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targets_title_abstract.pl
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targets_title_abstract.pl
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#!/usr/bin/perl
use 5.010;
use strict;
use POSIX;
use XML::LibXML;;
$ENV{'NLS_LANG'} = 'AMERICAN_AMERICA.AL32UTF8';
my $max_file_index = $ARGV[0];
open(TSYN, "<all_tdark_tbio_2022_list"); #file with the list of targets to search for
$| = 1;
my $file_index;
for (my $i = 1; $i <= $max_file_index; $i++) {
$file_index = $i;
open(RESULT, ">title_$file_index");
my %syns;
while (my $line =<TSYN>) {
chomp($line);
$syns{lc($line)} = 1;
}
my $npat_per_file = 750;
my $npat_per_dir = 750;
my $dir_index = ceil($file_index*$npat_per_file/$npat_per_dir);
my $dir = "downloaded_patents/downloaded_patents_" . sprintf("%04d", $dir_index);
opendir(LASTUPD, "$dir"); #directory with the patents
open(PAT_LIST, "<downloaded_patents/pat_lists/pat_list_$file_index");
my %pat_list;
while (my $line = <PAT_LIST>) {
chomp($line);
my $id = $line;
$pat_list{$id}=1;
}
while (my $filename = readdir LASTUPD) {
if ($filename !~/\.xml/) {next;}
if (!exists $pat_list{$filename}) {next;}
my $dom = XML::LibXML->load_xml(location => "$dir/$filename");
my @title_matches;
my @abstract_matches;
my $found = 0;
my $title_text;
my $abstract_text;
my %start_or_end;
my %title_matches;
my %abstract_matches;
my @pos_title;
my @exact;
my @free;
foreach my $npat ($dom->findnodes('/patent-document/@ucid')) {
$found = 0;
@title_matches = ();
undef %title_matches;
undef %abstract_matches;
my $match_title;
my %start;
my %end;
my @matches_positions_title;
foreach my $title ($npat->findnodes('//invention-title[@lang="EN"]')) {
$title_text = $title->to_literal();
foreach my $syn (sort { length($b) <=> length($a) } keys %syns) {
$match_title = 0;
@matches_positions_title =();
while ($title_text =~/\b\Q$syn\E\b/ig) {
my $start = $-[0];
my $end = $+[0];
push @matches_positions_title, {'syn'=>lc($syn), 'start'=>$start, 'end'=>$end, 'discard'=>0};
if (scalar(keys %title_matches) == 0) {
$title_matches{lc($syn)}=1;
push @pos_title, {'syn'=>lc($syn), 'start'=>$start, 'end'=>$end};
} else {
OUTER: foreach my $p (@pos_title) {
foreach my $mp (@matches_positions_title) {
if (($p->{end} >= $mp->{end} and $p->{start} < $mp->{start}) or ($p->{start} <= $mp->{start} and $p->{end} > $mp->{end})) {
splice @matches_positions_title;
}
}
}
foreach my $mp2 (@matches_positions_title) {
if ($mp2->{discard}==0) {
push @pos_title, {'syn'=>lc($syn), 'start'=>$-[0], 'end'=>$+[0]};
$title_matches{lc($syn)} = 1;
}
}
}
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? inhibitors/i) {
my @count_matches = ($title_text=~/.+? inhibitors/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*inhibitors/i) and $start_or_end{$+[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*inhibitors/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 1: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 1: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/(?:((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?))\s*inhibitors\b/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 1: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 1: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/inhibitors of .+/i) {
my @count_matches = ($title_text =~/inhibitors of (?:soluble|the human|human)?\b.+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/inhibitors of (?:soluble|the human|human)?\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/inhibitors of (?:soluble|the human|human)?\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 3: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 3: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/inhibitors of (?:soluble|the human|human)?\b((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 3: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 3: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? inhibitor\b/i) {
my @count_matches = ($title_text =~/.+? inhibitor\b/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*inhibitor\b/i) and $start_or_end{$+[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*inhibitor\b/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 4: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 4: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*inhibitor\b/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 4: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 4: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/modulators of .+?/i) {
my @count_matches = ($title_text =~/modulators of .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/modulators of\s*(?:the)?\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/modulators of\s*(?:the)?\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 5: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 5: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/modulators of\s*(?:the)?\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 5: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 5: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/modulation of .+?/i) {
my @count_matches = ($title_text =~/modulation of .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/modulation of\s*(?:the)?\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/modulation of\s*(?:the)?\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 6: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 6: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/modulation of\s*(?:the)?\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 6: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 6: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/targeting .+?/i) {
my @count_matches = ($title_text =~/targeting .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/targeting\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/targeting\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 7: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 7: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/targeting\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 7: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 7: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? modulators/i) {
my @count_matches = ($title_text =~/.+? modulators/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*modulators/i) and $start_or_end{$+[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*modulators/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 8: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 8: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*modulators/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 8: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 8: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/binding specifically to .+?/i) {
