologues,GENEXXX) MOD_ATT:N-ADJ (analyses,Phylogenetic) MOD_ATT:N-N (factors,sporulation) MOD_ATT:N-ADJ (sigma,various) SUBJ:V-N (clustered,homologues) OBJ:V-N (suggesting,origin) COMP_of:V-N (clustered,origin) COMP_from:N-N (sequences,bacteria) MOD_ATT:N-N (factors,sigma) MOD:V-ADV (clustered,together) COMP_of:N-N (homologues,GENEXXX) COMP_of:N-N (origin,factors) MOD:V-ADV (clustered,regardless) COMP_of:ADV-N (regardless,genus) MOD_ATT:V-V (clustered,suggesting) PMID: 1906926-6 Sentence 13 There is also substantial homology between the deduced products of GENEXXX in the tagABC operon and GENEXXX in the tagDEF operon . Parse 0 +-----------------COMP_of:N-N----------------+ +------COMP_between:N-N------+ +-----COMP_in:N-N----+ +-----COMP_in:N-N----+ +MOD_ATT:N+ +MOD_ATT+COMP_of:N-N+ +MOD_AT+ | +MOD_AT+ | | | | | | | | | | There is also substantial homology between the deduced products of GENEXXX in the tagABC operon and GENEXXX in the tagDEF operon . MOD_ATT:N-ADJ (operon,tagABC) MOD_ATT:N-ADJ (products,deduced) COMP_of:N-N (products,GENEXXX) MOD_ATT:N-ADJ (homology,substantial) COMP_in:N-N (GENEXXX,operon) MOD_ATT:N-ADJ (operon,tagDEF) COMP_of:N-N (products,GENEXXX) COMP_in:N-N (GENEXXX,operon) COMP_between:N-N (homology,products) PMID: 2163341-1 Sentence 14 The structural gene ( GENEXXX ) for the mother-cell RNA polymerase sigma-factor GENEXXX in SPXXX is a composite of two truncated genes , named GENEXXX and GENEXXX , which are brought together by site-specific recombination during sporulation . Parse 0 +---------------------------------------MOD_PRED:N-N--------------------------------------+ +---------------------------COMP_for:N-N---------------------------+ | +-----------------SUBJ:V_PASS-N----------------+------------------COMP_during:V_PASS-N------------------+ | +--------MOD_ATT:N-N-------+ | +-------COMP_of:N-N------+ +---OBJ:V_PASS-N---+ +----------COMP_by:V_PASS-N----------+ | +MOD_ATT+--APPOS-+ | +MOD_AT+MOD_ATT:N-N+MOD_ATT:N-+COMP_in:N+ | +MOD_ATT+SUBJ:V_+OBJ:V_+ | +MOD:V_P+ +MOD_ATT:N-ADJ+ | | | | | | | | | | | | | | | | | | | | | The structural gene ( GENEXXX ) for the mother-cell RNA polymerase sigma-factor GENEXXX in SPXXX is a composite of two truncated genes , named GENEXXX and GENEXXX , which are brought together by site-specific recombination during sporulation . COMP_by:V_PASS-N (brought,recombination) MOD:V_PASS-ADV (brought,together) MOD_ATT:N-N (sigma-factor,polymerase) COMP_for:N-N (gene,GENEXXX) COMP_in:N-N (GENEXXX,SPXXX) MOD_ATT:N-ADJ (recombination,site-specific) MOD_ATT:N-N (GENEXXX,sigma-factor) MOD_PRED:N-N (gene,composite) COMP_during:V_PASS-N (brought,sporulation) MOD_ATT:N-N (sigma-factor,mother-cell) APPOS (GENEXXX,gene) MOD_ATT:N-ADJ (gene,structural) MOD_ATT:N-ADJ (genes,truncated) SUBJ:V_PASS-N (named,genes) SUBJ:V_PASS-N (brought,genes) MOD_ATT:N-N (polymerase,RNA) COMP_of:N-N (composite,genes) OBJ:V_PASS-N (named,GENEXXX) OBJ:V_PASS-N (named,GENEXXX) PMID: 2997585-2 Sentence 15 The GENEXXX locus lay between GENEXXX and lys , tightly linked to GENEXXX and inseparable from GENEXXX . Parse 0 +------------------MOD_POST:N-ADJ-----------------+ | +-------------MOD_POST:N-ADJ------------+ +------SUBJ:V_PASS-N-----+ | +----COMP_between:V-N---+-SUBJ:V_PASS-N+ | +MOD_AT+SUBJ+COMP_between:+ | +MOD:V_+COMP_to:V_+ +COMP_from:ADJ-+ | | | | | | | | | | The GENEXXX locus lay between GENEXXX and lys , tightly linked to GENEXXX and inseparable from GENEXXX . MOD:V_PASS-ADV (linked,tightly) SUBJ:V_PASS-N (linked,lys) COMP_from:ADJ-N (inseparable,GENEXXX) COMP_between:V-N (lay,GENEXXX) COMP_between:V-N (lay,lys) MOD_ATT:N-N (locus,GENEXXX) COMP_to:V_PASS-N (linked,GENEXXX) SUBJ:V_PASS-N (linked,GENEXXX) SUBJ:V-N (lay,locus) MOD_POST:N-ADJ (GENEXXX,inseparable) MOD_POST:N-ADJ (lys,inseparable) PMID: 3086839-2 Sentence 16 The complete nucleotide sequence of a 5 kb fragment including the entire GENEXXX gene revealed the presence of two other genes preceding GENEXXX in the order P23 GENEXXX GENEXXX . Parse 0 +---------------------------SUBJ:V-N--------------------------+ | +---------OBJ:V-N---------+ | +-----COMP_of:N-N----+ +---MOD_POST:N-N---+ +---MOD_ATT:N-ADJ---+----COMP_of:N-N---+ | +MOD_ATT:N-ADJ+ | | +MOD_ATT:N-+ +------COMP_in:V-N-----+MOD_POST:N+ | | +MOD_ATT:N+ +M+MOD_A+-SUBJ:V-N+ | +MOD_A+ +---OBJ:V-N--+ +MOD_+ +SUBJ:V-+-OBJ:V-N+ +MOD_+ | | | | | | | | | | | | | | | | | | | | | | | The complete nucleotide sequence of a 5 kb fragment including the entire GENEXXX gene revealed the presence of two other genes preceding GENEXXX in the order P23 GENEXXX GENEXXX . MOD_ATT:N-ADJ (two,genes) COMP_of:N-N (sequence,fragment) MOD_POST:N-N (order,GENEXXX) OBJ:V-N (revealed,presence) MOD_ATT:N-ADJ (fragment,kb) OBJ:V-N (preceding,GENEXXX) SUBJ:V-N (including,fragment) MOD_ATT:N-ADJ (sequence,complete) MOD_ATT:N-N (gene,GENEXXX) MOD_ATT:N-ADJ (other,two) MOD_POST:N-N (order,P23) SUBJ:V-N (revealed,sequence) SUBJ:V-N (preceding,genes) MOD_ATT:N-N (sequence,nucleotide) OBJ:V-N (including,gene) COMP_of:N-N (presence,genes) MOD_ATT:N-ADJ (kb,5) MOD_ATT:N-ADJ (gene,entire) MOD_POST:N-N (order,GENEXXX) COMP_in:V-N (preceding,order) PMID: 3106319-2 Sentence 17 One sigma factor , which appears 2 h after the initiation of sporulation , is GENEXXX ( formerly GENEXXX ) . Parse 0 +----------------------------MOD_PRED:N-N----------------------------+ +MOD_A+----SUBJ:V-N---+----COMP_after:V-N----+--COMP_of:N-N-+ +-------APPOS------+ | | | | | | | One sigma factor , which appears 2 h after the initiation of sporulation , is GENEXXX ( formerly GENEXXX ) . COMP_of:N-N (initiation,sporulation) COMP_after:V-N (appears,initiation) SUBJ:V-N (appears,factor) MOD_PRED:N-N (factor,GENEXXX) MOD_ATT:N-N (factor,sigma) APPOS (GENEXXX,GENEXXX) PMID: 7494477-6 Sentence 18 Two such amino acid substitutions were isolated in GENEXXX and one was isolated in GENEXXX . Parse 0 +------MOD_ATT:N-ADJ-----+ | +MOD_+MOD_ATT:N+-MOD_PRED:N-ADJ+COMP_in:ADJ+ +MOD_PRED:+COMP_in:ADJ+ | | | | | | | | | Two such amino acid substitutions were isolated in GENEXXX and one was isolated in GENEXXX . MOD_PRED:N-ADJ (one,isolated) MOD_ATT:N-ADJ (acid,amino) MOD_PRED:N-ADJ (substitutions,isolated) MOD_ATT:N-ADJ (substitutions,Two) MOD_ATT:N-N (substitutions,acid) COMP_in:ADJ-N (isolated,GENEXXX) COMP_in:ADJ-N (isolated,GENEXXX) PMID: 7540694-1 Sentence 19 Three genes called GENEXXX , GENEXXX and GENEXXX were found near the GENEXXX gene in SPXXX . Parse 0 +-----------------SUBJ:V_PASS-N-----------------+ | +-----------OBJ:V-N-----------+ +-------COMP_in:V_PASS-N-------+ | +-----OBJ:V-N-----+ | +--COMP_near:V_PASS-N-+ | +MOD_A+SUBJ:+OBJ:V-N+ | | | +MOD_A+ | | | | | | | | | | | Three genes called GENEXXX , GENEXXX and GENEXXX were found near the GENEXXX gene in SPXXX . COMP_near:V_PASS-N (found,gene) SUBJ:V_PASS-N (called,genes) MOD_ATT:N-ADJ (genes,Three) OBJ:V-N (called,GENEXXX) COMP_in:V_PASS-N (found,SPXXX) OBJ:V-N (called,GENEXXX) OBJ:V-N (called,GENEXXX) SUBJ:V_PASS-N (found,genes) MOD_ATT:N-N (gene,GENEXXX) PMID: 7704261-1 Sentence 