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HighWire 2.0.js
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{
"translatorID": "8c1f42d5-02fa-437b-b2b2-73afc768eb07",
"label": "HighWire 2.0",
"creator": "Matt Burton",
"target": "^[^?#]+(/content/([0-9]+[A-Z\\-]*/|current|firstcite|early)|/search\\?.*?\\bsubmit=|/search(/results)?\\?fulltext=|/cgi/collection/.|/search/.)",
"minVersion": "3.0",
"maxVersion": "",
"priority": 250,
"inRepository": true,
"translatorType": 4,
"browserSupport": "gcsv",
"lastUpdated": "2015-02-26 05:47:57"
}
/*
Translator for several Highwire journals. Example URLs:
1. Ajay Agrawal, Iain Cockburn, and John McHale, “Gone but not forgotten: knowledge flows, labor mobility, and enduring social relationships,” Journal of Economic Geography 6, no. 5 (November 2006): 571-591.
http://joeg.oxfordjournals.org/content/6/5/571 :
2. Gordon L. Clark, Roberto Durán-Fernández, and Kendra Strauss, “‘Being in the market’: the UK house-price bubble and the intended structure of individual pension investment portfolios,” Journal of Economic Geography 10, no. 3 (May 2010): 331-359.
http://joeg.oxfordjournals.org/content/10/3/331.abstract
3. Hans Maes, “Intention, Interpretation, and Contemporary Visual Art,” Brit J Aesthetics 50, no. 2 (April 1, 2010): 121-138.
http://bjaesthetics.oxfordjournals.org/cgi/content/abstract/50/2/121
4. M L Giger et al., “Pulmonary nodules: computer-aided detection in digital chest images.,” Radiographics 10, no. 1 (January 1990): 41-51.
http://radiographics.rsna.org/content/10/1/41.abstract
5. Mitch Leslie, "CLIP catches enzymes in the act," The Journal of Cell Biology 191, no. 1 (October 4, 2010): 2.
http://jcb.rupress.org/content/191/1/2.2.short
*/
function getSearchResults(doc, url, checkOnly) {
var xpaths = [
{
searchx: '//li[contains(@class, "toc-cit") and \
not(ancestor::div/h2/a/text() = "Correction" or \
ancestor::div/h2/a/text() = "Corrections")]',
titlex: './/h4'
},
{
searchx: '//div[@id="normal-search-results"]\
//*[contains(@class, "results-cit cit")]',
titlex: './/*[contains(@class, "cit-title")]'
},
{
searchx: '//div[contains(@class, "toc-level level3")]\
//ul[@class="cit-list"]/div',
titlex: './/span[contains(@class, "cit-title")]'
},
{
searchx: '//div[contains(@class,"main-content-wrapper")]\
//div[contains(@class, "highwire-article-citation")]',
titlex: './/a[contains(@class, "highwire-cite-linked-title")]'
},
{
// BMJ quick search
searchx: '//ol[contains(@class, "search-results")]/li[h3[@class="title"]]',
titlex: './h3[@class="title"]'
},
{
// BMJ advanced search
searchx: '//ul[contains(@class,"highwire-search-results-list")]\
//li[contains(@class, "search-result")]',
titlex: './/a[contains(@class, "highwire-cite-linked-title")]'
}
];
var found = false, items = {},
linkx = '(.//a[not(contains(@href, "hasaccess.xhtml"))])[1]';
for(var i=0; i<xpaths.length && !found; i++) {
var rows = ZU.xpath(doc, xpaths[i].searchx);
if(!rows.length) continue;
for(var j=0, n=rows.length; j<n; j++) {
var title = ZU.xpath(rows[j], xpaths[i].titlex)[0];
if(!title) continue;
var link;
if(title.nodeName == 'A') {
link = title;
} else {
link = ZU.xpath(rows[j], linkx)[0];
if(!link || !link.href) continue;
}
items[link.href] = ZU.trimInternal(title.textContent);
found = true;
if(checkOnly) return true;
}
}
if(found) Zotero.debug('Found search results using xpath set #' + (i-1));
return found ? items : null;
}
//get abstract
function getAbstract(doc) {
//abstract, summary
var abstrSections = ZU.xpath(doc,
'//div[contains(@id,"abstract") or @class="abstractSection"]\
/*[not(contains(@class,"section-nav"))\
and not(contains(@class,"kwd"))]');
var abstr = '';
var paragraph;
for(var i=0, n=abstrSections.length; i<n; i++) {
paragraph = abstrSections[i].textContent.trim();
//ignore the abstract heading
if( paragraph.toLowerCase() == 'abstract' ||
paragraph.toLowerCase() == 'summary' ) {
continue;
}
//put all lines of a paragraph on a single line
paragraph = paragraph.replace(/\s+/g,' ');
abstr += paragraph + "\n";
}
return abstr.trim();
}
//some journals display keywords
function getKeywords(doc) {
//some journals are odd and don't work with this.
