Proteins : Structure, Function and Evolutionary Group

project Trainees @ MBU -Dr.N.Srinivasan lab

2011-02-17T22:58:00.000-08:00

NAME :VISHNU R.G
COLLEGE :AMRITA SCHOOL OF BIOTECHNOLOGY,Amrita Vishwa vidya peetham,Kollam,Kerala
COURSE:MSc Bioinformatics
PROJECT:Analysis of inherent flexibility of protein structure using Protein Blocks (PBs)
DUARATION: january 2011-MAY-2011
SUPERVISOR Prof.N.Srinivasan.
PROJECT ADVISOR: Swapnil Mahajan

NAME :APARNA SUBRAMANIAN

COLLEGE:SASTRA University, Thanjavur
COURSE:B.Tech Bioinformatics, IV Yr .
PROJECT:DISEASE CAUSING GENETIC MUTATIONS IN PROTEIN KINASES
DUARATION: Dec 2010 - March 2011

Presented by Dr.Alex @ IISc-MBU Seminar HAll

2011-02-15T23:01:00.000-08:00

3-D comparison of Protein represented by block

CEFIPRA Project:

Dr.Alexandre G.de Brevern(INSERM,paris) & Pr.N.Srinivasan(IISc BAngalore)

Lunch with Dr.Alex @ CHOLAYIL SANJEEVANAM,BANGALORE

2011-02-15T22:38:00.000-08:00

Thesis Colloquium: Swapna L.S. (NS Group) !!

2010-11-22T00:53:00.000-08:00

MOLECULAR BIOPHYSICS UNIT
INDIAN INSTITUTE OF SCIENCE
BANGALORE - 560012
------------------
COLLOQUIUM

Speaker : Swapna L.S

Title : "Structural and evolutionary studies on protein-protein interactions"

Date & time : Monday, 22th November 2010, at 3.00 PM

Venue : MBU SEMINAR HALL

ALL ARE CORDIALLY INVITED

Coffee @ 2:45 PM

All the best Swapna !!

From NS GRP.

Talks & Camp-fire@ Bandipur on 9th Oct. 2010.

2010-10-11T05:43:00.000-07:00

Jungle safari @ Bandipur National Park on 9th and 11th Oct. 2010.

2010-10-11T05:11:00.000-07:00

Amazing snaps taken by Moorthy, Smita and Adwait.

Lab Trip to Bandipur National Park, 8th-10th Oct. 2010!!

2010-10-11T04:50:00.000-07:00

OKD's Farewell Party Photos on 9th Sept. 2010!!

2010-10-11T04:38:00.000-07:00

Congratulation Krishnadev on your graduation!!

2010-10-11T04:28:00.000-07:00

O. Krishnadev graduated on 2nd July 2010. He is currently pursuing his Post-doctoral research in Dr. Kannan's group at University of Georgia, Athens, USA.

New short term visitors, June 2010 !!

2010-06-12T00:28:00.000-07:00

NS lab welcomes you !!

Smruthi V

B. Tech(Biotech), Anna University, Chennai. (IAS Summer Fellowship Student.)

Aparna Subramanian

B. Tech(Bioinformatics),SASTRA UNIVERSITY, Thanjavur.(IAS Summer Fellowship Student.)

OKD submitted his thesis !!!

2010-04-11T09:03:00.000-07:00

Krishnadev O, Int PhD student @ NS Group

OKD submitted his thesis, March 2010 !!

Currently as Research Associate @ NS Lab, MBU, IISc

On OKD B'day March, 2010 @ CEDT Tea Shop ;)

Prof. NS @ Reunion Univ, France & DTU, Copenhagen

2010-04-11T08:54:00.000-07:00

Reunion University (29 March 2010 to 1 May 2010), France

and @ DTU,Copenhagen (8 May 2010 to 26 May 2010), Denmark.

Dr. Alexandre de Brevern @ Bangalore, INDIA March 2010

2010-04-11T08:49:00.000-07:00

Dr. Alexandre de Brevern @ INDIA 2010 with NS Group !!!

MBU Trip 2010 !!

2010-03-02T04:50:00.000-08:00

MBU Trip of this year, 2010.

Dandeli

5th-7th March.

Situated on the riverbanks of Kali river, Dandeli falls in Uttara Kannada

district of Karnataka. It is the ideal destination

for  nature lovers

as it offers a mix of adventure sports and wildlife. The Kali River,

the Western Ghats in the background and the surrounding

reserve forests,  throw up various activities

for adventure- and eco-tourism.

The iternary of the trip is: trip to waterfalls in Cinthery Rocks,

boating in Supa Dam Back Waters, Bird Watching and Safari, Campfire

and Night Trek, Trek to Kavala Caves and Adventure Sports.

BON VOYAGE

Happy Holi 2010 !!

2010-03-01T04:42:00.000-08:00

Welcome Agnel !

2010-03-01T01:21:00.000-08:00

We welcome Agnel Praveen Joseph back to NS Group !!

Research Assistant @ NS group 2007-2008.

Current Position:
PhD Scholar,
c/o De BREVERN Alexandre
Equipe de Bioinformatique Génomique & Moléculaire du professeur Serge Hazout (EBGM)
Unité INSERM E0346
Université Paris VII, case 7113
2, place Jussieu
75251 Paris Cedex 05.

He will be working with our group till 31th March.

IISc Open Day, 26th Feb, 2010 !!

2010-02-25T04:30:00.000-08:00

India celebrates the National Science Day in February each year, marking the novel discovery of Raman Effect by Sir C V Raman. The Indian Institute of Science recently completed a hundred...

Indian Institute of Science (IISc.) opens its gates to the public on Friday and make its labs and research work accessible to all. The aim is to create interest in Pure Science among school and college students.
The public can walk into any department between 9 a.m. and 5 p.m. and learn about the research work being done there. Among the activities are live experiments, demonstrations of scientific phenomena, exhibitions of cutting-edge equipment and research, lectures on popular science, archival material on the institute and games.

MORE INFO: http://www.iisc.ernet.in/scouncil/openday.html

Farewell party photos!! 15th Feb, 2010.

