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Welcome to, the laboratory, health, and science informatics encyclopedia.
Users have contributed: 1,269 articles.

LIMSwiki is a collaborative wiki dedicated to the scientific community, featuring organized, documented, and up-to-date content regarding all aspects of laboratory informatics, bioinformatics, and health informatics. LIMSwiki also strives to maintain relevant knowledge about laboratory equipment as well as commercial and open-source software likely to be used in a laboratory setting. This also includes the vendors of such equipment and software.

Like any community wiki, the value and success of LIMSwiki is dependent upon the scientific community contributing their vast knowledge through the creation of relevant articles and editing of existing articles where knowledge is absent. If you wish to enrich the content of this wiki or have something of value to add, please request an account and get started.

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Featured article of the week

Fig2 Zheng JPathInfo2015 6.jpg

"Support patient search on pathology reports with interactive online learning based data extraction"

Structural reporting enables semantic understanding and prompt retrieval of clinical findings about patients. While synoptic pathology reporting provides templates for data entries, information in pathology reports remains primarily in narrative free text form. Extracting data of interest from narrative pathology reports could significantly improve the representation of the information and enable complex structured queries. However, manual extraction is tedious and error-prone, and automated tools are often constructed with a fixed training dataset and not easily adaptable. Our goal is to extract data from pathology reports to support advanced patient search with a highly adaptable semi-automated data extraction system, which can adjust and self-improve by learning from a user's interaction with minimal human effort.

We have developed an online machine learning based information extraction system called IDEAL-X. With its graphical user interface, the system's data extraction engine automatically annotates values for users to review upon loading each report text. The system analyzes users' corrections regarding these annotations with online machine learning, and incrementally enhances and refines the learning model as reports are processed. (Full article...)

Recently featured: Factors associated with adoption of health information technology: A conceptual model based on a systematic reviewGeneralized procedure for screening free software and open-source software applications, Human–information interaction with complex information for decision-making

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LIMSwiki books
Examples of books printed from Wikipedia

A LIMSwiki book is a collection of LIMSwiki articles that can be easily saved to the wiki, rendered electronically in PDF, or ordered as a printed book. Need to know more about LIMSwiki books?

Laboratory informatics software and products
LIMSwiki journal articles
Open-access articles becoming more common

A LIMSwiki journal article is a selected open-access article relating to various fields of informatics, free to republish elsewhere with proper citation. You can browse the collection using the tools below. Also note that like other articles found on this wiki, journal articles can be added to LIMSwiki books.

For a full listing of journals — open-access and otherwise — relating to laboratory informatics, bioinformatics, and other forms of informatics, please see LIMSWiki:Resources/Journals.

Open-source software

Looking for open-source software solutions to make your lab or office more efficient? Try these locations:

Additional LIMSwiki resources

Additional information
Latest news

October 12, 2015:

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The tangentially related LIMSforum — a leading forum on laboratory, medical, and scientific informatics — has moved again due to unfortunate changes by the host LinkedIn. Forum moderator John Jones explained it this way:

"All, it is with regret that I must make the decision to leave Linkedin as the forum for our group. Linkedin has planned changes that will make this group unworkable. We believe strongly in open information and Linkedin is planning changes that would severely disrupt this. However, there is good news... I have planned for this day and knew that Linkedin would pull some sort of bone head idea like this, so I have been working on a complete new site that will let us all carry on our great discussions and a whole lot more. You will be able to login with your Linkedin account and continue as usual."

The forum is now hosted at and can still be used with your LinkedIn ID.

Shawn Douglas (talk) 15:23, 12 October 2015 (UTC)

June 15, 2015:

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I've been following the antics of open-source hosting site SourceForge for several years now, wanting to give them a chance to turn a sinking ship around with better, more community-friendly tactics. However, it's become clear to me within the last week that the people running the site have fully managed to drive the site off the cliff, never to return to respectability. The site has been packing crappy add-ons and bloatware with select popular software packages for quite some time, but lately the site owners have gone too far. While the need to monetize the site to pay for hosting seems reasonable, the owners of the site have gotten out of hand. (Actually, they don't even pay that much for hosting, if anything, depending on the generosity of others to mirror the site.)

Major projects have been leaving SourceForge in droves, but that hasn't stopped the SourceForge team from doing more harm: they resorted to taking over abandoned accounts and repackaging software with malware, etc. Calls for other projects to leave SourceForge have gotten louder over the past few days, with the team of well-regarded text editor Notepad++ being the latest to leave while encouraging others to do the same.

We've been linking directly to SourceForge pages for most of our open-source software pages, but that will now end. External links to SourceForge on open-source pages will be removed, though a text comment will remain if the project can ONLY be found on SourceForge. It will then be up to the user to decide to visit SourceForge and search for the project there. We do not wish for LIMSwiki users to fall prey to their unfriendly tactics, thus the changes. (Clarification: SourceForge-based citations used to document history will remain, per wiki policy. Only external stand-alone links are being removed.)

Shawn Douglas (talk) 18:24, 15 June 2015 (UTC)

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