On Jan 20, 4:40 pm, Mitch Haynes <mitchhay...@gmail.com> wrote:
31. Identify which organizations you are a current member of. Use one
line per organization.
32. Are you aware of ISAC? (International Society for Analytical
Cytology)
Yes
No
33. Are you a member of ISAC
Yes
No
34. If ISAC were to establish a strong interest in the area of HCS,
would you find it more attractive to join and work within this
organization?
Yes
No
***********************************ANOTHER FOR MEMEBERS ONLY RUN BY J
PAUL ROBINSON PRESIDENT ISAC 2008
31. Identify which organizations you are a current member of. Use one
line per organization.
32. Are you aware of ISAC? (International Society for Analytical
Cytology)
Yes
No
33. Are you a member of ISAC
Yes
No
34. If ISAC were to establish a strong interest in the area of HCS,
would you find it more attractive to join and work within this
organization?
Yes
No
http://www.cyto.purdue.edu/hcs/
High Content Analysis/Screening
1. What is the goal of this Survey?
This is a long and detailed survey - but we need your help. Please do
it!!! This survey is the result of a meeting of about 250 people who
attended a recent meeting in San Francisco (January 2004) that
focused
on the issues surrounding High Content Screening (HCS) or Analysis.
Several important issues arose from the meeting including the
direction and complexity of systems, and the overall impact of
informatics on the field. Many members felt that if more information
were gathered from participants, some aspects of HCS could be made
more credible and more valuable to users.
This survey is independent of corporate influence in either the
instrument, reagent or pharmaceutical companies.
This is quite a long survey and will require several minutes of your
time. However, without quality data, it will be difficult for us to
evaluate issues and create resources for the HCS community.
1. First, we would like to thank you for working your way through
this
survey. If you assist us by answering the questions with care and
much
thought, we are sure that you will benefit as well as the entire
community. At the end of the survey, you will be offered a chance to
join a discussion forum.
Please tell us your affiliation: (tick only one)
Pharmaceutical company
Assay service company
Reagent manufacturing company
Instrument Manufacturer
Academia
Private Research Institute
Other (please specify)
2. How many employees are there in your organization?
1-10
11-50
51-100
101-500
501-1000
1001-5000
5001-10,000
greater than 10,000
3. Is your HCS infrastructure considered a core facility (available
for use by other groups at your organization)?
Yes
no
Other (please specify)
4. Is your group a part of an "autonomous" research group?
Yes
No
Other (please specify)
5. What is your personal scientific area of interest? (Click all that
are applicable)
Neurobiology
Cancer research
Endocrinology
Immunology
Toxicology
General Biochemistry
Molecular Biology
Microbiology
Biomedical Engineering
Biotechnology
Informatics
Computer sciences
Imaging
Automation and robotics
Other (please add here)
6. What type of biological phenomenon are you interested in? Check
all
that apply.
Signalling Pathways
GPCRs
Differentiation phenotypes
Translocations
Other (please specify)
High Content Analysis/Screening
2. Instrumentation
Can you give us some idea of what instruments are the key tools for
your HCS work?
7. Do you feel that your current methods for doing quantitative
microscopy and analysis:
Exceed your research requirements
Match your research requirements
Are inadequate for your research needs
8. Respond to the statement:
"My capabilities match my research requrements for imaging but not
for
analysis"
Agree
Disagree
9. Please list the major instruments you are using, provide the name
and brand of the instruments. Use one line per instrument.
10. Give us an idea of what data management package you are using for
image management. For multiple packages, please list one per line.
High Content Analysis/Screening
3. Assay Systems
We would like to know something about the assays you run.
11. What are the general assays that are most important for your
needs. Please use one line per assay.
12. At what stage of discovery or development are the assays used?
and
what specifically are they used for:
To screen compounds, natural products or gene knock-outs?
Primary compound screening?
Secondary compound screening?
Tertiary screening?