2010-02-18T00:13:00.000-08:00

Farewell Party: 15th Feb, 2010

2010-02-14T00:20:00.000-08:00

7pm, Monday, 15th Feb, 2010

Venue: The Chancery

10/6, Lavelle Road, (Very near MG Road)
Bangalore- 560001,
Tel : 22276767, 41188888

PS: This is NOT Chancery Pavilion which is in another road.

For Nicolas Garnier, Dinesh D C, Gaurav Thareja & Jyoti Sharma.

with Shashi B.Pandit(Alumni) !!

New short term visitor, Feb 2010 !!

2010-02-11T05:02:00.000-08:00

NS Lab Welcomes you !! :)

Gayatri Ramakrishnan
B. Tech(Biotech), Dr. Dy Patil University, Mumbai

in collaboration with Sandhya Sankaran, Post-Doctoral Fellow, MBU, IISc

NS Lab Alumni Shashi B. Pandit visiting NS Lab on 15th Feb, 2010.

2010-02-08T22:16:00.000-08:00

Welcome Shashi B. Pandit to NS Lab !!

NS Lab Members: DNA CITY NEWS PAPER !!

2010-02-05T21:58:00.000-08:00

Moorthy, Raksha, Gowri, Lakshmi, Smitha & Swapnil

MORE INFO: PAGE 8

Cool iPad 2010 !!

2010-01-29T05:23:00.000-08:00

More about iPad

WATCH DEMO

Gowri's Seemantham, 22.01.2010

2010-01-21T21:10:00.000-08:00

INVITATION

New short term visitor, 2010 !!

2010-01-21T21:02:00.000-08:00

SHORT TERM VISITOR DETAILS:

Prashant Singh

M. Tech (IT) Bioinformatics, IIIT, Allahabad.
Contact: prashantbioinfo(AT)gmail.com
Mobile: 9900185620

Duration: 6 months (Jan 2010 to Jun 2010).

APBC 2010 Participants Group Photograph !!

2010-01-20T21:15:00.000-08:00

HIGH RESOLUTION IMAGE DOWNLOAD

HIGH RESOLUTION IMAGE DOWNLOAD

Solar Eclipse !! 15th Jan, 2010

2010-01-15T23:32:00.000-08:00

Solar Eclipse !! From MBU, IISc Terrace !!

15th Jan, 2010, 12:30pm

15th Jan, 2010, 1:00 pm

Happy Pongal 2010 !!

2010-01-13T23:23:00.000-08:00

Venki @ IISc Jan 2010 !!

2010-01-09T00:05:00.000-08:00

Scientific Lectures !!

7th Jan, 2010 (4:00 PM), Title: Translocation in the ribosome: A progress report
Venue: MRC Auditorium

New Year Party @ NS Lab 2010 !!

2009-12-31T22:44:00.000-08:00

Let's all welcome 2010 !! :)

Yummy Yummy Special New Year Pizzas (Click it !!)

2010

Source: Macromolecular Modeling Blog

Wishes to all !!

Cheers ;)

NS Group

IISc Guest House to JN Tata Auditorium(APBC2010 Venue) !!

2009-12-30T00:41:00.000-08:00

View IISc Guest House to JN Tata Auditorium in a larger map

Prof. Venki Ramakrishnan talk @ IISc !!

2009-12-29T21:12:00.000-08:00

4:00pm, Tue, 5th Jan, 2010
Venue: JN Tata Auditorium !!

From Baroda to Cambridge
A Life in Science !!

APBC2010 UPDATE BLOG !!

2009-12-25T05:01:00.000-08:00

Link: http://apbc2010.blogspot.com/

Informations included: APBC2010 Conference details, Organizers Links(end of each page), Contacts, Volunteers update, Photos and many more..

Advance Wishes to you all !!

2009-12-25T04:54:00.000-08:00

Welcome back to India !! Garima !!

2009-12-21T06:45:00.001-08:00

We are all happy to welcome you back to India !!

From
NS Group.

NS Lab Moorthy's: MBU WORK PRESENTATION !!

2009-12-21T01:04:00.000-08:00

MOLECULAR BIOPHYSICS UNIT
INDIAN INSTITUTE OF SCIENCE
BANGALORE - 560012
------------------
MSS WORK PRESENTATION

Speaker : Mr. Ramachandra Moorthy Bhaskara

Title : "Stability of domain folds in Multi-domain proteins"

Date & time : Wednesday, 23rd December 2009,at 3.00 PM

Venue : MBU SEMINAR HALL

** ALL ARE CORDIALLY INVITED **

Tea & Coffee @ 2:45 PM

NS @ 35th Mahabaleshwar Seminar !!

2009-12-16T23:12:00.001-08:00

The Evolution of Molecular Function and Principles of Protein Design !!
Feb 21- 28th, 2010.

N. Srinivasan (IISc, Bangalore)
Topics:
1. Protein sequences and evolutionary relationships
2. Protein structures and evolutionary relationships &
3. Practical demonstration on the statistical analysis of protein sequence alignments

Other Speakers:

NS @ National Conference BIOTECHNOLOGY: Fusion of Advanced Research and Teaching, Madurai !!

2009-12-02T22:47:00.000-08:00

KinG Database Updated !!

2009-12-02T22:28:00.000-08:00

KinG: Kinases in Genomes version 2.0

http://hodgkin.mbu.iisc.ernet.in/~king

New Features:
* KING Variant Splicing Database contains information about Human Kinases(http://hodgkin.mbu.iisc.ernet.in/king/cgi/search): The database can be queried using keyword, Kinase family name, Domain name, protein length or Ensemble ID and the results are provided as a table with domain composition details and an image represeting the mapping of the domain organisation along the protein.

* Updated genomes(http://hodgkin.mbu.iisc.ernet.in/king2/cgi-bin/new_organisms) Fugu rubripes, Drosophila melanogaster, Saccharomyces cerevisiae, Caenorhabditis elegans, & several Mycobacterium sp.

* Website gets cool look !!

Statistics: The updated version of KinG holds information for 488 organisms. In KinG v2.0, kinome information is available for 49 archaea, 259 eubacteria, 126 viruses and 54 eukaryotes.

NS Lab Publication List updated Dec 2009!!