//e.g. http://jn.nutrition.org/content/130/12/3122S.abstract
var keywords = ZU.xpath(doc,'//ul[contains(@class,"kwd-group")]//a');
var kwds = new Array();
for(var i=0, n=keywords.length; i<n; i++) {
//don't break for empty nodes
if(keywords[i].textContent) kwds.push(keywords[i].textContent.trim());
}
return kwds;
}
//mimetype map for supplementary attachments
//intentionally excluding potentially large files like videos and zip files
var suppTypeMap = {
'pdf': 'application/pdf',
// 'zip': 'application/zip',
'doc': 'application/msword',
'docx': 'application/vnd.openxmlformats-officedocument.wordprocessingml.document',
'xls': 'application/vnd.ms-excel',
'xlsx': 'application/vnd.openxmlformats-officedocument.spreadsheetml.sheet'
};
//attach supplementary information
function attachSupplementary(doc, item, next) {
var navDiv = doc.getElementById('article-cb-main')
|| doc.getElementById('article-views')
|| ZU.xpath(doc, '//div[contains(@class, "cb-section")]')[0]; //http://www.plantphysiol.org/content/162/1/9.abstract
if(navDiv) {
var suppLink = ZU.xpath(navDiv, './/a[@rel="supplemental-data"]')[0]
|| ZU.xpath(doc, '//a[@rel="supplemental-data"]')[0];
if(suppLink) {
var attachAsLink = Z.getHiddenPref("supplementaryAsLink");
if(attachAsLink) {
item.attachments.push({
title: "Supplementary info",
url: suppLink.href,
mimeType: 'text/html',
snapshot: false
});
} else {
ZU.processDocuments(suppLink.href, function(newDoc, url) {
//sciencemag.org
var container = newDoc.getElementById('sci-bd');
if(container) {
var dts = ZU.xpath(container, './dl/dt');
var dt, dd, title, url, type, snapshot, description;
for(var i=0, n=dts.length; i<n; i++) {
dt = dts[i];
title = ZU.trimInternal(dt.textContent);
dd = dt.nextElementSibling;
if(dd.nodeName.toUpperCase() == 'DD') {
if(dd.firstElementChild
&& dd.firstElementChild.nodeName.toUpperCase() == 'UL') {
description = ZU.xpathText(dd, './ul/li', null, '; ');
} else {
description = dd.textContent;
}
if(description) {
description = ZU.trimInternal(description)
.replace(/\s;/g, ';');
if(description.indexOf(title) === 0
|| title.toUpperCase() == 'DOWNLOAD SUPPLEMENT') {
title = '';
} else {
title += '. ';
}
title += description;
}
}
if(title.toUpperCase() == 'DOWNLOAD SUPPLEMENT') {
title = 'Supplementary Data';
}
url = dt.getElementsByTagName('a')[0];
if(!url) continue;
url = url.href;
type = suppTypeMap[url.substr(url.lastIndexOf('.')+1).toLowerCase()];
//don't download files with unknown type.