20 As part of the SPXXX genome sequencing project , we have determined the complete nucleotide sequence of a skin element which is located between GENEXXX and GENEXXX . Parse 0 +-----------------------COMP_as:V-N----------------------+-------------OBJ:V-N-------------+ +-------------COMP_of:N-N-------------+ | +---MOD_ATT:N-ADJ---+----COMP_of:N-N---+ +---COMP_between:V_PASS-N---+ | +MOD_A+MOD_ATT:+MOD_ATT:N+ +--SUBJ:V-N-+ | +MOD_ATT:N+ +MOD_AT+--SUBJ:V_PASS-N-+COMP_between:V_+ | | | | | | | | | | | | | | | | As part of the SPXXX genome sequencing project , we have determined the complete nucleotide sequence of a skin element which is located between GENEXXX and GENEXXX . MOD_ATT:N-N (genome,SPXXX) MOD_ATT:N-N (sequencing,genome) COMP_of:N-N (part,project) COMP_between:V_PASS-N (located,GENEXXX) MOD_ATT:N-N (element,skin) MOD_ATT:N-N (sequence,nucleotide) COMP_between:V_PASS-N (located,GENEXXX) COMP_of:N-N (sequence,element) SUBJ:V-N (determined,we) COMP_as:V-N (determined,part) OBJ:V-N (determined,sequence) MOD_ATT:N-ADJ (sequence,complete) MOD_ATT:N-N (project,sequencing) SUBJ:V_PASS-N (located,element) PMID: 7797557-6 Sentence 21 The hydropathy profiles of the GENEXXX and GENEXXX gene products suggest a transmembrane location for the former and an amino-terminal signal peptide for the latter . Parse 0 +---------------------SUBJ:V-N--------------------+ +---------------COMP_of:N-N--------------+ +-----------------------------------OBJ:V-N----------------------------------+ | +---MOD_ATT:N-N---+ | +--------OBJ:V-N--------+ +---MOD_ATT:N-ADJ--+ +MOD_ATT:N+ | +MOD_A+MOD_AT+ | +MOD_ATT:N-+--COMP_for:N-N-+ | +MOD_ATT+-COMP_for:N-N-+ | | | | | | | | | | | | | | The hydropathy profiles of the GENEXXX and GENEXXX gene products suggest a transmembrane location for the former and an amino-terminal signal peptide for the latter . MOD_ATT:N-ADJ (peptide,amino-terminal) MOD_ATT:N-N (peptide,signal) MOD_ATT:N-ADJ (location,transmembrane) MOD_ATT:N-N (products,gene) COMP_for:N-N (location,former) OBJ:V-N (suggest,peptide) MOD_ATT:N-N (profiles,hydropathy) COMP_of:N-N (profiles,products) MOD_ATT:N-N (gene,GENEXXX) MOD_ATT:N-N (gene,GENEXXX) COMP_for:N-N (peptide,latter) SUBJ:V-N (suggest,profiles) OBJ:V-N (suggest,location) PMID: 8752328-4 Sentence 22 The GENEXXX and GENEXXX genes are transcribed in the same direction , are separated by a short intergenic region , and are likely to form an operon . Parse 0 +------------------------------------------MOD_PRED:N-ADJ------------------------------------------+ | +-------COMP_by:V_PASS-N------+ | +----MOD_ATT:N-N---+-------------------SUBJ:V_PASS-N-------------------+ +--MOD_ATT:N-ADJ-+ | | +MOD_AT+SUBJ:V_PASS-+---COMP_in:V_PASS-N---+ | | +MOD_ATT:+ +COMP_to:+-OBJ:V-N+ | | | | | | | | | | | | The GENEXXX and GENEXXX genes are transcribed in the same direction , are separated by a short intergenic region , and are likely to form an operon . COMP_to:ADJ-V (likely,form) MOD_ATT:N-ADJ (region,short) COMP_by:V_PASS-N (separated,region) SUBJ:V_PASS-N (transcribed,genes) MOD_ATT:N-N (genes,GENEXXX) COMP_in:V_PASS-N (transcribed,direction) MOD_PRED:N-ADJ (genes,likely) MOD_ATT:N-ADJ (region,intergenic) SUBJ:V_PASS-N (separated,genes) MOD_ATT:N-N (genes,GENEXXX) OBJ:V-N (form,operon) PMID: 9683503-1 Sentence 23 GENEXXX , GENEXXX , and GENEXXX operons are responsible for the synthesis of cell wall anionic polymer , teichoic acid , and teichuronic acid , respectively , in SPXXX . Parse 0 +---------------------------------------------------COMP_in:ADJ-N--------------------------------------------------+ | +-----------------------------COMP_of:N-N-----------------------------+ | | +------------------COMP_of:N-N-----------------+ | | +----------MOD_ATT:N-N----------+ | +---------COMP_of:N-N---------+ | | | | +-----MOD_ATT:N-N-----+ | | +--MOD_ATT:N-N-+ | | | | | +MOD_ATT+MOD_PRED:N-AD+--COMP_for:ADJ-N--+ +MOD_+ +MOD_ATT+ +MOD_AT+ +MOD_ATT+ | | | | | | | | | | | | | | | | GENEXXX , GENEXXX , and GENEXXX operons are responsible for the synthesis of cell wall anionic polymer , teichoic acid , and teichuronic acid , respectively , in SPXXX . MOD_ATT:N-N (wall,cell) MOD_ATT:N-N (operons,GENEXXX) MOD_ATT:N-N (operons,GENEXXX) MOD_ATT:N-ADJ (acid,teichoic) MOD_ATT:N-ADJ (polymer,anionic) COMP_of:N-N (synthesis,acid) COMP_of:N-N (synthesis,polymer) MOD_ATT:N-N (operons,GENEXXX) MOD_ATT:N-ADJ (acid,teichuronic) COMP_in:ADJ-N (responsible,SPXXX) COMP_of:N-N (synthesis,acid) MOD_PRED:N-ADJ (operons,responsible) MOD_ATT:N-N (polymer,wall) COMP_for:ADJ-N (responsible,synthesis) PMID: 9767589-2 Sentence 24 The developmental programme of these two cells involves the compartmentalized activities of GENEXXX in the larger mother cell and of GENEXXX in the smaller prespore . Parse 0 +---------------------------------COMP_in:V-N--------------------------------+ +---------------------COMP_of:N-N---------------------+ | +----------SUBJ:V-N---------+------------OBJ:V-N------------+--------------COMP_in:N-N--------------+ | | +MOD_ATT:N-A+-----COMP_of:N-N----+ | +MOD_ATT:N-ADJ+-COMP_of:N-N+ +MOD_A+ | | | | | | | | | | | | | The developmental programme of these two cells involves the compartmentalized activities of GENEXXX in the larger mother cell and of GENEXXX in the smaller prespore . SUBJ:V-N (involves,programme) COMP_of:N-N (programme,cells) MOD_ATT:N-ADJ (activities,compartmentalized) COMP_in:V-N (activities,prespore) MOD_ATT:N-ADJ (programme,developmental) COMP_in:N-N (activities,cell) COMP_of:N-N (activities,GENEXXX) OBJ:V-N (involves,activities) MOD_ATT:N-N (cell,mother) COMP_of:N-N (activities,GENEXXX) PMID: 10754235-4 Sentence 25 In addition to others , it represses GENEXXX and activates GENEXXX and GENEXXX transcription . Parse 0 +------------------COMP_in:V-N-----------------+ | +----------SUBJ:V-N----------+------------OBJ:V-N------------+ +-------COMP_in:V-N------+ | +------MOD_ATT:N-N-----+ +COMP_to:N-+ +SUBJ:V+-OBJ:V-N+ | | +MOD_ATT:N-+ | | | | | | | | | In addition to others , it represses GENEXXX and activates GENEXXX and GENEXXX transcription . COMP_to:N-N (addition,others) SUBJ:V-N (represses,it) COMP_in:V-N (represses,addition) OBJ:V-N (represses,GENEXXX) SUBJ:V-N (activates,it) MOD_ATT:N-N (transcription,GENEXXX) OBJ:V-N (activates,transcription) MOD_ATT:N-N (transcription,GENEXXX) COMP_in:V-N (activates,addition) PMID: 2468649-2 Sentence 26 Transcription of these genes is mediated by RNA polymerase containing GENEXXX ( GENEXXX ) , the product of the GENEXXX gene , which is itself expressed at stage III in the developing forespore . Parse 0 +--------SUBJ:V_PASS-N-------+COMP_by:V_PASS-N+ +----------APPOS----------+-----COMP_of:N-N----+------SUBJ:V_PASS-N------+------------COMP_in:V_PASS-N------------+ +----COMP_of:N-N---+ | +MOD_AT+-SUBJ:V-N-+-OBJ:V-N-+--APPOS--+ | +MOD_A+ +MOD:V_PA+COMP_at:V_+MOD_+ +MOD_ATT:N-+ | | | | | | | | | | | | | | | | | Transcription of these genes is mediated by RNA polymerase containing GENEXXX ( GENEXXX ) , the product of the GENEXXX gene , which is itself