2009-12-02T22:19:00.000-08:00

NS GROUP PUBLICATIONS

Publication List(.pdf)

New short term visitor, Winter 2009 !!

2009-12-01T23:19:00.001-08:00

SHORT TERM VISITOR DETAILS:

Sriranjani B
B. Tech(Bioinformatics), SASTRA University, Thanjavur, Tamilnadu.
Contact: b.sriranjani(AT)gmail.com

Duration: 3 months (Dec 2009 to Feb 2010).

MBU Literature Presentation: Rakshambikai R

2009-12-01T23:19:00.000-08:00

Rakshambikai R(NS Group)
2nd Dec, 2009
Literature: Implications of motifs, domains and scaffolds on the wiring of new signalling pathways

SUPFAM(Inhouse Database) Upgraded & New Look !

2009-11-16T03:34:00.000-08:00

SUPFAM Release 3.0 uses homologous families in Pfam (Version 23.0) and SCOP (Release 1.69) which are examples of sequence -alignment and structure classification databases respectively.

Check out here: SUPFAM

New Features of SUPFAM web-site

* New design!
* Use of ALignHUSH profile-profile alignment program to relate families.
* Graphical representation of superfamilies have been added.

by Krishnadev O

In Memoriam – Warren DeLano !!

2009-11-10T22:00:00.000-08:00

On Tuesday, Nov 3, 2009 Warren DeLano passed away suddenly at his home. He was 37 years old.

Warren is the developer of PyMol, an Open Source molecular visualization system that has made enormous contributions to the community and can produce stunning visualizations of Proteins. His impact on the field of protein visualization has been recognized many times by the community and his tools are used in labs all over the world.

Warren DeLano was born in Philadelphia, raised in Palo Alto, and educated at Yale University. At Yale, he joined Axel Brunger's lab, where he made critical contributions to the computational tools and methods that made "CNS" a universal computational crystallography program.

After Yale, Warren received his doctorate at the University of California, San Francisco under the mentorship of Jim Wells, PhD. He then became a founding scientist at Sunesis Pharmaceuticals, creator of PYMOL, and founder of DeLano Scientific.

Throughout his life and career, Warren made fundamental and highly valued contributions to science. His Open Source PyMOL software is widely used throughout the world, and nearly all publications that display macromolecular structures use PyMOL. He was a strong advocate of freely available software and the Open Source movement. He also encouraged all who came into his lab or office. His sunny, optimistic outlook endeared him to all he knew; his brilliance awed and inspired many throughout the scientific and software worlds.

He is survived by his wife Beth Pehrson, mother Margaret DeLano, father James DeLano, Jr., step-mother Cathy Groves DeLano, step-father Tom Snouse, sister Jennifer DeLano and brother Brendan DeLano, as well as three aunts and eight cousins. A memorial will be held in several weeks – we will update this site as soon as information is available.

MSS literature presentation of Ms Richa Mudgal from NS Group on 11th Nov 2009 !!

2009-11-09T04:37:00.000-08:00

MOLECULAR BIOPHYSICS UNIT
INDIAN INSTITUTE OF SCIENCE
BANGALORE - 560012
------------------
MBU-SEMINAR SERIES 2009-10
LITERATURE PRESENTATION

Speaker : Ms. Richa Mudgal

Title : "Classical to Modern Views on Constraints in Protein evolution"

Date & time : Wednesday,11th November 2009, at 3.00 PM

Venue : MBU SEMINAR HALL

** ALL ARE CORDIALLY INVITED **

Coffee @ 2:45 PM

Dinesh D C and Yamunadevi S back to NS group after 3 months Internship @ Bonn, Germany.

2009-11-09T04:34:00.000-08:00

Dinesh D C and Yamunadevi S @ Bonn, Germany.

NS @ Paris with Garima, Agnel and Jeyashree !!

2009-11-02T23:25:00.000-08:00

Agnel, Garima, Jeyashree and NS.

Welcome to India !! NS !!

2009-11-01T08:11:00.000-08:00

We are all happy to welcome you back to India !!

From
NS Group..

Indian virtual conference on Bioinformatics (Inbix'10)

2009-10-21T13:08:00.000-07:00

For more details, please visit http://www.bioinformatics.org/wiki/Inbix10.
There are various speakers of repute in the area of Systems Biology and Bioinformatics.

Registration starts October 15, 2009. Stay tuned for more announcements.
If you are a group of 15 or more, you can form a virtual hub.
This is organized by Bioclues.org and Bioinformatics.org.

Garima Agrawal(PhD student @ NS Group) visits Alex de Brevern's Lab, Paris !!

2009-10-19T02:24:00.000-07:00

19 October, 2009.
2 months visit !!

Bon Voyage !!

NS moving to France !!

2009-10-16T23:57:00.000-07:00

19 Oct. 2009 and 1 Nov. 2009
Indo-French collaborative project.

Bon Voyage !!

Diwali Wishes to you all frm NS Group..

2009-10-16T23:54:00.000-07:00

NS Group !!!

Top ranking for Indian Institute of Science, Bangalore !!

2009-10-14T01:27:00.000-07:00

Webometrics Ranking July 2009

Since 2004, the Ranking Web is published twice a year (January and July), covering more than 17,000 Higher Education Institutions worldwide. Web presence measures the activity and visibility of the institutions and it is a good indicator of impact and prestige of universities. Rank summarizes the global performance of the University, provides information for candidate students and scholars, and reflects the commitment to the dissemination of scientific knowledge.

We intend to motivate both institutions and scholars to have a web presence that reflect accurately their activities. If the web performance of an institution is below the expected position according to their academic excellence, university authorities should reconsider their web policy, promoting substantial increases of the volume and quality of their electronic publications.

LINK

The Indian Institute of Science in Bangalore has been rated the best in South Asia in terms of visibility and scholarly papers on the net in the latest ranking of such institutions by Cybermetric Lab, the largest public research institution in Spain.

The Indian Institute of Technology in Mumbai, the National Informatics Centre in Bangalore, the Indian Institute of Technology in Kanpur and the Tata Institute of Fundamental Research in Mumbai make up the top five universities in the subcontinent.