my @count_matches = ($title_text =~/binding specifically to .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/binding specifically to\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/binding specifically to \b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 9: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 9: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/binding specifically to ((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 9: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 9: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? mutants/i) {
my @count_matches = ($title_text =~/.+? mutants/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*mutants/i) and $start_or_end{$+[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*mutants/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 12: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 12: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/((\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*mutants/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 12: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 12: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/inhibit .+?/i) {
my @count_matches = ($title_text =~/inhibit .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/inhibit\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/inhibit\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 13: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 13: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/inhibit\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 13: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 13: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/antibodies recogni(s|z)ing .+?/i) {
my @count_matches = ($title_text =~/antibodies recogni(?:s|z)ing .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/(?:monoclonal antibodies|antibodies)\s*recogni(?:z|s)ing\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/(?:monoclonal antibodies|antibodies)\s*recogni(?:z|s)ing\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 14: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 14: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/antibodies recogni(?:s|z)ing\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 14: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 14: " . $m;};
}
$found =0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/modulating the .+?/i) {
my @count_matches = ($title_text =~/modulating the .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/modulating the\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/modulating the\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 17: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 17: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/modulating the\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 17: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 17: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/selective .+? inhibitors/i) {
my @count_matches = ($title_text =~/selective .+? inhibitors/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if ($title_text =~/selective\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*inhibitors/i) {
my @count_matches_syn2 = ($title_text =~/selective\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*inhibitors/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 18: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 18: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/selective\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*inhibitors/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 18: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 18: " . $m;};
}
$found =0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? antagonist/i) {
my @count_matches = ($title_text =~/.+? antagonist/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(?:non competitive|non-competitive|competitive)?\s*(?:antagonists|antagonist\b)/i) and $start_or_end{$+[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(?:non competitive|non-competitive|competitive)?\b(?:antagonists|antagonist\b)/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 19: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 19: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*(?:non competitive|non-competitive|competitive)?\s*(?:antagonists|antagonist\b)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 19: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 19: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? \bagonist/i) {
my @count_matches = ($title_text =~/.+? \bagonist/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(?:\bagonist|\bagonists|partial agonist|partial agonists|inverse agonist|inverse agonists)/i) and $start_or_end{$+[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(?:\bagonist|\bagonists|partial agonist|partial agonists|inverse agonist|inverse agonists)/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 20: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 20: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*(?:\bagonist|\bagonists|partial agonist|partial agonists|inverse agonist|inverse agonists)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 20: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 20: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? selective binding compounds/i) {
my @count_matches = ($title_text =~/.+? selective binding compounds/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*selective binding compounds/i) and $start_or_end{$+[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*selective binding compounds/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 21: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 21: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/(?:((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*selective binding compounds)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 21: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 21: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/activity of .+?/i) {
my @count_matches = ($title_text =~/activity of .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/activity of\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/activity of\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 24: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 24: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/activity of\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 24: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 24: " . $m;};
