Friday, January 10, 2014
Friday, October 11, 2013
Open Source Drug Discovery: A Burning Illustration of Collective Endeavor at the Leading Height
Mamata Mishra
The
story of OSDD is not less than that of any story of a successful family. Family
is a simple term and easy to define concept. For anyone of us, I am sure; the
term family gives the first visualization of parents, children, grand children
and kith and kin. While talking about our own family to our friends or any
other people, the discussion starts with number of family members, the members
of family (right from the youngest one to the oldest one). Then gradually the
talk takes account of the relationship among the members, the weak as well as
the strong relations, the conflicts, the sweet as well as the bitter moments, the
collectiveness to achieve certain goals, standing with each other for every weaker
situation, and encourage for and to share every success. If we take an instance
of a joint family, we find more than one generation, people of different
mindsets, and different thoughts. In my opinion, the OSDD initiative even goes
further this point in terms of collective goal attainment.
OSDD
which started as a small project has taken a form of a unit. This statement sounds
easy. In reality, it is not an easy task. Keeping in view the mission, vision
and goals of the OSDD initiative, it is quite clear that lot of collective-minded
efforts have gone into the making of the innovative way of doing science. With
time, it keeps on proving its strength. It has got many helping hands,
dedicated minds. It did not wait for the best to come; rather it tried its best
to prepare even the average mind to be the best of all. OSDD gave a platform to
all to think differently, to do things differently even sitting at one’s own
space. It has completed five years of its journey and recently entered sixth
year. This is a burning example of nothing is impossible. It has given
opportunity to everyone who has an inner calling to do something for the
society; for the nation. At the very beginning when I read that anybody can
join and contribute to the project, I was wondering about this issue. As a
social scientist I was quite clear that I can do a very good study of OSDD from
sociological point of view, but was not clear as ‘how can I contribute’. Slowly
I realized my study of OSDD itself makes me a part of the OSDD family. I felt
good about it. This initiative has set an example for all of us who want to
really work for our nation. In fact, latently, doing this, we not only
contribute to our nation, but to those whose population is victim of such
neglected-ignorable diseases. Such kind of initiatives must be encouraged by
government, private bodies as well as the citizens of a nation.
Research Scholar;
Department of Sociology;
School of Social Sciences;
University of Hyderabad;
Gachibowli, Hyderabad-46;
Andhra Pradesh, India.
Monday, September 23, 2013
Developed by Dr G P S Raghava group
OSDDLinux is an open source operating system for drug discovery (customize linux) that integrate most of open source or freely available computational tools required for drud discovery.In simple words, it is an in silico platform for providing enviroment for computer-aided drug design.Due to its open source nature anybody can contribute towards drug discovery using OSDDlinux, particularly those who cannot pay for commercial software (like students, researcher, academicains from developing world). Initially this operating system developed at Ubuntu platform, now we are extending it to other linux platforms.
Challenges in Drug Discovery
Despite major breakthroughs and tremendous progress in the field of drug discovery, there are millions of immature death every year due to lack affordable and efficient drugs. Drug discovery and development is a costly, time consuming and laborious process. It requires approximately one billion dollars and ten years to bring a new drug molecule into the market. How to bringdown cost and time required for discovering a new drug molecule is one of the major challenge in the field of drug discovery.
Open source OSDD initiative
OSDD is a CSIR led team India Consortium with global partnership with a vision to provide affordable healthcare to the developing world by providing a global platform where the best minds can collaborate & collectively endeavor to solve the complex problems associated with discovering novel therapies for neglected tropical diseases like Malaria, Tuberculosis, Leshmaniasis, etc. It provides single platform for drug discovery, bringing together researchers, wet lab scientists, research organizations, clinicians, and students. The principal of OSDD is “Collaborate, Discover & Share” and motto is “Affordable health care for all”.
Computational Resources for Drug Discovery
Computational Resources for Drug Discovery (CRDD) is an important in silico module of OSDD. The CRDD web portal provides computer resources related to drug discovery from a single platform. The main focus of CRDD is to provide computational resources for researchers in the field of computer-aided drug design. It provides various webservers and software related to in silico drug designing, developing biological databases related to medicine and collecting and compiling various important resources for in silico drug designing. Challenges in developing in silico tools for Drug Discovery In silico tools and techniques providing an alternative for reducing cost and time in drug discovery during various experimental phases. The computational methods for in silico drug discovery have been broadly divided into two main fields: bioinformatics and chemoinformatics.