//Could be large files we're not accounting for, like videos,
// or HTML pages that we would end up taking snapshots of
snapshot = !attachAsLink && type;
item.attachments.push({
title: title,
url: url,
mimeType: type,
snapshot: !!snapshot
})
}
next(doc, item);
return;
}
//others
container = newDoc.getElementById('content-block');
if(container) {
var links = ZU.xpath(container, './h1[@class="data-supp-article-title"]\
/following-sibling::div//ul//a');
var counters = {}, title, tUC, url, type, snapshot;
for(var i=0, n=links.length; i<n; i++) {
title = links[i].nextSibling; //http://www.plantphysiol.org/content/162/1/9.abstract
if(title) {
title = title.textContent
.replace(/^[^a-z]+/i, '').trim();
}
if(!title) {
title = ZU.trimInternal(links[i].textContent.trim())
.replace(/^download\s+/i, '')
.replace(/\([^()]+\)$/, '');
}
tUC = title.toUpperCase();
if(!counters[tUC]) { //when all supp data has the same title, we'll add some numbers
counters[tUC] = 1;
} else {
title += ' ' + (++counters[tUC]);
}
url = links[i].href;
//determine type by extension
type = suppTypeMap[url.substr(url.lastIndexOf('.')+1).toLowerCase()];
//don't download files with unknown type.
//Could be large files we're not accounting for, like videos,
// or HTML pages that we would end up taking snapshots of
snapshot = !attachAsLink && type;
item.attachments.push({
title: title,
url: url,
mimeType: type,
snapshot: !!snapshot
});
}
next(doc, item);
return;
}
});
return true;
}
}
return;
}
}
//add using embedded metadata
function addEmbMeta(doc) {
var translator = Zotero.loadTranslator("web");
//Embedded Metadata translator
translator.setTranslator("951c027d-74ac-47d4-a107-9c3069ab7b48");
translator.setDocument(doc);
translator.setHandler("itemDone", function(obj, item) {
//remove all caps in Names and Titles
for (i in item.creators){
//Z.debug(item.creators[i])
if(item.creators[i].lastName == item.creators[i].lastName.toUpperCase()) {
item.creators[i].lastName =
ZU.capitalizeTitle(item.creators[i].lastName, true);
}
//we test for existence of first Name to not fail with spotty data.
if(item.creators[i].firstName && item.creators[i].firstName == item.creators[i].firstName.toUpperCase()) {
item.creators[i].firstName =
ZU.capitalizeTitle(item.creators[i].firstName, true);
}
}
if(item.title == item.title.toUpperCase()) {
item.title = ZU.capitalizeTitle(item.title,true);
}
var abs = getAbstract(doc);
if(abs) item.abstractNote = abs;
var kwds = getKeywords(doc);
if(kwds) item.tags = kwds;
if (item.notes) item.notes = [];
//try to get PubMed ID and link if we don't already have it from EM
var pmDiv;
if((!item.extra || item.extra.search(/\bPMID:/) == -1)
&& (pmDiv = doc.getElementById('cb-art-pm'))) {
var pmId = ZU.xpathText(pmDiv, './/a[contains(@class, "cite-link")]/@href')
|| ZU.xpathText(pmDiv, './ol/li[1]/a/@href'); //e.g. http://www.pnas.org/content/108/52/20881.full
if(pmId) pmId = pmId.match(/access_num=(\d+)/);
if(pmId) {
if(item.extra) item.extra += '\n';
else item.extra = '';
item.extra += 'PMID: ' + pmId[1];
item.attachments.push({
title: "PubMed entry",
url: "http://www.ncbi.nlm.nih.gov/pubmed/" + pmId[1],
mimeType: "text/html",
snapshot: false
});
}
}
if(Z.getHiddenPref && Z.getHiddenPref("attachSupplementary")) {
try { //don't fail if we can't attach supplementary data
var async = attachSupplementary(doc, item, function(doc, item) { item.complete() });
} catch(e) {
Z.debug("Error attaching supplementary information.")