In fact all the top 10 slots are for institutions in India, with two universities in Sri Lanka - University of Moratuwa and University of Colombo placed 10th and 11th on the list.

The highest ranked institution from Pakistan is the Lahore University of Management Sciences at the 17th position.

The other names in the top 10 are: The Indian Institute of Technology in Chennai, the International Institute of Information Technology in Hyderabad, the Indian Institute of Technology in Delhi, the University of Delhi and the Indian Institute of Technology, Kharagpur.

'Candidate students should use additional criteria if they are trying to choose university. Webometrics ranking correlates well with quality of education provided and academic prestige,' said a statement from Cybermetric Lab.

A total of 15,000 universities globally were analysed, of which about 5,000 were ranked in the list.

The Massachusetts Institute of Technology in Boston, US was the top-ranked university in the world with the rest 20 positions also held by American universities.

TOP 500 COUNTRIES

Visiting Professor at the Indian Institute of Science (IISc) Bangalore Venkatraman Ramakrishnan wins Nobel Prize for Chemistry 2009 !!

2009-10-11T05:08:00.000-07:00

The Nobel Prize in Chemistry 2009
"for studies of the structure and function of the ribosome"

Venkatraman "Venki" Ramakrishnan (Tamil: வெங்கட்ராமன் ராமகிருஷ்ணன்; [Homepage] born 1952 in Chidambaram, Tamil Nadu, India) is a structural biologist at the Laboratory of Molecular Biology of the Medical Research Council located in Cambridge, England. He is a Fellow of Trinity College, Cambridge and a Fellow of the Royal Society. He was awarded the 2009 Nobel Prize in Chemistry, along with Thomas A. Steitz and Ada Yonath.

WATCH VIDEO: Professor Umesh Varshney Interviewed !!

Professor Venkatraman Ramakrishnan's friends in IISc, Bengaluru. Professor Umesh Varshney from the Indian Institute of Science provides a fascinating glimpse into the scientist who won the Nobel Prize for Chemistry 2009.

NDTV LINKS: Nobel winner likes masala dosas !!

Indian-American Venkatraman Ramakrishnan, 57, has won this year's Nobel Prize in Chemistry, the Nobel Foundation announced on Wednesday. He shares it with Thomas Steitz, an American, and Ada Yonath, an Israeli.

Well known as `Venky' in India's scientific circles, Ramakrishnan, has been a visiting lecturer at the Indian Institute of Science (IISc) Bangalore, for many years. He was born and schooled at Chidambaram, Tamil Nadu and graduated from M.S. University in Vadodara, Gujarat, before moving to the United States for his Ph.D. from Ohio University.

He is the seventh person of Indian origin to win the Nobel.

"People here are very excited," said P. Balaram, director of IISc. "His is one of the most magnificent pieces of work in structural biology."

The three scientists won the prize for their research into ribosomes, which are proteinproducing structures found in all cells. Ramakrishnan used X-ray crystallography -- the same method used by the discoverers of the DNA -- to map the thousands of microscopic atoms that make up a ribosome.

The Nobel committee described ribosomal protein synthesis as "one of life's core processes." Antibiotics based on Ramakrishnan's model will save lives and decrease suffering, the Committee added.

NOBEL PRIZE 2009:

PUBMED redesigned 2009 !!!!!

2009-10-07T02:19:00.000-07:00

PUBMED REDESIGNED !!

PREVIEW

Introducing RRN

Access the latest research from Rapid Research Notes (RRN), a new archive of the National Library of Medicine. RRN provides permanent access to research shared through online resources for rapid scientific communication.
LINK

PyCon India 2009 @ IISc, Bangalore !!

2009-09-24T07:25:00.000-07:00

PyCon India 2009
26th and 27th September 2009
Venue: IISC, Bengaluru

Info:

Pycon India 2009 is a community conference by the Python developer community. A purely volunteer effort, it is being hosted for the first time in India, and will attract some of the best Python developers in India and abroad.

Pycon India 2009 would be held in Bangalore, India, between Saturday, 26th September 2009 and Sunday, 27th September 2009. Pycon India is a volunteer run conference making Pycon India 2009 reliant on sponsorship to help turn it into a successful and memorable event.

The conference will consist of a number of full length presentations, a number of shorter lightning talks and open sprints and BoFs.

Talk by Dr. Aswin Sai Narain Seshasayee, EMBL @ NCBS, 24th Sep, 2009

2009-09-23T01:48:00.000-07:00

NATIONAL CENTRE FOR BIOLOGICAL SCIENCES
TATA INSTITUTE OF FUNDAMENTAL RESEARCH
GKVK, BELLARY ROAD, BANGALORE

Seminar

Date : Thursday, September 24, 2009
Time : 11:30 a.m.

Speaker : Dr. Aswin Sai Narain Seshasayee,EMBL-European Bioinformatics Institute, UK

Title : Bacterial regulomics: from networks to histones

Venue : Ground Floor Lecture Hall (LH1)

Abstract
Bacteria are the most dominant form of free-living life on earth. Many bacterial live in multiple habitats each offering its own set of nutrients and adversaries. As part of adaptation to a given habitat bacteria make use of numerous signal-transduction mechanisms largely leading to a change in the transcriptional status of the cell. This is best exemplified by the metabolic system whose regulation can be conceptualised in the form of at least two genome-scale networks - one describing the metabolic system itself and the other icluding its regulators. Aiming to present an overview of our wholly computational work into signal-dependent regulation in bacteria, I will present a computational, functional genomic study of the architecture of genome-scale networks describing regulation of metabolism by small-molecules.

Bacterial gene regulation goes beyond specific, signal-dependent control, and includes large-scale, global regulation by histone-like / nucleoid-associated proteins. I will briefly present initial work, on three such proteins in E. coli, that make use of genome-scale experimental approaches. This will lead on to thoughts on future directions.

Co-ordinator: Dr. Mukund Thattai (thattai@ncbs.res.in)

ALL ARE WELCOME

By,
Sowdhamini

APBC2010: The Eighth Asia Pacific Bioinformatics Conference

2009-09-21T02:54:00.000-07:00

APBC2010
The Eighth Asia Pacific Bioinformatics Conference
Bangalore, India,
18-21 January 2010

The Asia-Pacific Bioinformatics Conference series is an annual forum for exploring research, development and novel applications of Bioinformatics. The Eighth Asia-Pacific Bioinformatics Conference, APBC2010, will be held in Bangalore, India.