Cell-based ADMET
Flow cytometry
Diagnostics/specialty testing
Other (please specify)
13. What cells are being used in your operations?
Primary cell lines
Cell lines
Live or fixed cells
Other (please specify)
14. Current throughput:
What is the assay format you use mostly? (select the highest use)
6 well
12 well
24 well
96-well
384-well
1536-well
chambered slide/coverslip dishes
Other (please specify)
15. Current throughput:
What is the approximate number of plates run per week? (Enter any
number)
6 well
12 well
24 well
96-well
384-well
1536-well
chambered slide/coverslip dishes
16. If performing compound screening:
How many compounds are evaluated in a run?
17. Do you buy Assay Kits?
yes
No
18. If you do buy assay kits, please list the 5 most important giving
a value of 1 (highest) to 5 lowest volume and write the manufacturer
beside the kit.
e.g 1 - TNF - Tidor Labs
1
2
3
4
5
19. As a general rule, do you buy most kits from the vendor of your
primary instruments?
yes
no
20. Do you alter assay protocols? (so we are asking a double question
here - if you do we want to know how you track the changes which is
the next question)
Yes
No
21. How do you track changes made in protocols if you do make
changes?
High Content Analysis/Screening
4. About your Instruments
Please give us some feedback on what brands of instruments you have
22. Indicate if you have instruments from any of the following:
Agilent
Amersham-Biosciences
Applied Biosystems
Arcturus
Atto Biosciences
Axon Instruments
BD Biosciences (Becton-Dickinson)
Blueshift Biotechnologies
BioImage
Cellomics
Cyntellect
Cytoprint
Evotec technologies
Vitra Bioscience
Q3dm
Other (please list one per line)
4. About your Instruments
Please give us some feedback on what brands of instruments you have
Please enter a comment.
22. Indicate if you have instruments from any of the following:
Agilent
Amersham-Biosciences
Applied Biosystems
Arcturus
Atto Biosciences
Axon Instruments
BD Biosciences (Becton-Dickinson)
Blueshift Biotechnologies
BioImage
Cellomics
Cyntellect
Cytoprint
Evotec technologies
Vitra Bioscience
Q3dm
Other (please list one per line)
4. About your Instruments
Please give us some feedback on what brands of instruments you have
Please enter a comment.
22. Indicate if you have instruments from any of the following:
Agilent
Amersham-Biosciences
Applied Biosystems
Arcturus
Atto Biosciences
Axon Instruments
BD Biosciences (Becton-Dickinson)
Blueshift Biotechnologies
BioImage
Cellomics
Cyntellect
Cytoprint
Evotec technologies
Vitra Bioscience
Q3dm
Other (please list one per line)
4. About your Instruments
Please give us some feedback on what brands of instruments you have
Please enter a comment.
22. Indicate if you have instruments from any of the following:
Agilent
Amersham-Biosciences
Applied Biosystems
Arcturus
Atto Biosciences
Axon Instruments
BD Biosciences (Becton-Dickinson)
Blueshift Biotechnologies
BioImage
Cellomics
Cyntellect
Cytoprint
Evotec technologies
Vitra Bioscience
Q3dm
Other (please list one per line)
High Content Analysis/Screening
4. About your Instruments
Please give us some feedback on what brands of instruments you have
Please enter a comment.
22. Indicate if you have instruments from any of the following:
Agilent
Amersham-Biosciences
Applied Biosystems
Arcturus
Atto Biosciences
Axon Instruments
BD Biosciences (Becton-Dickinson)
Blueshift Biotechnologies
BioImage
Cellomics
Cyntellect
Cytoprint
Evotec technologies
Vitra Bioscience
Q3dm
Other (please list one per line)
High Content Analysis/Screening
5. Informatics Issues
Informatics issues are complex. Please give us some ideas about how
we
can address this issue.
23. What do you see as the primary informatics issues concerning
imaging as a systems biology and drug discovery tool?
Data/Image storage
Data/Image retrieval/reuse
Automated Analysis
Visualization of data/images
Distribution of data/images between workgroups
Image format standards
Metadata standards
Other (please specify)
24. What problems do you see in your present informatics approaches?
25. Data generation rates:
How much HCS data do you currently have in storage (in GB)?
