#!/usr/local/bin/perl
open (TEXT, "MRCONSO");
$line = " ";
while ($line ne "")
{
$line = <TEXT>;
next if ($line !~ /ENG/);
if ($line =~ /\b[a-z]+iform\b/i)
{
$term = lc($&);
$subhash{$term}++;
}
}
foreach $key (sort keys %subhash)
{
print "$key\n";
}
exit;
The MRCONSO file (previously called the Mr. Con file) is the large (greater than 800 Megabyte) UMLS Metathesaurus file that contains all of the metathesaurus terms. It is available free from the U.S. National Library of Medicine, but you need to register and complete an online license agreement before they will release the metathesaurus files to you.
The Perl script (above) can be easily modified for simple extraction projects. If you're interested in learning Perl to help you with biomedical projects, you might want to read my book, Methods in Medical Informatics: Fundamentals of Healthcare Programming in Perl, Python, and Ruby (Chapman & Hall/CRC Mathematical and Computational Biology).
Here is the complete list of "iform" words:
acneiform
acniform
ansiform
apoplectiform
arciform
bacilliform
canaliform
cerebriform
chancriform
choreiform
chyliform
coliform
coralliform
cordiform
cribiform
cribriform
cruciform
cuciform
cuneiform
cupuliform
curariform
dendriform
dermiform
disciform
emboliform
epileptiform
equiform
falciform
fetiform
filariform
filiform
filliform
flagelliform
framboesiform
fundiform
fungiform
fusiform
gadiform
gelatiniform
gigantiform
gyriform
herpetiform
hydatidiform
ichthyosiform
intercuneiform
juxtarestiform
kaposiform
lentiform
licheniform
moniliform
morbilliform
multiform
myrtiform
naviculocuneiform
neuralgiform
nonhydatidiform
noviform
pampiniform
pectiniform
perciform
piriform
pisiform
pityriasiform
plexiform
prepiriform
prepyriform
proteiform
psoriasiform
punctiform
pyriform
rediform
reniform
restiform
retiform
retrolentiform
rhabditiform
rubelliform
sacciform
scarlatiniform
scarletiniform
schizophreniform
sclerodermiform
scorpaeniform
spongiform
storiform
subcuneiform
sublentiform
unciform
uniciform
uniform
valpiform
varicelliform
varioliform
vermiform
verruciform
vitelliform
zosteriform
In June, 2014, my book, entitled Rare Diseases and Orphan Drugs: Keys to Understanding and Treating the Common Diseases was published by Elsevier. The book builds the argument that our best chance of curing the common diseases will come from studying and curing the rare diseases.
I urge you to read more about my book. There's a generous preview of the book at the Google Books site. If you like the book, please request your librarian to purchase a copy of this book for your library or reading room.
- Jules J. Berman, Ph.D., M.D. tags: common disease, orphan disease, orphan drugs, rare disease, disease genetics, biomedical informatics, perl programming