Z.debug(e);
if(async) item.complete();
}
if(!async) {
item.complete();
}
} else {
item.complete();
}
});
translator.translate();
}
function detectWeb(doc, url) {
var highwiretest = false;
//quick test for highwire embedded pdf page
highwiretest = url.indexOf('.pdf+html') != -1;
//only queue up the sidebar for data extraction (it seems to always be present)
if(highwiretest && url.indexOf('?frame=sidebar') == -1) {
return;
}
if (!highwiretest) {
// lets hope this installations don't tweak this...
highwiretest = ZU.xpath(doc,
"//link[@href='/shared/css/hw-global.css']|//link[contains(@href,'highwire.css')]").length;
}
if(highwiretest) {
if (getSearchResults(doc, url, true)) {
return "multiple";
} else if ( /content\/(early\/)?[0-9]+/.test(url)
&& url.indexOf('/suppl/') == -1
) {
return "journalArticle";
}
}
}
function doWeb(doc, url) {
if (!url) url = doc.documentElement.location;
var items = getSearchResults(doc, url);
if(items) {
Zotero.selectItems(items, function(selectedItems) {
if(!selectedItems) return true;
var urls = new Array();
for( var item in selectedItems ) {
urls.push(item);
}
Zotero.Utilities.processDocuments(urls, addEmbMeta);
});
} else if(url.indexOf('.full.pdf+html') != -1) {
//abstract in EM is not reliable. Fetch abstract page and scrape from there.
ZU.processDocuments(url.replace(/\.full\.pdf\+html.*/, ''), addEmbMeta);
} else {
addEmbMeta(doc);
}
}
/** BEGIN TEST CASES **/
var testCases = [
{
"type": "web",
"url": "http://rer.sagepub.com/content/52/2/201.abstract",
"items": [
{
"itemType": "journalArticle",
"title": "The Role of the Laboratory in Science Teaching: Neglected Aspects of Research",
"creators": [
{
"firstName": "Avi",
"lastName": "Hofstein",
"creatorType": "author"
},
{
"firstName": "Vincent N.",
"lastName": "Lunetta",
"creatorType": "author"
}
],
"date": "06/01/1982",
"DOI": "10.3102/00346543052002201",
"ISSN": "0034-6543, 1935-1046",
"abstractNote": "The laboratory has been given a central and distinctive role in science education, and science educators have suggested that there are rich benefits in learning from using laboratory activities. At this time, however, some educators have begun to question seriously the effectiveness and the role of laboratory work, and the case for laboratory teaching is not as self-evident as it once seemed. This paper provides perspectives on these issues through a review of the history, goals, and research findings regarding the laboratory as a medium of instruction in introductory science teaching. The analysis of research culminates with suggestions for researchers who are working to clarify the role of the laboratory in science education.",
"issue": "2",
"journalAbbreviation": "REVIEW OF EDUCATIONAL RESEARCH",
"language": "en",
"libraryCatalog": "rer.sagepub.com",
"pages": "201-217",
"publicationTitle": "Review of Educational Research",
"shortTitle": "The Role of the Laboratory in Science Teaching",
"url": "http://rer.sagepub.com/content/52/2/201",
"volume": "52",
"attachments": [
{
"title": "Full Text PDF",
"mimeType": "application/pdf"
},
{
"title": "Snapshot"
}
],
"tags": [],
"notes": [],
"seeAlso": []
}
]
},
{
"type": "web",
"url": "http://sag.sagepub.com/content/early/2010/04/23/1046878110366277.abstract",
"items": [
{
"itemType": "journalArticle",
"title": "Modding the History of Science: Values at Play in Modder Discussions of Sid Meier’s CIVILIZATION",
"creators": [
{
"firstName": "Trevor",
"lastName": "Owens",
"creatorType": "author"
}
],
"date": "2010-05-27",
"DOI": "10.1177/1046878110366277",
"ISSN": "1046-8781, 1552-826X",