expressed at stage III in the developing forespore . COMP_in:V_PASS-N (expressed,forespore) SUBJ:V_PASS-N (expressed,gene) OBJ:V-N (containing,GENEXXX) SUBJ:V-N (containing,polymerase) COMP_by:V_PASS-N (mediated,polymerase) APPOS (GENEXXX,product) MOD:V_PASS-ADV (expressed,itself) COMP_of:N-N (Transcription,genes) COMP_of:N-N (product,gene) SUBJ:V_PASS-N (mediated,Transcription) MOD_ATT:N-N (gene,GENEXXX) MOD_ATT:N-N (polymerase,RNA) APPOS (GENEXXX,GENEXXX) MOD_ATT:N-ADJ (forespore,developing) COMP_at:V_PASS-N (expressed,stage) MOD_POST:N-ADJ (stage,III) PMID: 3114422-6 Sentence 27 One branch leads to expression of GENEXXX within the spore compartment , the other to expression of GENEXXX in the mother cell . Parse 0 +---------------------------------COMP_to:V-N--------------------------------+ +-----------------------------SUBJ:V-N----------------------------+ | | +------------COMP_within:N-N------------+ | +-----------COMP_in:N-N----------+ +SUBJ:V+COMP_to:V-+-COMP_of:N-N+ +MOD_ATT:+ | +-COMP_of:N-N+ +MOD_A+ | | | | | | | | | | | One branch leads to expression of GENEXXX within the spore compartment , the other to expression of GENEXXX in the mother cell . COMP_to:V-N (leads,expression) COMP_of:N-N (expression,GENEXXX) COMP_in:N-N (expression,cell) MOD_ATT:N-N (cell,mother) SUBJ:V-N (leads,branch) COMP_within:N-N (expression,compartment) MOD_ATT:N-N (compartment,spore) COMP_of:N-N (expression,GENEXXX) COMP_to:V-N (leads,expression) SUBJ:V-N (leads,other) PMID: 7679386-7 Sentence 28 Such promoters depend on sigma factors ( GENEXXX and GENEXXX , respectively ) particularly similar to the deduced GENEXXX gene product . Parse 0 +-----------COMP_to:ADJ-N-----------+ +-----------------------MOD_PRED:N-ADJ----------------------+ +----MOD_ATT:N-ADJ---+ +---COMP_on:V-N--+--------APPOS--------+ | | +-MOD_ATT:N-N+ +SUBJ:V-+ +MOD_AT+--APPOS--+ | +MOD:ADJ-AD+ | | +MOD_AT+ | | | | | | | | | | | | Such promoters depend on sigma factors ( GENEXXX and GENEXXX , respectively ) particularly similar to the deduced GENEXXX gene product . MOD_ATT:N-N (factors,sigma) APPOS (factors,GENEXXX) MOD_ATT:N-ADJ (product,deduced) APPOS (factors,GENEXXX) MOD_ATT:N-N (product,gene) SUBJ:V-N (depend,promoters) COMP_to:ADJ-N (similar,product) COMP_on:V-N (depend,factors) MOD:ADJ-ADV (similar,particularly) MOD_ATT:N-N (product,GENEXXX) MOD_PRED:N-ADJ (factors,similar) PMID: 8320224-5 Sentence 29 Reconstitution analysis of GENEXXX purified from the sporulating cell extracts and vegetative core RNA polymerase showed that GENEXXX recognizes the P2 promoter . Parse 0 +---------------------------------------------SUBJ:V-N--------------------------------------------+ | +-------------------------COMP_from:V_PASS-N-------------------------+ | | +--------COMP_from:V_PASS-N--------+ +MOD_ATT:N-N+ | +-----OBJ:V-N----+ +MOD_ATT:N-N+COMP_of:N-N+SUBJ:V_+ +MOD_ATT+MOD_AT+ +MOD_ATT+ +MOD_AT+ | +SUBJ:V-N+ +MOD_A+ | | | | | | | | | | | | | | | | Reconstitution analysis of GENEXXX purified from the sporulating cell extracts and vegetative core RNA polymerase showed that GENEXXX recognizes the P2 promoter . COMP_of:N-N (analysis,GENEXXX) COMP_from:V_PASS-N (purified,extracts) MOD_ATT:N-N (extracts,cell) MOD_ATT:N-N (polymerase,RNA) COMP_from:V_PASS-N (purified,polymerase) OBJ:V-N (recognizes,promoter) MOD_ATT:N-ADJ (core,vegetative) SUBJ:V-N (showed,analysis) SUBJ:V_PASS-N (purified,GENEXXX) MOD_ATT:N-N (analysis,Reconstitution) MOD_ATT:N-N (polymerase,core) MOD_ATT:N-N (cell,sporulating) MOD_ATT:N-N (promoter,P2) SUBJ:V-N (recognizes,GENEXXX) PMID: 9004507-2 Sentence 30 In some conditions , this gene can be transcribed by RNA polymerase associated with either GENEXXX or GENEXXX , in contrast to previous studies implying exclusive control by GENEXXX . Parse 0 +-----------------------------------COMP_in:V_PASS-N----------------------------------+ +-------COMP_in:V_PASS-N-------+-COMP_by:V_PASS-N+ +-------COMP_with:V_PASS-N-------+ +-----COMP_to:N-N----+ +------OBJ:V-N-----+ | +-SUBJ:V_PASS-N-+ +MOD_AT+SUBJ:V_PAS+--COMP_with:V_PASS-N-+ | | +MOD_ATT:+SUBJ:V-+ +MOD_ATT:+COMP_by:N-+ | | | | | | | | | | | | | | | | In some conditions , this gene can be transcribed by RNA polymerase associated with either GENEXXX or GENEXXX , in contrast to previous studies implying exclusive control by GENEXXX . COMP_by:N-N (control,GENEXXX) MOD_ATT:N-N (polymerase,RNA) COMP_with:V_PASS-N (associated,GENEXXX) COMP_in:V_PASS-N (transcribed,conditions) SUBJ:V_PASS-N (associated,polymerase) MOD_ATT:N-ADJ (studies,previous) COMP_by:V_PASS-N (transcribed,polymerase) SUBJ:V_PASS-N (transcribed,gene) COMP_to:N-N (contrast,studies) OBJ:V-N (implying,control) COMP_in:V_PASS-N (can,contrast) COMP_with:V_PASS-N (associated,GENEXXX) SUBJ:V-N (implying,studies) MOD_ATT:N-ADJ (control,exclusive) PMID: 9271869-5 Sentence 31 Two promoters are involved in transcriptional initiation , the GENEXXX dependent upstream promoter contributes to the basal level during growth , whereas the GENEXXX dependent downstream promoter is induced after different stress conditions . Parse 0 +----------COMP_during:V-N---------+ +------COMP_after:V_PASS-N------+ +------COMP_in:V_PASS-N------+ +--MOD_ATT:N-ADJ--+ +-----COMP_to:V-N-----+ | +---MOD_ATT:N-ADJ---+ | +--MOD_ATT:N-ADJ-+ +SUBJ:V_PASS-+ +MOD_ATT:N-AD+ +MOD:ADJ-+ +MOD_ATT:+-SUBJ:V-N-+ +MOD_A+ | +MOD:ADJ-+ +MOD_ATT:N+SUBJ:V_PASS+ | +MOD_ATT:+ | | | | | | | | | | | | | | | | | | | | Two promoters are involved in transcriptional initiation , the GENEXXX dependent upstream promoter contributes to the basal level during growth , whereas the GENEXXX dependent downstream promoter is induced after different stress conditions . MOD:ADJ-N (dependent,GENEXXX) COMP_in:V_PASS-N (involved,initiation) COMP_after:V_PASS-N (induced,conditions) COMP_during:V-N (contributes,growth) MOD_ATT:N-ADJ (promoter,dependent) MOD_ATT:N-ADJ (initiation,transcriptional) SUBJ:V_PASS-N (involved,promoters) COMP_to:V-N (contributes,level) MOD_ATT:N-N (conditions,stress) MOD_ATT:N-ADJ (promoter,downstream) SUBJ:V_PASS-N (induced,promoter) MOD_ATT:N-ADJ (promoter,upstream) MOD_ATT:N-ADJ (promoter,dependent) SUBJ:V-N (contributes,promoter) MOD:ADJ-N (dependent,GENEXXX) MOD_ATT:N-ADJ (level,basal) MOD_ATT:N-ADJ (conditions,different) PMID: 2492118-3 Sentence 32 A 14-kD protein was also discovered that changes the specificity of GENEXXX containing RNA polymerase , greatly stimulating GENEXXX transcription and markedly repressing GENEXXX transcription . Parse 0 +------------------------------------------SUBJ:V-N-----------------------------------------+ +------------SUBJ:V-N------------+ +-------------------SUBJ:V-N------------------+ | +--SUBJ:V_PASS-N--+ | | +----OBJ:V-N---+ +-------OBJ:V-N------+ +-------OBJ:V-N------+ +MOD_AT+ +MOD+ | +---OBJ:V-N---+-COMP_of:N-N+SUBJ:V-N+ +MOD_AT+ +MOD:V-ADV+ +MOD_ATT:N-+ +MOD:V-ADV+ +MOD_ATT:N-+ | | | | | | | | | | | | | | | | | | | A 14-kD protein was also discovered that changes the specificity of GENEXXX containing RNA polymerase , greatly stimulating