26. Over what time period was it generated?
Years Months
Length of time
27. How much data do you currently generate in a month?
1-100 MB
101-1000 MB
1-10 GB
11-100 GB
28. Regarding imaging data
How are the assays currently quantified? (e.g. automatically,
manually, 3rd party software?)
Number of features extracted per image?
High Content Analysis/Screening
6. Organizaton support
There are a number of organizations that work in somewhat related
areas. It would be useful to know if you are aware of some of these
organizations.
31. Identify which organizations you are a current member of. Use one
line per organization.
32. Are you aware of ISAC? (International Society for Analytical
Cytology)
Yes
No
33. Are you a member of ISAC
Yes
No
34. If ISAC were to establish a strong interest in the area of HCS,
would you find it more attractive to join and work within this
organization?
Yes
No
35. Do you think that it would be useful if there were an independent
facility that could test and evaluate instruments and software used
in
HCS, and provide high quality reviews?
Yes
No
Other (please specify)
36. Would your organization pay for such a service if it were
available?
Yes
No
High Content Analysis/Screening
7. Future HCS Web Page
We would like to know your opinions on existing support networks.
37. Do you think that existing Internet resources on HCS are adequate
for your current and future needs?
Yes
No
38. Please provide the address of web pages on HCS that you think are
useful. Use one line per address.
1
2
3
4
5
39. Indicate from the following the areas you would like to see on
the
new HCS website that is at www.cyto.purdue.edu/HCS
Vital Useful Neutral OK Low value
Email discussion group
Standards issues
Quality control
Protocol database
Software reviews
Hardware reviews
Reference database
Educational materials
Jobs/postition available
Jobs/postions needed
New product announcements
Advertising materials
Meeting/conferences directory
Short course announcements
Vendor directory
High Content Analysis/Screening
8. Now tell us about your concerns
We believe that there are a number of really complex issues that need
to be addressed. Please provide some insight into your own concerns.
40. Instead of us suggesting issues we would like you to suggest
them.
We suggest one line per issue.
High Content Analysis/Screening
9. Tell us about yourself
We would like to know who you are. This survey is being prepared by
an
academic institution (Purdue University) , therefore you can be
assured that the personal data will not be provided to 3rd parties.
We
will maintain the integrity and confidentiality of your answers. We
will invite you to join the discussion group that is being created.
41. Please supply your contact information. This will not be
distributed anywhere and will be kept confidential. If you don't
provide any contact details, we will not be able to keep in contact
with you as we develop an interest group.
Name
Company
Address1
Address2
City
Zip
State
Email
High Content Analysis/Screening
10. Thanks - that's it!
Thank you for participating in this survey. Our goal is to provide an
independent, but scholarly review of the area if HCS. We want to
assist people in this field and we need your help. Please let us know
how we can help. If you have comments please email them to me at the
address below.
As soon as you hit the "next" button below, you will be taken
directly
to the HCS page where you can join a discussion group in HCS. Please
send this page address to colleagues so that they can also take the
survey and subscribe to the group.
Addresses of subscribers will not be released to any 3rd party and
the
archive will only be available to subscribers.
Dr. J. Paul Robinson,
Purdue University
j...@flowcyt.cyto.purdue.edu
How many features are used to support "hit" identification?
How long do you keep the images after storage?
Do you store the images with associated annotation?
Do you derive additional data from stored images by performing
further
image analysis?
Do you use other algorithms?
Is access to satisfactory algorithms for image analysis a problem or
bottleneck?
Do you link the annotated image data to other data types such as the
results from other assays, chemical structures and/or toxicity data?
How do you currently extract information to support decision making?
How is knowledge generated from the data to support decision making?
29. Do you anticipate changing any of your processes in the near
future?
One or more platform components?
New instrument or new model?
Would this be the same vendor, different vendor?
Migrate HCS from secondary to primary screening?