REGISTRATION: Link

Affiliated with
International Society for Computational Biology

Supported by
National Center for Biological Sciences, Bangalore
Indian Institute of Science, Bangalore

JhankaaR 2009: Gymkana IISc

2009-09-19T02:51:00.000-07:00

Raksha and Richa are participating in JhankaaR and will be performing for the same on 20th Sept 2009 at Satish Dhawan Auditorium :)
looking forward to see you all there !!!!!!!

richa & raksha

p.s. my group performance (classical) is 2nd in sequence so plz plz plz come
soon and get seated :)

*******************************************************************************************************************************************************************
Dear All,
The Dance Club of IISC, Gymkhana presents:

**********************
** JhankaaR **
**********************

After the overwhelming success of Thirkan, the previous showcase, we are back to thrill you with an electrifying evening of Dance.
Join us and groove to the beats of a variety of dances - including Regional, Ballroom, Latin, Classical, Bollywood and many more!

Date : 20th September 2009, Sunday
Time : 5:30pm to 7:30pm
Venue : Satish Dhawan Auditorium

* IMPORTANT: Please carry your ID cards. They will be checked at the entrance *
*** ENTRY RESTRICTED TO IISCians ONLY ***

MBU Fresher´s Party on 11th September'09 !!

2009-09-08T01:44:00.000-07:00

MBU Fresher´s Party !!

Lets all welcome Sudha G once again to our group & other new MBUites!!!

MBU DAY and NIGHT, Friday 28th August, 2009 !!

2009-08-26T23:36:00.000-07:00

MBU DAY and NIGHT
on this Friday 28th August, 2009

----------------------------------------------------------------------------------
Friday, 28th August, 2009
----------------------------------------------------------------------------------

Morning 8:00 a.m. - 12 : 00 noon Out-door games Gymkhana
Grounds

Afternoon 12 : 00 - 1:30 p.m. Break for Lunch ----

Afternoon 1:30 p.m. - 4:30 p.m. In-door games Gymkhana

Evening 4:30 p.m. - 5:30 p.m. Break ----

Evening 5:30 p.m. - 7:30 p.m. Cultural programme MBU
Tea/Snacks
Prize Distribution

Evening 7:30 p.m. - 9:00 p.m. Dinner MBU

Night 9:00 p.m. - 11:00 p.m. Treasure Hunt MBU

Night 11:00 p.m. - 1:00 a.m. DJ Night MBU

----------------------------------------------------------------------------------

Please be in time for the morning games.....
Kindly Wear proper foot-wear to avoid injury......
Have proper Breakfast and come.....
Evening snacks and dinner will be provided...

Looking forward to your active and enthusiastic participation !!!!!!!!!!

NuBS Team

IISc "FREEDOM RUN" 2009 !!!

2009-08-14T10:25:00.000-07:00

On the eve of 62nd Independence Day of INDIA, Gymkhana is
organizing "FREEDOM RUN" 2009 tomorrow at 6.30 a.m.

starting point:- Near Physics Main Building
starting time:- 6.30 a.m (tentatively)
Route:-- will be instructed at the starting point
who can participate? - Students, Faculties, Staff and their childrens.

Prizes will be given to first few finishers in Student, Faculty/Staff and
children category for both Men and Women.

Come and join together as we are "ALL FOR ONE AND ONE FOR ALL".

**********************************************************************
BEST REGARDS,

GYMKHANA MANAGING COMMITTEE [GMC]

**********************************************************************

H1 N1 INFLUENZA !!

2009-08-13T09:44:00.000-07:00

H1 N1 INFLUENZA
------------------------------

H1 N1 influenza is a new viral disease other wise called swine flu first detected in April 2009 in USA. It is a global disease and already in INDIA. It affects primarily younger and older people.

Symptoms in children: 1) Fever throat pain , cold and cough.
2) Fast breathing or difficulty in breathing.
3) Dehydration.
4) Vomiting.
5) Body aches.

Symptoms in adults: 1) Difficulty in breathing.
2) Chest or Stomach pain.
3) Giddiness, confusion.
4) Vomiting.
5) Flu like symptoms and repeated feverish
condition and cough.

It spreads mainly by person to person through infected droplets expelled by coughing or sneezing of infected person. The treatment for this H1 N1 virus is available in INDIA. The drug is Oseltamivir (Tami flu) available only at recognized centers in Bangalore. It is used strictly under medical supervision.

The treatment at present is available at:
----------------------------------------

01. Rajiv Gandhi Chest Institute:Phone No. 2663 2634
02. Lake side Hospital:2536 6725
03. Victoria Hospital:2670 3294

The testing is also done in these centers including NIMHANS where throat swab is taken from strongly suspected person for finding Swine flu virus.

At present, new guidelines from the Central Government is clearly specify that only those on international travel history or contact with confirmed positive cases need to be quarantined and there throat swab is sent for testing, simple merely cough and cold, fever need not rush to hospital for checking for swine flu, only if persistent symptom and sore throat, high fever, myalgia and breathlessness need to be attended immediately. In these cases in doubt it is requested to meet Medical Officer at Health Centre. The experts say that swine flu is mild self resolving disease and in 98 % cases rest and general treatment is enough to recover. H1 N1 flu is not as dangerous as it thought to be it is like any other flu and not to be panicky. It is advisable to take following precautionary measures.

There is no vaccine available right now to protect against swine flu.
There are every day actions that can help to prevent the spread of virus that cause respiratory illnesses like influenza. Take these every day steps to protect your health:

• First and most important: wash your hands often with soap and
water, especially after you cough or sneeze;
• Avoid touching your eyes, nose or mouth;
• Try to avoid close contact with sick people;
• Reduce the time spent in crowded setting if possible;
• Improve airflow in your living space by opening windows;
• Practice good health habits including adequate sleep, eating
nutritious food, and keeping physically active;
• If you are having flu like symptoms do stay at home for the
minimum period of one week;
• Do use tissue paper while coughing or sneezing and throw it
promptly.