Chemoinformatics and other in silico tools related to computer-aided drug designing are dominated by proprietary or commercial companies, where these tools are costly with stringent license conditions. Due to heavy cost of chemoinformatics resources, computer-aided drug discovery is still a costly affair. In last few years CRDD team have developed open source webservers for computer-aided drug discovery. There are number of reasons why open source are not popular in the filed of drug discovery (particularly in chemoinformatics, pharmacoinformatics, clinical informatics) that includes; i) not available from single source, ii) difficult to install, iii) lack of infrastructure. In order to overcome some of the limitations we developed OSDDLinux. It provides the popular open source software in the field of drug discovery from a single platform.
Friday, September 20, 2013
Sunday, September 15, 2013
OSDD invited for the post of a Junior Research Fellow
Position of a Junior Research Fellow to Work on DST Sponsored Project
Applications are invited for the post of a Junior Research Fellow (temporary position till the project is supported) under DST funded research project.
Interested candidates can send their application with full resume / curriculum vitae. Experienced candidates, please apply with details of your present job description to mathewritta@osdd.netbefore 5rd October, 2013 mentioning in “DST project” in subject line. Selected candidates will be called for a personal interview. The decision of the interview panel will be final.
No TA/DA will be provided for attending the interview. The qualifying candidates are expected to start working within 1-2 weeks from the selection date.
Position: Junior Research Fellow
Pay:
SL.NO
|
Designation and Qualification
|
Emoluments for first 2 years (per month)
|
Emoluments for 3rdyear/SRF (per month)
|
1. |
Post graduate degree in basic sciences and NET qualified OR Graduate degree in professional courses and GATE or equivalent qualification |
Rs. 16000/-
+ 30% HRA
|
Rs. 18000/-
+ 30% HRA
|
2. | Post graduate degree in basic sciences with NET qualification for lectureship |
Rs. 12000/-
+ 30% HRA
|
Rs. 14000/-
+ 30% HRA
|
3. | Post graduate degree in professional courses |
Rs. 18000/-
+ 30% HRA
|
Rs. 20000/-
+ 30% HRA
|
4. | Post graduate degree in basic sciences without Net qualification for lectureship |
Rs. 12,000/-
|
Rs. 14,000/-
|
Age: Below 30 years
Duration: Two years (Each year extended based on performance after successful assessment by review committee).
Responsibilities: Gene cloning, site directed mutagenesis, mycobacterial growth analysis, invitro assay, phosphorylation studies, protein isolation and characterization by western blot analysis, extraction of mycolates, TLC, mass spectrometry. Screening of chemical molecules against M. tuberculosis. Book keeping and maintenance of stocks and consumables related to the project.
Essential Qualifications: M.Sc. in Microbiology / Medical Microbiology / Biotechnology / Biochemistry or B. Tech Biotechnology or M. Tech Biotechnology from a recognized university / institutewith a consistent first class academic record above 60% and relevant research experience as evidenced from thesis / dissertation carried out in a reputed scientific institution. Candidates should possess the extra qualifications specified by DST along with the degrees. Attach the scanned copy of the net lectureship or GATE qualification.
Desirable: Hands on experience with Mycobacterium tuberculosis and basic microbiology techniques. Practical experience in gene cloning, site directed mutagenesis and western blotting will be an added advantage.
Candidates should be comfortable and prudent working with M. tuberculosis and other microorganisms and be aware of the necessary safety and precautions required for handling it.
Wednesday, August 28, 2013
OPEN
SOURCE
IN
DRUG
DISCOVERY
Dr B..EKBAL
The
way in which intellectual property rights are being applied to research nowadays
has created numerous encumbrances to furthering the research boundaries in
Medicinal chemistry. This has resulted in making it a necessity to patent new
drugs that are manufactured, introduced and distributed in the market. So to
overcome these hurdles newer indigenous ways or methods are being designed
world over to overcome this lacuna. Presently market capitalization is the
driving mechanism which is the new world order in the field of research. Due to
this method of research that is prevalent it is nearly impossible for the
poorer strata of our society to access these drugs as the multinational companies
have cornered a major share in the drug market. This has led to cost escalation
of life saving drugs which is a stumbling block to carry out research so as to
be able to bring down the cost of these life saving drugs. All this is a fall
out of the prevalent patent laws that gives a near monopoly in manufacturing
those drugs to the multinational companies. This leads to an inflated subsidy
bill for all the governments of developing nations that try to make it possible
for the poor people to access these essential drugs for their mere survival.
This leads to a road block in the treatment of neglected diseases that are
prevalent in developing countries.
It
is in this background that newer methods and ways in pharmaceutical research
have been conceived by drawing inspiration from Open Source Software movement.