30. Which of the topics discussed at CHI represents an area you feel
you should address to best improve your current HCS operations:
Assay development
Image acquisition
Image analysis
Image storage
Image retrieval
Data integration and mining to support
compound selection
Other
http://www.cyto.purdue.edu/hcs/
New Features coming
# E-mail Discussion Group
# Lecture on Cytomics and HCS (online version)
# Lecture on Cytomics and HCS (PowerPoint version - 14 Megabytes)
# Standards issues
# Quality control Issues
# Protocol database
#
Software****************************************** *************************-
*****************************
reviews******************************************* ***********WE GOT
OUR REVIEW!
# Hardware reviews
# Reference database
# Educational materials
# Jobs/postition available
# Jobs/postions needed
# New product announcements
# Advertising materials
# Meeting/conferences directory
# Short course announcements
# Related Societies & Organizations
# Journals and Publications of interest
# Vendor directory
On Jan 31, 5:42 pm, Mitch Haynes <mitchhay...@gmail.com> wrote:
2007 End of year message from Purdue
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From: J. Paul Robinson <jpr@flowcyt.cyto.purdue.edu>
Date: Fri Dec 28 2007 - 13:43:46 EST
Beware, the end is nigh!
No, not an apocalyptic prediction - but 2007 is definitely coming to
an
end. Not before time I would say - it s been a busy year. But I have
some strong words to end the year and I am going to say them!! Of
course
you don t have to read them!
Cytometry is now 40 years old and it s been sort of decaying a bit.
What
do I mean? I am amazed at how conservative and frankly boring the
field
has become. Why? It s time to move to the 21st century folks. I'm
getting older and frankly, its time to kick some butt as my younger
colleagues often say. We talk so much like it is the same old
cytometry
it has always been. Wake up people - times are changing - look at all
these new small companies trying to stick their noses in "our" field!
True we need to do the core work and do it well, but lets not forget
that fundamental tools of cell analysis are changing and if we don't
keep ourselves up-to-date and educated on what's happening....before
we
know it, a new field will emerge and we will be like the old electron
microscopists who are still wondering what happened ......
I know most of us work in the field and like what we do, but I think
its
time to open up a little and try to do some serious integration of
our
field. It s not happening very effectively on the most part I would
say.
Cytometry is about integration of the tools of the field into the
vast
reaches of biological problems that we can contribute to solving.
Cytometry is about advancement of the field, that means always
looking
ahead. ISAC will soon be the International Society for Advancement of
Cytometry a 21st century Society not a 20th century Society.
Cytometry is not flow cytometry!! Let s not kid ourselves about this
folks. Cytometry is about measuring cells - however you do it - and
flow
cytometry is just one component of many. I understand that it may be
the
only tool some of you use - I don t want to take away from that or
de-emphasize its value or importance. But, we so often hear people
talk
about our field only in context of just flow cytometry. Recently,
when
we polled the ISAC community on changing our name from "analytical
Cytology" to Advancement of Cytometry" we received comments like "hey
I
don t do flow cytometry, so why are you reducing the breadth of the
field?" Ouch - they think "cytometry" means "flow cytometry". We have
a
long way to go before we convince the community that we cover all
aspects of cytometry. And let s also remember the growing membership
in
India and China (that s half the worlds population right there) it
s
high time we paid much more attention to these countries as a field.
Awtar Krishan can t be the only person to drive cytometry training
and
education for 1.2 billion Indians can he? Well he has been up to now.
Who is taking on the mantle of training and education of cytometry in
China?
So here's the scoop. That's one of the reasons why the Purdue Web
portal
is going to change. We tried to make the change this past year, but
there were too many other things happening here to achieve it. But
come
middle of 2008, I am resolved that you will see a huge difference in
the
Purdue site. It s been the default cytometry communication portal now
for many, many years. We have focused on good clean fun with cytometry
-
quality, timely, simple - no spam. Many people like that actually.
The
portal is almost overwhelming for us 22,000 daily page requests
with
over 2 Gigs daily download. In 2007 alone, downloads of 208,000
powerpoint files, 233,000 PDF files, 8800 movies, 38,000 word
document
files. The education pages and the Cytometry Discussion Archive are
the
most hit for sure. Over 125,000 distinct files from our portal were
accessed in 2007.