(Dr. G.R. Nagabhushana)
Chief Medical Officer, IISc, Bangalore.

Eclipse @ NS group !!!

2009-08-12T12:54:00.001-07:00

Eclipse:

Eclipse is a multi-language software development environment comprising an IDE and a plug-in system to extend it. It is written primarily in Java and can be used to develop applications in Java and, by means of the various plug-ins, in other languages as well, including C, C++, COBOL, Python, Perl, PHP, and others.

More Info @ http://www.eclipse.org/

Wikipedia

INDEPENDENCE DAY CELEB @ IISc 2009 !!

2009-08-11T12:35:00.000-07:00

INDEPENDENCE DAY 2009

The National Flag will be unfurled by the Director at 8:30 AM on
Saturday, the 15th August 2009 in front of the Main Building of the
Institute.

The Chairmen of the Departments / Sections / Laboratories / Units /
Centres, Staff and Students are requested to assemble in the quadrangle in
front of the Main Building at 8:25 AM.

Programme:

6-30 AM : Freedom Run
8:30 AM : Flag Hoisting by the Director
National Anthem

Speeches:
English :Prof. P. Balaram, Director, IISc.,
Kannada :Dr. Navakanta Bhat, Associate Professor, ECE
Hindi :Dr. Anjula Gurtoo, Associate Professor, MG

------------------------------------------------------

The IISc Gymkhana Music Club, Rhythimca

A musical event celebrating the spirit of Independence

Date : 16th August, 2009

Time : 5:30 pm

Venue : Satish Dhawan Auditorium (CSIC), IISc

Advance wishes to you all..

MBU Day!!! 28th of August, 2009 !! Friday !!

2009-08-08T22:55:00.000-07:00

MBU @ IISc

28th of August !! Friday, 2009.

Prof. G. N. Ramachandran's statue @ University of Madras !!

2009-08-08T12:07:00.000-07:00

=============================================
Center of Advanced Study in Crystallography and Biophysics
University of Madras
Guindy Campus
Chennai- 600 025
==============================================

Cordially invites you to the Unveiling of the statue of

Prof. G. N. Ramachandran. F.R.S
at 4:00 pm on 12th August, 2009

by

Prof. S. Ramachandran. D.Sc.,
Vice-Chancellor
University of Madras

Prof. N. Yathindra, F.A.Sc
Director
Institute of Bioinformatics and Applied Biotechnology
Bangalore

has kindly consented to preside over the function

Venue: GNR Hall
CAS in Crystallography & Biophysics

All are welcome
===========================================================
Program Schedule

(Wednesday 12-08-2009)

4:00 pm Unveiling the Statue of Prof. GNR

4:10 pm Introductory remarks
Prof. D. Velmurugan
Head of the Department
CAS in Crystallography & Biophysics

4:20 pm Special address
Prof. S. Ramachandran
Vice Chancellor

4:30 pm Presidential Address
Prof. N. Yathindra

Tributes to the Legend
(5:00 pm onwards)

HIGH TEA
===========================================================

Alumni news !!

2009-08-07T10:36:00.000-07:00

Jothi Sharma

She has joined Institute of Bioinformatics(IOB), Bangalore !!!
Congrats and All the best !!

From all of us !!

New Assistant Professor at Molecular Biophysics Unit, IISc !!

2009-07-30T02:13:00.001-07:00

Dr. Rishikesh Narayanan has reported as Assistant Professor at Molecular Biophysics Unit, IISc, today (30.07.2009).

Details:

Room No. :206 (2nd Floor)
Contact Telephone No. at MBU:2293 3372
MBU E-mail ID :rishi@mbu.iisc.ernet.in

MBU WEDNESDAY SEMINAR
Dr. Rishikesh Narayanan
Introductory Talk: 02-09-2009

MORE DETAILED CV

NS Grp: Getting updated with Ubuntu !!!

2009-07-29T00:34:00.000-07:00

Get Ubuntu

-By
Dinesh D C

Deepthi's delight... Diya

2009-07-27T03:55:00.001-07:00

E Book Repository !!

2009-07-15T12:24:00.000-07:00

E Book Repository is ready for our group !!

Wish everyone to contribute & make it great..
Thanking you.

--
Dinesh D C

NS Group Updated !!

2009-07-15T03:22:00.001-07:00

Dinesh D C, Jothi Sharma and Yamunadevi S from NS group are moving away from our group for their research career.
Sudha G has joined as PhD for this accademic year.

Thanks for all your support !!

-Dinesh, Jothi, Yamuna

New Softwares: @ /software area

2009-07-13T23:50:00.001-07:00

Dear Friends,
Softwares updated:
Local Matching Score: alignment-free distance computation(LMS)
by Juliette Martin(NS Group Alumni &
Dendroscope 2
An interactive viewer for large phylogenetic trees and networks.

-Dinesh D C

O Krishnadev Thesis Colloquium: Done !!

2009-07-13T23:50:00.000-07:00

All the best OKD!!

-NS Group

Thesis Colloquium: O Krishnadev (NS Group) !!

2009-07-10T01:48:00.000-07:00

MOLECULAR BIOPHYSICS UNIT
INDIAN INSTITUTE OF SCIENCE
BANGALORE - 560012
------------------
COLLOQUIUM

Speaker : Mr. O. Krishna Dev

Title : "Development and applications of
computational methods to aid recognition of protein
functions and interactions."

Date & time : Tuesday, 14th July 2009, at 11.00 AM

Venue : MBU SEMINAR HALL

** ALL ARE CORDIALLY INVITED **

Coffee @ 10:45 AM

All the best OKD !!

From NS GRP.