"abstractNote": "Sid Meier’s CIVILIZATION has been promoted as an educational tool, used as a platform for building educational simulations, and maligned as promoting Eurocentrism, bioimperialism, and racial superiority. This article explores the complex issues involved in interpreting a game through analysis of the ways modders (gamers who modify the game) have approached the history of science, technology, and knowledge embodied in the game. Through text analysis of modder discussion, this article explores the assumed values and tone of the community’s discourse. The study offers initial findings that CIVILIZATION modders value a variety of positive discursive practices for developing historical models. Community members value a form of historical authenticity, they prize subtlety and nuance in models for science in the game, and they communicate through civil consensus building. Game theorists, players, and scholars, as well as those interested in modeling the history, sociology, and philosophy of science, will be interested to see the ways in which CIVILIZATION III cultivates an audience of modders who spend their time reimagining how science and technology could work in the game.",
"journalAbbreviation": "Simulation Gaming",
"language": "en",
"libraryCatalog": "sag.sagepub.com",
"publicationTitle": "Simulation & Gaming",
"shortTitle": "Modding the History of Science",
"url": "http://sag.sagepub.com/content/early/2010/04/23/1046878110366277",
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"url": "http://bjaesthetics.oxfordjournals.org/search?fulltext=art&submit=yes&x=0&y=0",
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"url": "http://bjaesthetics.oxfordjournals.org/content/current",
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"url": "http://jcb.rupress.org/content/early/by/section",
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"url": "http://rsbl.royalsocietypublishing.org/content/early/recent",
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"url": "http://www.bloodjournal.org/content/early/recent?sso-checked=true",
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{
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"url": "http://www.pnas.org/content/108/52/20881.full",
"items": [
{
"itemType": "journalArticle",
"title": "A yeast functional screen predicts new candidate ALS disease genes",
"creators": [
{
"firstName": "Julien",
"lastName": "Couthouis",
"creatorType": "author"
},
{
"firstName": "Michael P.",
"lastName": "Hart",
"creatorType": "author"
},
{
"firstName": "James",
"lastName": "Shorter",
"creatorType": "author"
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{
"firstName": "Mariely",
"lastName": "DeJesus-Hernandez",
"creatorType": "author"
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{
"firstName": "Renske",
"lastName": "Erion",
"creatorType": "author"
},
{
"firstName": "Rachel",
"lastName": "Oristano",
"creatorType": "author"
},
{
"firstName": "Annie X.",
"lastName": "Liu",
"creatorType": "author"
},
{
"firstName": "Daniel",
"lastName": "Ramos",
"creatorType": "author"
},
{
"firstName": "Niti",
"lastName": "Jethava",
"creatorType": "author"
},
{
"firstName": "Divya",
"lastName": "Hosangadi",
"creatorType": "author"
},
{
"firstName": "James",
"lastName": "Epstein",
"creatorType": "author"
},
{
"firstName": "Ashley",
"lastName": "Chiang",
"creatorType": "author"
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{
"firstName": "Zamia",
"lastName": "Diaz",
"creatorType": "author"
},
{
"firstName": "Tadashi",
"lastName": "Nakaya",
"creatorType": "author"
},
{
"firstName": "Fadia",
"lastName": "Ibrahim",
"creatorType": "author"
},
{
"firstName": "Hyung-Jun",
"lastName": "Kim",
"creatorType": "author"
},
{
"firstName": "Jennifer A.",
"lastName": "Solski",
"creatorType": "author"
},
{
"firstName": "Kelly L.",
"lastName": "Williams",
"creatorType": "author"
},
{
"firstName": "Jelena",
"lastName": "Mojsilovic-Petrovic",