But all good things must come to an end. Come July 2008, the usual
Purdue web portal may well be no more. It will be replaced with
something entirely new. Hopefully most will find it more useful and
relevant - some will not like it. Maybe we will be able to make
everyone
happy....ha!..C'est la vie. Some of you will be beta testers and
advisers I hope.
So my best wishes to all in the cytometry field for 2008. Regarding
the
past year on the discussion list, its been lively, with an average of
7
messages per day with 754 different individuals submitting at least
one
message. 139 messages had at least 6 responses. There were 1205
unique
subject lines. Subscribers came from 64 top level domains. The usual
bunch of suspects answered lots of messages and Marty Bigos seems to
have too much time as he answered the most (thanks Marty!!).
Tragically,
the second most prolific responder was Randy Fisher who passed away
on
December 5. Randy's responses were always short, to the point and
accurate. It hurts to lose one of our own, particularly when it's one
of
our most active members. But that s the point isn't it. For many
years
to come, we have the value of Randy's hundreds of suggestions over
the
years archived for the many new people who enter our field. Many of
you
probably never actually met Randy - but I bet most of you feel you
knew
him. One of the mysteries of the web I suppose. Our condolences to
Randy's family - perhaps they didn't know how many people knew Randy
"electronically" - but we all did. You know we are a small field when
it
comes to the big world of science so when we lose one person, the
entire
field morns.
To end 2007, let me make a big plug for a program we began at the
2006
ISAC congress. Gary Durack from iCyt and myself started a small
not-for-profit charity called "Cytometry for Life" in response to
Stephen Lewis' compelling plea for some low cost CD4 devices. Our
field
has done a lot of talking about this, but only a few people have
really
tried to do anything practical. Well, folks we have all been doing
cytometry for a very long time - it's time to do something.
"Cytometry
for life" (http://www.cytometryforlife.org) is working hard. We have
made tremendous progress in just one year. It would be great if you
all
decided to jump on board and play a small part. You can give money,
advice, moral support, talk to your politicians, community health-
care,
charities, whatever. But get involved as be recognized as the
cytometry
community to solve this problem of bringing low cost, portable
devices
to the 65% or more of African's who don t live in the cities and
towns
where current CD4 technologies are available. Our goal is to work in
areas not being served by current technologies. We have heard these
calls before, but folks we have to deal with this problem - it's your
problem if you call yourself a "cytometry" person. Email me if you
can
help - consider donating to the program, let's make it work. By the
end
of 2008, I want to be telling you that the program is getting to
people
who need this desperately. Help us achieve that for 2008.
I hope many of you got hold of a copy of our new double DVD set
Cytometry 60 years of Innovation if not ask your local rep from
virtually any company in our field. It might give you a good sense of
how strong the foundation in our field really is. I will see many of
you
at the 2008 congress in Budapest. I know some of you think its going
to
be expensive so I took several hours myself and created a webpage for
the cheap ones out there so you have no excuses not to go...
(http://www.cyto.purdue.edu/flowcyt/cheapflights1.htm).
It's been a privilege to serve for the past 19 months as President of
ISAC. I will gladly pass that hat to Bob Murphy in May. ISAC is alive
and well - membership is growing daily. I would not be surprised to
see
us top 2000 by the end of the Congress in May. I know that about 60%
of
the members of this list are NOT ISAC members. Perhaps you should
consider joining the Society that keeps many of you in business?
http://www.isac-net.org/
My best wishes for you all in 2008 from Purdue
Paul
--
J. Paul Robinson
SVM Professor of Cytomics
Professor of Immunopharmacology & Biomedical Engineering
Director, Purdue University Cytometry Laboratories
President, International Society for Analytical Cytology
Purdue University Cytometry Laboratories
Bindley Bioscience Center
1203 West State Street
Discovery Park, Purdue University
West Lafayette, IN 47907-2057
Ph (765) 494 0757; Fax (765) 494 0517
email: jpr@flowcyt.cyto.purdue.edu
www.cyto.purdue.edu
Join ISAC - www.isac-net.org
Change lives today - www.cytometryforlife.org
Received on Fri Dec 28 15:18:00 2007
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