Lab Members Birthday List, NS Group 2009

2009-07-01T23:50:00.000-07:00

BIRTHDAY LIST(alphabetical order):

Anamika K 3 April
Dinesh D C 18 April
Rupali G 9 June
Nidhi Tyagi 2 July
Gaurav 8 July
Smita Mohanty 12 July
Rakshambika 17 July
Jyothi Sharma 10 August
Nicholas G 12 October
Garima Agarwal 24 October
R Moorthy B 7 November
Richa Mudgal 30 November
Swapna L S 26 June
Srinivasan N 12 June
Krishna Dev O 30 March
Yamunadevi S 2 June

FMCB - 2009: Conference (JNCASR & IISc)

2009-06-30T00:04:00.000-07:00

Frontiers in Chemical Biology: Proteins Structure, Function & Dynamics (FMCB - 2009)
Sponsored by Indo-US Science & Technology Forum, IISc, JNCASR, DBT, DST, BRNS and CSIR

2nd – 6th July
Jointly Organised by
IISc and JNCASR
Web: http://www.fmcb2009.org
Email: fmcb2009@sscu.iisc.ernet.in

LitInspector: Literature and Pathway mining made easy !

2009-06-26T11:16:00.000-07:00

LitInspector is a literature search tool providing gene and signal transduction pathway mining within NCBI's PubMed database. The automatic gene recognition and color coding increases the readability of abstracts and significantly speeds up literature research. A main challenge in gene recognition is the resolution of homonyms and rejection of identical abbreviations used in a ‘non-gene’ context. LitInspector uses automatically generated and manually refined filtering lists for this purpose. The quality of the LitInspector results was assessed with a published dataset of 181 PubMed sentences. LitInspector achieved a precision of 96.8%, a recall of 86.6% and an F-measure of 91.4%. To further demonstrate the homonym resolution qualities, LitInspector was compared to three other literature search tools using some challenging examples. The homonym MIZ-1 (gene IDs 7709 and 9063) was correctly resolved in 87% of the abstracts by LitInspector, whereas the other tools achieved recognition rates between 35% and 67%. The LitInspector signal transduction pathway mining is based on a manually curated database of pathway names (e.g. wingless type), pathway components (e.g. WNT1, FZD1), and general pathway keywords (e.g. signaling cascade). The performance was checked for 10 randomly selected genes. Eighty-two per cent of the 38 predicted pathway associations were correct. LitInspector is freely available at http://www.litinspector.org/.

Nucleic Acids Res. 2009 May 5

LitInspector: literature and signal transduction pathway mining in PubMed abstracts.
Frisch M, Klocke B, Haltmeier M, Frech K.
Genomatix Software, 80335 Munich, Germany.

Anamika's Farewell cum Swapna B'day Party !!!

2009-06-26T09:38:00.000-07:00

Memory Bank:

Spl B'day song !!!

-Wishes to Anamika and Swapna.

From,
All of us :)

Anamika's Farewell !! Today !! 26th June, 2009

2009-06-25T12:13:00.000-07:00

Friday, 26th June, 2009
Farewell Party.

-From All Of Us !!

N S Lab Resources: Web statistics !!!

2009-06-22T07:35:00.000-07:00

Check our Webstats now !!

* SUPFAM

* KinG

* PALI

* PRODOC

* MulPSSM

* P I C

* Cascade PSI-BLAST and

* NS Labpage

FEATURES:

Statistics: Visits and page loads
Analyze your stats per time period: View your stats by hours, days, weeks, months, or years
Breakdown your stats: By geography, search engines and keywords, referrers, browsers and operating systems
Compare counters: Compare the stats of two or more counters
Geographical analytics: See your visitors geographical location plotted on Google Maps and Heat Map
Unlimited history: Compare your traffic with the past and watch your traffic grow
Site ranking: Get your site ranked in the top list catalogue

- Motigo

PhyML 3.0: new algorithms, methods and utilities: phylogeny software !!

2009-06-22T07:18:00.000-07:00

PhyML 3.0 !!

PhyML is a phylogeny software based on the maximum-likelihood principle. Early PhyML versions used a fast algorithm to perform Nearest Neighbor Interchanges (NNIs), in order to improve a reasonable starting tree topology. Since the original publication (Guindon and Gascuel 2003), PhyML has been widely used (>1,250 citations in ISI Web of Science), due to its simplicity and a fair accuracy/speed compromise. In the mean time research around PhyML has continued. We designed an efficient algorithm to search the tree space using Subtree Pruning and Regrafting (SPR) topological moves (Hordijk and Gascuel 2005), and proposed a fast branch test based on an approximate likelihood ratio test (Anisimova and Gascuel 2006). However, these novelties were not included in the official version of PhyML, and we found that improvements were still needed in order to make them effective in some practical cases. PhyML 3.0 achieves this task. It implements new algorithms to search the space of tree topologies with user-defined intensity. A non-parametric, Shimodaira-Hasegawa-like branch test is also available. The program provides a number of new evolutionary models and its interface was entirely re-designed. We tested PhyML 3.0 on a large collection of real data sets to ensure that the new version is stable, ready-to-use and still reasonably fast and accurate.

Now available @ /software area !! (NS Group)

WEB SERVER FOR LATEST VERSION PhyML 3.0 Available !!

DOWNLOAD

MANUAL

- Swapna

Alumni Margaret Sunitha has joined Dr. Sowdhamini's lab @ NCBS as JRF !!

2009-06-19T00:19:00.000-07:00

She has been selected as JRF under Dr. Sowdhamini @ NCBS !! July 2009

Margaret Sunitha
M.Sc., Bioinfo, Stella Mary's, Chennai.
Proj: Inference on Conformational Variability and flexibility in Proteins Comparison of Crystallographic and Solution Structures.
(Short Term Visitor: worked with Yamunadevi S, NS Group, IISc)

NS Lab Visitor

Heartly wishes in behalf NS Group members..

Talk by Dr. Richard J. Roberts: Nobel Laureate for discovery of split genes" !!

2009-06-19T00:06:00.000-07:00

Sir Richard John Roberts (born September 6, 1943 in Derby) is an English biochemist and molecular biologist. He was awarded the 1993 Nobel Prize in Physiology or Medicine with Phillip Allen Sharp for the discovery of introns in eukaryotic DNA and the mechanism of gene-splicing.

As part of the Platinum Jubilee Celebrations of the Indian Academy of Sciences, a series of Platinum Jubilee Lectures by eminent scientists is being organised to be delivered at different parts of the ountry. In this series a lecture by Dr Richard J. Roberts (Nobel Laureate 1993, New England Biolabs, Beverly, USA) on "Genomics of restriction and modification" will be held at the Faculty all, Indian Institute of Science, Bangalore. on Friday, 19 June 2009 at 4.00 p.m.