GENEXXX transcription and markedly repressing GENEXXX transcription . SUBJ:V-N (stimulating,GENEXXX) MOD_ATT:N-N (transcription,GENEXXX) MOD:V-ADV (stimulating,greatly) COMP_of:N-N (specificity,GENEXXX) MOD_ATT:N-N (transcription,GENEXXX) OBJ:V-N (containing,polymerase) OBJ:V-N (changes,specificity) OBJ:V-N (repressing,transcription) MOD:V-ADV (was,also) MOD:V-ADV (repressing,markedly) SUBJ:V-N (containing,GENEXXX) SUBJ:V_PASS-N (discovered,protein) OBJ:V-N (stimulating,transcription) MOD_ATT:N-N (protein,14-kD) MOD_ATT:N-N (polymerase,RNA) SUBJ:V-N (repressing,GENEXXX) SUBJ:V-N (changes,protein) PMID: 3127379-1 Sentence 33 Three promoters direct transcription of the GENEXXX ( GENEXXX ) operon in SPXXX . Parse 0 +-------------COMP_of:N-N------------+ | +----MOD_ATT:N-N---+ +SUBJ:V-+--OBJ:V-N-+ +--APPOS--+ +COMP_in:N+ | | | | | | | Three promoters direct transcription of the GENEXXX ( GENEXXX ) operon in SPXXX . COMP_of:N-N (transcription,operon) APPOS (GENEXXX,GENEXXX) OBJ:V-N (direct,transcription) SUBJ:V-N (direct,promoters) MOD_ATT:N-N (operon,GENEXXX) COMP_in:N-N (operon,SPXXX) PMID: 7966271-1 Sentence 34 Mother-cell-specific gene expression during sporulation of SPXXX is controlled by GENEXXX and GENEXXX RNA polymerases . Parse 0 +-----------COMP_by:V_PASS-N-----------+ | +-------MOD_ATT:N-N-------+ +--------------SUBJ:V_PASS-N--------------+ | +-MOD_ATT:N-N-+ +-MOD_ATT:N-N+MOD_ATT+--COMP_during:N-N-+COMP_of:N-N+ | | | +MOD_ATT+ | | | | | | | | | | Mother-cell-specific gene expression during sporulation of SPXXX is controlled by GENEXXX and GENEXXX RNA polymerases . MOD_ATT:N-N (polymerases,RNA) MOD_ATT:N-N (polymerases,GENEXXX) COMP_during:N-N (expression,sporulation) MOD_ATT:N-N (expression,gene) COMP_by:V_PASS-N (controlled,polymerases) MOD_ATT:N-N (gene,Mother-cell-specific) MOD_ATT:N-N (polymerases,GENEXXX) COMP_of:N-N (sporulation,SPXXX) SUBJ:V_PASS-N (controlled,expression) PMID: 7592487-1 Sentence 35 The promoter of this operon is recognized by RNA polymerase containing the GENEXXX like factor GENEXXX . Parse 0 +-------SUBJ:V_PASS-N-------+-COMP_by:V_PASS-N+ +-------------OBJ:V-N-------------+ +--COMP_of:N-N--+ | +MOD_AT+-SUBJ:V-N-+ +MOD:A+MOD_A+MOD_ATT+ | | | | | | | | | | The promoter of this operon is recognized by RNA polymerase containing the GENEXXX like factor GENEXXX . COMP_by:V_PASS-N (recognized,polymerase) COMP_of:N-N (promoter,operon) SUBJ:V_PASS-N (recognized,promoter) MOD_ATT:N-N (polymerase,RNA) SUBJ:V-N (containing,polymerase) OBJ:V-N (containing,GENEXXX) MOD_ATT:N-N (GENEXXX,factor) MOD:ADJ-N (like,GENEXXX) MOD_ATT:N-ADJ (factor,like) PMID: 9422603-5 Sentence 36 DNA sequences upstream of P1 were similar to consensus GENEXXX dependent promoters , while P2 and P3 were similar to consensus GENEXXX dependent promoters . Parse 0 +-------------COMP_to:ADJ-N-------------+ +-------------COMP_to:ADJ-N-------------+ +-------MOD_PRED:N-ADJ-------+ +--------MOD_ATT:N-N--------+ +--MOD_PRED:N-ADJ-+ +--------MOD_ATT:N-N--------+ +MOD_AT+MOD_ATT:+COMP_of:+ | | +MOD:ADJ-+MOD_ATT:N+ | +MOD_PRED:N+ | +MOD:ADJ-+MOD_ATT:N+ | | | | | | | | | | | | | | | | DNA sequences upstream of P1 were similar to consensus GENEXXX dependent promoters , while P2 and P3 were similar to consensus GENEXXX dependent promoters . COMP_to:ADJ-N (similar,promoters) MOD:ADJ-N (dependent,GENEXXX) COMP_to:ADJ-N (similar,promoters) MOD_ATT:N-N (promoters,consensus) MOD_PRED:N-ADJ (P3,similar) MOD_PRED:N-ADJ (P2,similar) MOD_ATT:N-ADJ (promoters,dependent) MOD:ADJ-N (dependent,GENEXXX) MOD_ATT:N-N (promoters,consensus) MOD_PRED:N-ADJ (sequences,similar) COMP_of:ADJ-N (upstream,P1) MOD_ATT:N-ADJ (promoters,dependent) MOD_ATT:N-N (sequences,DNA) MOD_ATT:N-ADJ (sequences,upstream) PMID: 9535080-4 Sentence 37 The start point of transcription is preceded by potential promoter sequences for GENEXXX , GENEXXX and GENEXXX . Parse 0 +--------COMP_by:V_PASS-N-------+-----------COMP_for:N-N-----------+ +-------SUBJ:V_PASS-N------+ +---MOD_ATT:N-ADJ--+-----COMP_for:N-N-----+ | +MOD_A+-COMP_of:N-N+ | | +MOD_ATT:N+COMP_for:N-N+ | | | | | | | | | | | | The start point of transcription is preceded by potential promoter sequences for GENEXXX , GENEXXX and GENEXXX . SUBJ:V_PASS-N (preceded,point) COMP_for:N-N (sequences,GENEXXX) COMP_of:N-N (point,transcription) COMP_by:V_PASS-N (preceded,sequences) MOD_ATT:N-N (point,start) COMP_for:N-N (sequences,GENEXXX) COMP_for:N-N (sequences,GENEXXX) MOD_ATT:N-N (sequences,promoter) MOD_ATT:N-ADJ (sequences,potential) PMID: 2111808-2 Sentence 38 One such factor , GENEXXX ( GENEXXX ) , is expressed during vegetative growth and has been implicated in the transcription of a regulon of genes expressed during exponential growth and the early stationary phase . Parse 0 +-----------------------------------SUBJ:V_PASS-N-----------------------------------+ +-------------------COMP_during:V_PASS-N-------------------+ +-----------SUBJ:V_PASS-N-----------+---COMP_during:V_PASS-N--+ | +---COMP_during:V_PASS-N---+ +--MOD_ATT:N-ADJ-+ +--APPOS--+--APPOS--+ | +MOD_ATT:+ +--COMP_in:V_PASS-N-+--COMP_of:N-N--+COMP_of:N+SUBJ:V_+ +MOD_ATT:+ | +MOD_ATT:+ | | | | | | | | | | | | | | | | One such factor , GENEXXX ( GENEXXX ) , is expressed during vegetative growth and has been implicated in the transcription of a regulon of genes expressed during exponential growth and the early stationary phase . MOD_ATT:N-ADJ (growth,exponential) COMP_during:V_PASS-N (expressed,growth) MOD_ATT:N-ADJ (growth,vegetative) SUBJ:V_PASS-N (implicated,factor) COMP_of:N-N (regulon,genes) MOD_ATT:N-ADJ (phase,early) SUBJ:V_PASS-N (expressed,factor) APPOS (GENEXXX,GENEXXX) APPOS (factor,GENEXXX) COMP_of:N-N (transcription,regulon) SUBJ:V_PASS-N (expressed,genes) COMP_during:V_PASS-N (expressed,phase) COMP_during:V_PASS-N (expressed,growth) MOD_ATT:N-ADJ (phase,stationary) COMP_in:V_PASS-N (implicated,transcription) PMID: 8002610-3 Sentence 39 The GENEXXX structural gene , GENEXXX , lies in an operon with three other genes whose products have been shown to control GENEXXX activity in response to environmental stress . Parse 0 +--------COMP_in:V-N--------+ +---MOD_ATT:N-N--+----SUBJ:V-N----+-----------COMP_with:V-N-----------+ +----OBJ:V-N----+ +-------COMP_to:N-N------+ | +MOD_ATT+--APPOS-+ +COMP_in:V-N+ +MOD_A+MOD_A+-COMP_of:N-N+--SUBJ:V_PASS-N--+COMP_to:V+ +MOD_ATT+ | +MOD_ATT:N+ | | | | | | | | | | | | | | | | | The GENEXXX structural gene , GENEXXX , lies in an operon with three other genes whose products have been shown to control GENEXXX activity in response to environmental stress . COMP_in:V-N (lies,operon) MOD_ATT:N-N (gene,GENEXXX) COMP_with:V-N (lies,genes) COMP_to:N-N (response,stress) MOD_ATT:N-N (activity,GENEXXX) MOD_ATT:N-ADJ (gene,structural) APPOS (gene,GENEXXX) COMP_to:V_PASS-V (shown,control) COMP_in:V-N (control,response) SUBJ:V_PASS-N (shown,products) MOD_ATT:ADJ-ADJ (other,three) SUBJ:V-N (lies,gene) MOD_ATT:N-ADJ (stress,environmental) OBJ:V-N (control,activity) MOD_ATT:N-ADJ (genes,other) COMP_of:N-N (products,genes)