Who Uses eCAT


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Alex Swarbrick’s lab at the Garvan Institute uses eCAT to allow everyone in the team to manage shared facilities, reagents, results and ideas in its work investigating the molecular pathways that are mutated or deregulated in cancer.

Posted by Rory on June 30th, 2010 @ 6:30 pm

“eCAT is absolutely essential to the running of my lab. Everyone uses it as an electronic notebook, so they can compile the diverse collections of data that we generate as biologists, such as images and spreadsheets. We use to it to take minutes of meetings. We also use it to manage our common stocks of antibodies, plasmids and so on. Finally, perhaps the most important feature for us is the ability to link records, reagents and experiments. This allows us, for example, to connect an experimental mouse with the tube containing its tissues in the freezer, to the 6 different experiments (conducted over a year) that analysed those tissues in different ways. Managing this kind of ‘metadata’ is absolutely essential to our work, and very difficult to do without tools like eCAT.

I think eCAT will be become more important as the group grows, since it becomes harder to keep in touch with everyone’s work. For example, I can use eCAT to remind myself of recent experimental results without hassling someone in the lab. It also facilitates collaboration within and outside of the lab. I also know that data is being properly catalogued and experiments are being written up and that all this is backed up every night. Since everyone uses the same interface, it is easier for new people to understand the way the lab works and to pick up on projects.”

Professor Larry Gonzalez, Director of Biological Psychology and the Center for Alcohol & Drug-Related Studies, University of Oklahoma Health Sciences Center

Posted by Rory on June 30th, 2010 @ 5:37 pm

http://www.axiope.com/electronic-lab-notebook/video/ecat_3.3.0/user/larry/larry.flv

“eCAT helps keep me organized and it’s very good at increasing my efficiency in documenting my research.”

About the Gonzalez lab

We investigate the effects of chronic drug exposure on brain function. We use a variety of techniques, ranging from behavioural measurements to in vivo and in vitro electrophysiology.

Challenge

I was interested in an electronic lab notebook that would allow me to document research protocols we use and collect the date through data forms we generate in the notebook and also be able to link to external forms and external data files that were created with other programs, both raw data and images.

Solution

“Myself or a research technician or a post doctoral fellow can generate a protocol and store it in eCAT.  We can create the data forms that can be filled out manually and entered during an experiment, and we can link to external files.  And if someone would prefer to use another program like Excel to generate spreadsheets instead of entering data into eCAT they can create a spreadsheet and we can link to that file, and its all kept together and organized well in eCAT.  And then when an experiment is completed we’re able to export the data to an external statistical data program for subsequent analysis.

Results

Because its accessible over the internet eCAT is easy to view, form my office or my lab, or at home.  eCAT does most of the things I am interested in doing with an electronic lab notebook.  It helps keep me organized, and it’s very good at increasing my efficiency in documenting my research.”

Mike Shipston’s lab at the Centre for Integrative Physiology, Edinburgh University, benefits from eCAT’s flexibility and ease of use in research using post transcriptional and post translational mechanisms of ion channel regulation

Posted by Rory on June 30th, 2010 @ 5:28 pm

“We generate a wide variety of types of data sets, for example data from molecular analysis, quantitative analysis, for example quantitative RTPCR, gene cloning, through to electrophysiological analysis, for example from confocal images and total internal reflective microscopy right up to behaviorial assays in animals.   We use eCAT as a cataloging and information retrieval system.  We can keep catalogs of resources  and protocols up to date and exchange that very effectively between lab members.  We also use eCAT as an ELN.  The great thing about eCAT is it’s incredibly flexible in terms of how you can set it up.  For example each member of the lab has their own folders and puts their own experiments within that, but its every easy to put that information together. It was a major surprise; transferring to an electronic lab notebook is actually very easy.”

Matt Nicotra at the University of Pittsburgh Medical Center’s Starzl Transplant Center talks about how using eCAT helped him to get organized.

Posted by Rory on June 30th, 2010 @ 4:31 pm

“Before using eCAT I would keep my data for experiments in various places.  I had my paper notebook at the bench with written notes and gel images and other pieces of data — printouts taped in various places.  And then on my computer I’d have folders for every experiment with Excel spreadsheets and data files and digital images and other data.  It was really a challenge to go back a month later or so and try to remember how all those pieces of data related to each other.  So I’d open a folder and try to figure out which Excel spreadsheet had the data I wanted, where exactly did that image come from and when did I take it.  Using eCAT has helped with keeping all that stuff organized because I can have one page with all my notes on an experiment.  Imported into that are  my digital images.  I can link to Excel spreadsheets, I can link to other experiments, I can link to data files, and it’s all right there.  I don’t have to speand any time figuring out where anything is. I use eCAT five to six times a day if not more to upload data images and keep track of my experiments, write notes ,and  plan experiments for the future.