"creatorType": "author"
},
{
"firstName": "Caroline",
"lastName": "Ingre",
"creatorType": "author"
},
{
"firstName": "Kevin",
"lastName": "Boylan",
"creatorType": "author"
},
{
"firstName": "Neill R.",
"lastName": "Graff-Radford",
"creatorType": "author"
},
{
"firstName": "Dennis W.",
"lastName": "Dickson",
"creatorType": "author"
},
{
"firstName": "Dana",
"lastName": "Clay-Falcone",
"creatorType": "author"
},
{
"firstName": "Lauren",
"lastName": "Elman",
"creatorType": "author"
},
{
"firstName": "Leo",
"lastName": "McCluskey",
"creatorType": "author"
},
{
"firstName": "Robert",
"lastName": "Greene",
"creatorType": "author"
},
{
"firstName": "Robert G.",
"lastName": "Kalb",
"creatorType": "author"
},
{
"firstName": "Virginia M.-Y.",
"lastName": "Lee",
"creatorType": "author"
},
{
"firstName": "John Q.",
"lastName": "Trojanowski",
"creatorType": "author"
},
{
"firstName": "Albert",
"lastName": "Ludolph",
"creatorType": "author"
},
{
"firstName": "Wim",
"lastName": "Robberecht",
"creatorType": "author"
},
{
"firstName": "Peter M.",
"lastName": "Andersen",
"creatorType": "author"
},
{
"firstName": "Garth A.",
"lastName": "Nicholson",
"creatorType": "author"
},
{
"firstName": "Ian P.",
"lastName": "Blair",
"creatorType": "author"
},
{
"firstName": "Oliver D.",
"lastName": "King",
"creatorType": "author"
},
{
"firstName": "Nancy M.",
"lastName": "Bonini",
"creatorType": "author"
},
{
"firstName": "Vivianna Van",
"lastName": "Deerlin",
"creatorType": "author"
},
{
"firstName": "Rosa",
"lastName": "Rademakers",
"creatorType": "author"
},
{
"firstName": "Zissimos",
"lastName": "Mourelatos",
"creatorType": "author"
},
{
"firstName": "Aaron D.",
"lastName": "Gitler",
"creatorType": "author"
}
],
"date": "12/27/2011",
"DOI": "10.1073/pnas.1109434108",
"ISSN": "0027-8424, 1091-6490",
"abstractNote": "Amyotrophic lateral sclerosis (ALS) is a devastating and universally fatal neurodegenerative disease. Mutations in two related RNA-binding proteins, TDP-43 and FUS, that harbor prion-like domains, cause some forms of ALS. There are at least 213 human proteins harboring RNA recognition motifs, including FUS and TDP-43, raising the possibility that additional RNA-binding proteins might contribute to ALS pathogenesis. We performed a systematic survey of these proteins to find additional candidates similar to TDP-43 and FUS, followed by bioinformatics to predict prion-like domains in a subset of them. We sequenced one of these genes, TAF15, in patients with ALS and identified missense variants, which were absent in a large number of healthy controls. These disease-associated variants of TAF15 caused formation of cytoplasmic foci when expressed in primary cultures of spinal cord neurons. Very similar to TDP-43 and FUS, TAF15 aggregated in vitro and conferred neurodegeneration in Drosophila, with the ALS-linked variants having a more severe effect than wild type. Immunohistochemistry of postmortem spinal cord tissue revealed mislocalization of TAF15 in motor neurons of patients with ALS. We propose that aggregation-prone RNA-binding proteins might contribute very broadly to ALS pathogenesis and the genes identified in our yeast functional screen, coupled with prion-like domain prediction analysis, now provide a powerful resource to facilitate ALS disease gene discovery.",
"extra": "PMID: 22065782",
"issue": "52",
"journalAbbreviation": "PNAS",
"language": "en",
"libraryCatalog": "www.pnas.org",
"pages": "20881-20890",
"publicationTitle": "Proceedings of the National Academy of Sciences",
"url": "http://www.pnas.org/content/108/52/20881",
"volume": "108",
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],
"tags": [],
"notes": [],
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}
]
},
{