}
$found =0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? antibodies/i) {
my @count_matches = ($title_text =~/(?:anti-)?\s*.+?\s*(?:specific)?\s*(?:monoclonal)?\s*\bantibodies/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/(?:anti-)?\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(specific)?\s*(?:monoclonal antibodies|antibodies)/i) and $start_or_end{$+[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/(?:anti-)?\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(?:specific)?\s*(?:monoclonal antibodies|antibodies)/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 25: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 25: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/(?:anti-)?\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*(?:specific)?\s*(?:monoclonal antibodies|antibodies)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 25: \Q$m\E$/i, @title_matches) and lc($m)!~/anti-/) {push @title_matches, "TITLE FREE 25: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? activity/i) {
my @count_matches = ($title_text =~/.+?\s*(?:\binhibitory|inhibiting)?\s*\bactivity/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(?:inhibitory|inhibiting|antagonistic)?\s*\bactivity/i) and $start_or_end{$+[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(?:inhibitory|inhibiting|antagonistic)?\s*\bactivity/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 26: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 26: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/(\S+(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*(?:inhibitory|inhibiting|antagonistic)?\s*\bactivity/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 26: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 26: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/inhibitor of .+?/i) {
my @count_matches = ($title_text =~/inhibitor of .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/inhibitor of\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/inhibitor of \b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 27: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 27: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/inhibitor of\s*(?:(\S+)(\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 27: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 27: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/.+? binding/i) {
my @count_matches = ($title_text =~/.+? binding/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*binding/i) and $start_or_end{$+[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*binding/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 29: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 29: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*binding/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 29: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 29: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/antibodies directed against .+?/i) {
my @count_matches = ($title_text =~/antibodies directed against .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/(?:monoclonal antibodies|antibodies)\s*directed against\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0){
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/(?:monoclonal antibodies|antibodies)\s*directed against\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 30: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 30: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/(?:monoclonal antibodies|antibodies)\s*directed against\s*((?:\b(\S+)\b)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 30: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 30: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/treatment of .+? related/i) {
my @count_matches = ($title_text =~/treatment of .+? related/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if ($title_text =~/treatment of\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*related/i) {
my @count_matches_syn2 = ($title_text =~/treatment of\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*related/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 31: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 31: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/treatment of\s*((?:\S+)(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)\s*related/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 31: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 31: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/antibody for .+?/i) {
my @count_matches = ($title_text =~/antibody for .+?/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if (($title_text =~/(?:monoclonal antibody|antibody)\s*for\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/i) and $start_or_end{$-[0]}==0) {
$start_or_end{$+[0]} = 1;
my @count_matches_syn2 = ($title_text =~/(?:monoclonal antibody|antibody)\s*for\s*\b\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';
} elsif (lc($1) eq 'kinase' or lc($1) eq 'kinases') {
$append = 'kinase';
}
push @title_matches, "TITLE EXACT 32: " .$syn . " $append";
} else {
push @title_matches, "TITLE EXACT 32: " .$syn;
}
$found = $found + $count_matches_syn2;
}
}
if ($found == $count_matches) {
last;
}
}
if ($found <$count_matches) {
my @matches = $title_text =~/(?:monoclonal antibody|antibody)\s*for\s*(\S+(?:\s*receptor|\s*kinase|\s*receptors|\s*kinases)?)/ig;
foreach my $m (@matches) {
if (length($m)>2 and lc($m) ne 'the' and !grep(/^EXACT 32: \Q$m\E$/i, @title_matches)) {push @title_matches, "TITLE FREE 32: " . $m;};
}
$found = 0;
}
}
$found=0; undef %start_or_end;
$title_text = $title->to_literal();
if ($title_text =~/anti-.+?\s*(?:monoclonal)?\s*antibody/i) {
my @count_matches = ($title_text =~/anti-.+?\s*(?:monoclonal)?\s*antibody/ig);
my $count_matches = @count_matches;
foreach my $syn (sort { length($b) <=> length($a) } keys %title_matches) {
if ($title_text =~/anti-\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(?:monoclonal antibody|antibody)/i) {
my @count_matches_syn2 = ($title_text =~/anti-\Q$syn\E\b\s*(receptor|kinase|receptors|kinases)?\s*(?:monoclonal antibody|antibody)/ig);
my $count_matches_syn2 = @count_matches_syn2;
for ( my $i = 1; $i < $count_matches_syn2 + 1; $i++ ) {
my $append;
if ($1 ne '') {
if (lc($1) eq 'receptor' or lc($1) eq 'receptors') {
$append = 'receptor';