The thing I like best about eCAT is its very simple to use.  I looked at some other electronic lab notebooks and they were complicated or overly designed.  eCAT has a very simple interface.  It’s very flexible so I can just go in and immediately start writing my lab notebook the way I used to with a paper lab notebook.  It’s simple, I don’t have to spend any time figuring it out.  And I can get to it from anywhere.  So if I’m home or in the lab or somewhere else I can get to my data at any time.”

Professor Larry Gonzalez at the University of Oklahoma talks about how he uses eCAT in his work, which involves using a variety of techniques, ranging from behavioral measurements to in vivo and in vitro electrophysiology, toinvestigate the effects of chronic drug exposure on brain function.

Posted by Rory on June 30th, 2010 @ 2:30 pm

“Myself or a research technician or a post doctoral fellow can generate a protocol and store it in eCAT.  We can create the data forms that can be filled out manually and entered during an experiment, and we can link to external files.  And if someone would prefer to use another program like Excel to generate spreadsheets instead of entering data into eCAT they can create a spreadsheet and we can link to that file, and its all kept together and organized well in eCAT.  And then when an experiment is completed we’re able to export the data to an external statistical data program for subsequent analysis. Because it’s accessible over the internet eCAT is easy to view, from my office or my lab, or at home.  eCAT does most of the things I am interested in doing with an electronic lab notebook.  It helps keep me organized, and it’s very good at increasing my efficiency in documenting my research.”

Andreas Johansson at Helsingborg Campus of Lund University talks about how easy it was to get started using eCAT.

Posted by Rory on June 30th, 2010 @ 1:32 pm

“I use eCAT for everything in the laboratory when I need to make a note of anything.  I use it for my experiments and my protocols.  But I also use it for things I didn’t use it for before I had an electronic lab notebook.  I use it for digital photos, so protein gels, screenshots of my HPC runs, screenshots of the small things I see during my experiment.  Before I would have just made a small note about it, now I have a photo of it.  And I also add time stamps during an experiment so I can easily see at what point I did a certain thing.  The main result is very very large quality improvements.  It also brings structure to your experiments automatically.  Since you are working with project folders you have your own experiments, and you also add protocols, and you add the data and you add whatever electronic stuff you get during the experiments to that folder.  So everything gets sorted by date and time.  It’s much more structure, automatically.

The main reason I chose eCAT is because its really easy to get started with and use.  If something is hard to get started with and easy to use a lot of people will just have a look at and never get around to starting the first experiment.  eCAT is easy to use; it also means I can ask my colleagues to use it as well.”

Matthew Nicotra, Research Instructer, Starzl Transplant Center, University of PIttsburgh Medical Center

Posted by Rory on June 30th, 2010 @ 1:00 pm

http://www.axiope.com/electronic-lab-notebook/video/ecat_3.3.0/user/matt/matt.flv

About Matt and his work

“We do transplant immunology using mouse models and comparative immunology using an inverabrate model for hista compatability and animals related to jelly fish and sea anenomes.

Challenge

Before using eCAT I would keep my data for experiments in various places.  I had my paper notebook at the bench with written notes and gel images and other pieces of data — printouts taped in various places.  And then on my computer I’d have folders for every experiment with Excel spreadsheet and data files and digital images and other data.”  It was really a challenge to go back a month later or so and try to remember how all those pieces of data related to each other.  So I’d open a folder and try to figure out which Excel spreadsheet had the data I wanted, where exactly did that image come from and when did I take it.

Solution

Using eCAT has helped with keeping all that stuff organized because I can have one page with all my notes on an experiment.  Imported into that are  my digital images.  I can link to Excel spreadsheets, I can link to other experiments, I can link to data files, and it’s all right there.  I don’t have to speand any time figuring out where anything is. “I use eCAT five to six times a day if not more to upload data images and keep track of my experiments, write notes,and  plan experiments for the future.

Results

The thing I like best about eCAT is its very simple to use.  I looked at some other electronic lab notebooks and they were complicated or overly designed.  eCAT has a very simple interface.  Its very flexible so I can just go in and immediately start writing my lab notebook the way I used to with a paper lab notebook.

If I want to I can make templates for different types of experiments, like PCR experiments, flow cytometry data, those sorts of things.

It’s simple, I don’t have to spend any time figuring it out.  And I can get to it from anywhere.  So if I’m home or in the lab or somewhere else I can get to my data at anytime.

Perhaps the most important thing is it’s on the web.  I don’t have to spend any time doing IT support.  They update it when they come out withnew updates to the software.  And its backed up, so I don’t have to worry about data disappearing or, heaven forbid, there is a fire in our lab.”