"type": "web",
"url": "http://genesdev.cshlp.org/content/16/14/1779",
"items": [
{
"itemType": "journalArticle",
"title": "G9a histone methyltransferase plays a dominant role in euchromatic histone H3 lysine 9 methylation and is essential for early embryogenesis",
"creators": [
{
"firstName": "Makoto",
"lastName": "Tachibana",
"creatorType": "author"
},
{
"firstName": "Kenji",
"lastName": "Sugimoto",
"creatorType": "author"
},
{
"firstName": "Masami",
"lastName": "Nozaki",
"creatorType": "author"
},
{
"firstName": "Jun",
"lastName": "Ueda",
"creatorType": "author"
},
{
"firstName": "Tsutomu",
"lastName": "Ohta",
"creatorType": "author"
},
{
"firstName": "Misao",
"lastName": "Ohki",
"creatorType": "author"
},
{
"firstName": "Mikiko",
"lastName": "Fukuda",
"creatorType": "author"
},
{
"firstName": "Naoki",
"lastName": "Takeda",
"creatorType": "author"
},
{
"firstName": "Hiroyuki",
"lastName": "Niida",
"creatorType": "author"
},
{
"firstName": "Hiroyuki",
"lastName": "Kato",
"creatorType": "author"
},
{
"firstName": "Yoichi",
"lastName": "Shinkai",
"creatorType": "author"
}
],
"date": "07/15/2002",
"DOI": "10.1101/gad.989402",
"ISSN": "0890-9369, 1549-5477",
"abstractNote": "Covalent modification of histone tails is crucial for transcriptional regulation, mitotic chromosomal condensation, and heterochromatin formation. Histone H3 lysine 9 (H3-K9) methylation catalyzed by the Suv39h family proteins is essential for establishing the architecture of pericentric heterochromatin. We recently identified a mammalian histone methyltransferase (HMTase), G9a, which has strong HMTase activity towards H3-K9 in vitro. To investigate the in vivo functions of G9a, we generated G9a-deficient mice and embryonic stem (ES) cells. We found that H3-K9 methylation was drastically decreased in G9a-deficient embryos, which displayed severe growth retardation and early lethality. G9a-deficient ES cells also exhibited reduced H3-K9 methylation compared to wild-type cells, indicating that G9a is a dominant H3-K9 HMTase in vivo. Importantly, the loss of G9a abolished methylated H3-K9 mostly in euchromatic regions. Finally, G9a exerted a transcriptionally suppressive function that depended on its HMTase activity. Our results indicate that euchromatic H3-K9 methylation regulated by G9a is essential for early embryogenesis and is involved in the transcriptional repression of developmental genes.",
"extra": "PMID: 12130538",
"issue": "14",
"journalAbbreviation": "Genes Dev.",
"language": "en",
"libraryCatalog": "genesdev.cshlp.org",
"pages": "1779-1791",
"publicationTitle": "Genes & Development",
"url": "http://genesdev.cshlp.org/content/16/14/1779",
"volume": "16",
"attachments": [
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"mimeType": "application/pdf"
},
{
"title": "Snapshot"
},
{
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"mimeType": "text/html",
"snapshot": false
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],
"tags": [
"Euchromatin",
"G9a HMTase",
"heterochromatin",
"histone H3-K9 methylation",
"mammalian development",
"transcriptional regulation"
],
"notes": [],
"seeAlso": []
}
]
},
{
"type": "web",
"url": "http://www.bjj.boneandjoint.org.uk/content/94-B/1/10.abstract",
"items": [
{
"itemType": "journalArticle",
"title": "Current concepts in osteolysis",
"creators": [
{
"firstName": "B.",
"lastName": "Ollivere",
"creatorType": "author"
},
{
"firstName": "J. A.",
"lastName": "Wimhurst",
"creatorType": "author"
},
{
"firstName": "I. M.",
"lastName": "Clark",
"creatorType": "author"
},
{
"firstName": "S. T.",
"lastName": "Donell",
"creatorType": "author"
}
],
"date": "01/01/2012",
"DOI": "10.1302/0301-620X.94B1.28047",
"ISSN": "2049-4394, 2049-4408",