This in turn has led to a people’s movement in the field of pharmaceutical
research. This has been made possible by replacing the Private Software Copy
Right with the General Public License or Copy Left that was introduced by
Richard Mathew Stallman of the Massachusetts Institute of Technology (MIT) computer
department. This has made it possible to develop new knowledge and has given
the right to make modifications so as to improve it without any hindrances of
the prevalent copy right law.
Private
Software does not allow you to share your knowledge with others. Also the
Source Code is not made available to you and as a result of this you cannot
make any modifications to the software.
With the General Public Licence not only is the Source Code made
available to you, but you can also share the software with others and make
copies of the software. The motto or the tag line of General Public License is
to share and collaborate with others.
The
fundamental basis has been formulated and laid down in the form of a Creative
Commons by a Stanford professor of the department of law by the name Lawrence Lessig.
The primary aim of introducing the Creative Commons was to publish the creative
works of a person, to acknowledge him appropriately and to enable people having
a genuine interest in a relevant area to make use of it in such a way that no
profit is generated out of it. Through the Creative Commons the author is given
a chance for distributing his work and through this way making it available to
the public at large.
Creative
Commons is the basis of the frame work of OSDD (Open Source Drug Discovery) that
is being followed in many countries world over. Anybody who is interested in
Medicinal chemistry research can make contributions in whatever way possible through
sharing and collaboration which is the basic underlying principle that OSDD follows
piously. The main aim of this consortium is to find newer drug able molecules
for diseases that have been neglected by the multinational companies.
In India also OSDD has been started under the aegis of Council
of Scientific and Industrial Research (CSIR). The first and foremost area of
research of OSDD is to discover newer drug able molecules for Tuberculosis. The
major health issue that most of the developing countries are facing is the
prevalent character of tuberculosis. But the main issue at hand is the lack of discovery of newer
drug able molecules since 1980 by the multinational companies that have a
strangle hold over this area of research. Also tuberculosis bacterium has been
found to be resistant to the present drugs available in the market. With the advent of AIDS even developed
nations such as USA have seen the tuberculosis disease make a comeback. Studies
have proven that an AIDS patient is more susceptible to tuberculosis and if an
AIDS patient contracts tuberculosis it is found that the drugs that are
available in the market are ineffective in treating such patients. In India
every three minutes two people die of tuberculosis. With all this said the
multinational companies are least bothered in developing newer drugs to take on
the newer resistant forms of the tuberculosis bacteria. It is in this back drop
that CSIR through OSDD which is a social and community collaboration with the
human community at large to take on this ardours endeavour in discovering newer
drugs in the treatment of tuberculosis. Already around 4500 scientists and
technocrats are involved in this collaborative research. Everybody who takes
part in this collaborative research as well as institutions are either
monetarily rewarded or are acknowledged by CSIR.
After
the first phase of the research of finding the pharmacophore is finished, the
requisite reward is given and in the next stage, CSIR would then collaborate with
other institutions to carry out human testing. Once the drug is synthesised,
CSIR would apply for the patent. Then the licence required for drug
manufacturing would be given by CSIR to firms that are willing to manufacture
low cost generic drugs. The point to be noted is that, CSIR would not given the
license to only one firm but to a number of firms so as to prevent a particular
company from garnering the whole market share.
The generation of knowledge by complying with the patent laws through
collaborative research, by which drugs are developed economically in such a way
that it would be affordable to the whole of humanity without any income
barriers. This is what OSDD has achieved to do in a short span of time by being
a model to others.
All
these enlightening research activities are a glimmer of hope to the poor
tuberculosis patients of not only our country but of the human community at
large. Just like Open Source Software in the computer field, the problems of
copy right have been overcome in the field of pharmaceutical research. Under
the aegis of CSIR this new consortium would make certain tremors felt in the
field of medicinal research as well as in the prevalent drug market. The
discovery of a new drug for tuberculosis is the foremost task at hand. The
policy of OSDD is to make available drugs at an affordable cost to all without
any barriers through a collaborative research with the community at large.
About author
About author
Monday, March 25, 2013
Need of Support for
Women Scientists to Work from Home
Mamata Mishra
Department of
Sociology
School of Social
Sciences
University of
Hyderabad
E-mail-
mamatamis@gmail.com
In
India woman is appreciated on the name of Rani Laxmibai and on the other side
is always a victim of patriarchy. Let’s speak about woman on this occasion of
world TB Day. Although some locations in
this nation still observe child marriage till date, in this same nation we have
witnessed many women who have crossed the ordinary boundary of the world. For
instance Rani Laxmibai, Mother Teresa, Indira Gandhi, P.T. Usha, Kalpana
Chawla, Lata Mangeshkar, Kiran Bedi, Bachendri Pal, Priya Jhingan, Harita Kaur
Deol, Karnam Malleswari, Asima Chatterjee and so on. There is probably no area
or field where women have not gained excellence.