Nobelprize.org
More details about Dr. Richard J. Roberts

Seminar by Dr. Arun Krishnan @ NCBS !!

2009-06-18T03:48:00.000-07:00

NATIONAL CENTRE FOR BIOLOGICAL SCIENCES
TATA INSTITUTE OF FUNDAMENTAL RESEARCH
GKVK, BELLARY ROAD, BANGALORE
Seminar

Date: Friday, June 19, 2009
Time: 10:15 a.m.

Speaker:
Dr. Arun Krishnan
Lead-Data Mining Group
Monsanto Research Center
Bangalore

Title:
Protein Structure Networks: Understanding the organization of protein structures

Venue:
Ground floor Lecture Hall (LH1)

Abstract

The architectural organization of protein structures has been the focus of intense research since it can hopefully lead to an understanding of how proteins fold. Despite the difference in models dealing with the way proteins fold into their tertiary structures, it is recognized that small regions of proteins tend to fold independently and are then stabilized by interactions between these distinct subunits. However, there are a number of different definitions of what comprises an independent subunit.

In our work, we looked at the organization of protein structures from the smallest unit in sequence space, viz., six-letter "words" to modules that interact with each other in 3D space all the way up to protein domains. We used network representations of proteins wherein the amino acids are the nodes and interactions between them are represented as edges. We identified invariants in protein structures which hold regardless of protein fold or family. Modules identified through our technique were shown through molecular dynamics simulations of the unfolding of ubiquitin to be those that formed early on during the folding process.

Co-ordinator: Prof. R. Sowdhamini (mini@ncbs.res.in)

Ms. Anamika Krishanpal THESIS DEFENSE, 16th June, MBU(NS Group), IISc.

2009-06-15T22:51:00.000-07:00

MOLECULAR BIOPHYSICS UNIT
INDIAN INSTITUTE OF SCIENCE
BANGALORE - 560012
------------------

THESIS DEFENSE

SPEAKER : Ms. Anamika Krishanpal

TITLE : "Genome-wide and structural analyses of protein
kinase superfamily"

DATE AND TIME : Tuesday, 16th June 2009, at 10.30 AM

VENUE : MBU SEMINAR HALL

** ALL ARE CORDIALLY INVITED **
CHAIRMAN

Coffee @ 10:15 AM
12th June ,2009 CHAIRMAN

N S Group Updated with a new PhD Student 2009!!

2009-06-14T03:12:00.000-07:00

Sudha Govindarajan

(selected PhD student, 2009 batch)

M.Sc., Biotechnology, Vellore Institute of Technology, Vellore.

We all welcome you to N S Group !!

Voices 2009!! Students Council, IISc, Bangalore.

2009-06-13T00:28:00.000-07:00

Updates @ IISc !!

JUNE 2008

MOTIGO: Optimize your website !!

2009-06-12T09:50:00.000-07:00

About:
Motigo was formed to create a platform of useful and professional tools for all webmasters. The basis for motigo was to come up with a solution that would eliminate the need for surfing around and signing up at numerous places in order to get the tools needed for your website

Use Motigo tools to optimize your website:
Web statistics!!

WEBSATS OF OUR LABPAGE !!

OTHERS LAB RESOURCES:
PIC
CascadePSI-BLAST

MOTIGO WEBSITE

N S Group Internal Website Created !!

2009-06-12T07:49:00.000-07:00

INTERNAL WEBSITE(Password Required)

N S Birthday Celeb June12th, 2009!!

2009-06-12T01:58:00.000-07:00

Many more happy returns of the day sir.. :)

-From all of us.

SCOP Updated !! 1.75 release (June 2009)

2009-06-08T22:10:00.000-07:00

New release of SCOP (Structural Classification of Proteins) mirror sites at the centre (Version 1.75).
38221 PDB Entries. 1 Literature Reference. 110800 Domains. (excluding nucleic acids and theoretical models).

STATISTICS

IISc SCOP Mirror site

New short term vistor to our group!!

2009-05-29T05:21:00.000-07:00

Name: Dhanapal S
M.Sc., Animal Biotechnology (1st yr Student),
Bharathidasan University, Trichy, TN
Contact: daneerev(at)rediffmail.com

Duration: 1 month
(May 26th to June 24th)

Anamika's open thesis defence!!

2009-05-29T05:14:00.000-07:00

16th June, 2009
MBU Seminar Hall, IISc, Blore.

All the best Anamika..!!

We welcome you all !!

-NS Group

Valedictory function of Centenary Celebration!!

2009-05-28T11:05:00.001-07:00

Few snaps around IISc!!

Ratan TATA @ IISc !!

Centenary Lunch!!

Candel Lighting infront of TATA statue!!

Firewrks!!

Candlelite all around IISc main building!!

Prof Balaram with Great grand sons of IISc's 1st Director "Morris Willian Travers"(1872-1961) !!

-Photographs taken by Dinesh(NS Group)

Swapna and Nidhi Tyagi will also be back soon !!

2009-05-25T21:57:00.000-07:00

Swapna and Nidhi Tyagi will be back on 2nd June, 2009.
We all welcome you too!! :)

Prof N S back from Reunion, France !!

2009-05-25T21:47:00.000-07:00

We all welcome you back to India !!

-NS Group Members

Welcome Agnel !!

2009-05-25T11:50:00.000-07:00

We welcome Agnel Praveen Joseph back to NS Group !!

Research Assistant @ NS group 2007-2008.
Current Position:
PhD Scholar,
c/o De BREVERN Alexandre
Equipe de Bioinformatique Génomique & Moléculaire du professeur Serge Hazout (EBGM)
Unité INSERM E0346
Université Paris VII, case 7113
2, place Jussieu
75251 Paris Cedex 05

He will be working with our group till June 4th, 2009 !!

-NS Group

Wonderful Cake @ UK for Nidhi and Swapna !!

2009-05-21T01:47:00.000-07:00

Tracey Bray from Jim Warwicker group made this spl. cake for Nidhi Tyagi and Swapna.

We all welcome you both back to India !!