"abstractNote": "The most frequent cause of failure after total hip replacement in all reported arthroplasty registries is peri-prosthetic osteolysis. Osteolysis is an active biological process initiated in response to wear debris. The eventual response to this process is the activation of macrophages and loss of bone.\nActivation of macrophages initiates a complex biological cascade resulting in the final common pathway of an increase in osteolytic activity. The biological initiators, mechanisms for and regulation of this process are beginning to be understood. This article explores current concepts in the causes of, and underlying biological mechanism resulting in peri-prosthetic osteolysis, reviewing the current basic science and clinical literature surrounding the topic.",
"extra": "PMID: 22219240",
"issue": "1",
"journalAbbreviation": "J Bone Joint Surg Br",
"language": "en",
"libraryCatalog": "www.bjj.boneandjoint.org.uk",
"pages": "10-15",
"publicationTitle": "Journal of Bone & Joint Surgery, British Volume",
"url": "http://www.bjj.boneandjoint.org.uk/content/94-B/1/10",
"volume": "94-B",
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"mimeType": "text/html",
"snapshot": false
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],
"tags": [
"Arthroplasty",
"Hip",
"Knee",
"Loosening",
"Osteolysis",
"Revision"
],
"notes": [],
"seeAlso": []
}
]
},
{
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"url": "http://www.bjj.boneandjoint.org.uk/content/94-B/1.toc",
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{
"type": "web",
"url": "http://nar.oxfordjournals.org/content/34/suppl_2/W369.full",
"items": [
{
"itemType": "journalArticle",
"title": "MEME: discovering and analyzing DNA and protein sequence motifs",
"creators": [
{
"firstName": "Timothy L.",
"lastName": "Bailey",
"creatorType": "author"
},
{
"firstName": "Nadya",
"lastName": "Williams",
"creatorType": "author"
},
{
"firstName": "Chris",
"lastName": "Misleh",
"creatorType": "author"
},
{
"firstName": "Wilfred W.",
"lastName": "Li",
"creatorType": "author"
}
],
"date": "07/01/2006",
"DOI": "10.1093/nar/gkl198",
"ISSN": "0305-1048, 1362-4962",
"abstractNote": "MEME (Multiple EM for Motif Elicitation) is one of the most widely used tools for searching for novel ‘signals’ in sets of biological sequences. Applications include the discovery of new transcription factor binding sites and protein domains. MEME works by searching for repeated, ungapped sequence patterns that occur in the DNA or protein sequences provided by the user. Users can perform MEME searches via the web server hosted by the National Biomedical Computation Resource (http://meme.nbcr.net) and several mirror sites. Through the same web server, users can also access the Motif Alignment and Search Tool to search sequence databases for matches to motifs encoded in several popular formats. By clicking on buttons in the MEME output, users can compare the motifs discovered in their input sequences with databases of known motifs, search sequence databases for matches to the motifs and display the motifs in various formats. This article describes the freely accessible web server and its architecture, and discusses ways to use MEME effectively to find new sequence patterns in biological sequences and analyze their significance.",
"extra": "PMID: 16845028",
"issue": "suppl 2",
"journalAbbreviation": "Nucl. Acids Res.",
"language": "en",
"libraryCatalog": "nar.oxfordjournals.org",
"pages": "W369-W373",
"publicationTitle": "Nucleic Acids Research",
"shortTitle": "MEME",
"url": "http://nar.oxfordjournals.org/content/34/suppl_2/W369",
"volume": "34",
"attachments": [
{
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"mimeType": "application/pdf"
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