Science
is one of the key elements of an advanced society. Broadly speaking, science
and technological advancement is a sign of the growth and development of a
nation. The more advanced the science and technology area is, the more advanced
a nation is. Coming to the under-graduation and graduation level, women[1]
candidates are performing well in science education. In fact, if we look at
higher studies, they even do better, but what happens after that stage? How
many out of them are really able to proceed further in their career? Do they
select career and job according to their qualification? What are the possible
reasons behind this? The main reason according to me, is, age factor. By the
time they complete their higher studies, they will reach the age of marriage. In
many cases, she is forced to get married before she completes her education. Alarm
will start ringing each second to get ready for marriage and leave the career
at the back door. How many of these women stand firm and go ahead according to
their willingness? After giving so much of effort, if her talent could not be
utilized properly, then why did she study and come this far? Or can we say the
other way like why her parents allowed her to study according to her choice
before cutting down her legs? There are two possible answers to this. Firstly, she
opted to study science as she wants to be a scientist and work for the society
and herself as well. Secondly, parents have allowed her to come so far as they
might get a good standard son-in-law. Is not it a matter of shame? If she has
opted to take up her educational career so far, then where is her mental
strength to fight for her right to progress further? Why should she stop doing
science after her marriage? If it is her parent’s decision to give her higher
education, then why do they want to shatter her dreams latter? When we look at
these factors, one question came to my mind is that should women not get marry
then, if they want to continue their research and job etc?
Marriage
is not the only factor that puts a stop to women from doing science. There are
other factors such as, economic status of the parents. For example, by her
utmost effort, she has completed her graduation in science. She tries to get
some fellowship, but remains unfortunate in getting one. Once you complete your
post graduation, you have a number of fellowship options. Many parents can not
even afford till that period as they have to save a huge amount for her
marriage. This is one of the reasons why a girl has to stop her education in
the middle. What if her talent could still be utilized in a proper way? Another
ground is our rigid tradition. In many cases, a woman will have all the
resources she needs to pursue her education and career such as financial
assistance, no hurry at home for her marriage. Why is she still not able to
work as a scientist in our society? The reason is our rigid and conservative
tradition does not allow her to go for a job or work outside home.
Analyzing
the above factors, one can come to certain possible solutions. Marriage should
not be an obstacle for a woman scientist. After marriage her role should not be
confined to a wife, a daughter-in-law and a mother. If she is willing to work, do
research or job, then her willingness should be respected by her new family
members. Her new family should create a familiar environment for her to work.
In some cases, they do and in some they do not. Economy in a broader sense and
money in a specific sense should not close the door for higher education. Above
all, rigid culture should not cut he legs down and stop her from being
independent to pursue her dreams. During my recent conversation with one of the
scientists, he explained that it is difficult to change the system at once,
rather we can create another system, and its success will bring followers. What
can be possible solution for our women scientists? Marriage, economic
circumstances, and culture- all these are part of all of us; our society. It
may take decades to bring in a change. Here comes an alternative to this
present discussed issue, that is, make those women scientists work from home
itself.
This
initiative is an excellent one I came to learn about. This is the concept of
working from home itself, especially for women. We are of course, aware of the
initiative of working from home for moms in internet. At present there is
another initiative meant specifically for women is women scientists’ forum of
Open source Drug Discovery (OSDD) Initiative. The main motive of this
initiative is to bring together the creative talented women scientists those
who are interested to work for the cure of Tuberculosis disease by working in
an open space and on a common platform. As I have mentioned earlier, there are
many women who can not come out for job or research for many social factors. It
specially encourages them to join for this social cause. As a matter of fact,
it is not limited to a particular group of women, but welcomes any woman who is
voluntarily interested to join this forum and contribute. The functioning of
such forums is very important and needs to be supported by the Government, society
and nation in a broader sense. Here when I mentioned the word ‘support’, it
implies that the ‘strength’. This strength in the sense of support will
definitely lead to outstanding contributions to the OSDD initiative in general
and women empowerment in particular.
[1] In this article the
category of woman is specific to women scientists only. Although, the presented
arguments about education, occupation, economic and other issues are presented
by keeping women scientists in view, but broadly the same arguments are
applicable to any area such as social sciences, arts, humanities, and so on.
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