BOL: Related items

SOWDHAMINI Lab

Sun, 15 Sep 2013 09:19:12 -0500

Genome sequencing projects have enormous potential for benefiting human endeavors. However, just as acquiring a language's vocabulary does not enable one to speak it, databases that list the amino acid composition of proteins do not directly tell us much about these proteins' higher-level structure and function. The most productive way to indirectly exploit these databases has been to start with the small number of proteins that are fully-characterised and to assume that other "similar" proteins will have a related structure and function. Proteins with very similar amino acid sequence are "no-brainers", but the real test, which our group largely focuses on, is to detect the "essential" similarity in proteins whose non-critical sections have experienced random rearrangements during evolution. In such cases functionally similar proteins may have less than 25% sequence overlap.

More @ http://www.ncbs.res.in/sowdhamini/groups_sowdhamini.htm

List of Research Institutes in India (Biological Sciences/ Biotechnology)

Jit — Tue, 14 Nov 2017 09:46:16 -0600

A laboratory (normally lab) is a facility that provides controlled conditions in which scientific or technological research, experiments, and measurement may be performed.

The aims of bio/medical research are also broad, including:
• Understanding mechanism of disease
• Understanding the impact of genetic and external factors on human health
• Designing and evaluating new therapeutic interventions
• Health genomics

List of Research Institutes in India (Biological Sciences)

BANGALORE
Ashoka Trust for Ecology and the Environment
Royal Enclave, Srirampura, Jakkur Post, Bangalore-560064
Email: info@atree.org
Web: www.atree.org/
Research: ATREE deals with issues relating to the environmental, social and economic dimensions, and implications of, biological resources and natural ecosystems

Indian Institute of Science
Indian Institute of Science, Bangalore 560 012, Karnataka
Email:regr@admin.iisc.ernet.in
Web: www.iisc.ernet.in/
Research Areas: Biochemistry, ecological sciences, microbiology & cell biology, molecular biophysics, molecular reproduction, development & genetics.

Jawaharlal Nehru Centre for Advanced Scientific Research
Jakkur, Bangalore 560 064, Karnataka
Email: academic@jncasr.ac.in
Web: www.jncasr.ac.in/
Research Areas: Evolutionary and organismal biology, molecular biology and genetics.

National Centre for Biological Science
GKVK, Bellary Road,
Email: dean@ncbs.res.in
Web: www.ncbs.res.in
Research Areas: The research interests of the faculty range from single molecules to systems biology.

National Institute of Mental Health and Neurosciences
Bangalore 560029, Karnataka
Email: info@nimhans.kar.nic.in
Web: nimhans.kar.nic.in/
Research Areas: Biophysics, biostatistics, clinical psychology, epidemiology, human genetics, mental health education, neuroanaesthesia, neurochemistry, neuro imaging and interventional radiology, neurology, neuromicrobiology, neuropathology, neurophysiology, neurosurgery, neurovirology.

Stem Cell Institute
NCBS, GKVK, Bellary Road,
Email: ramas@ncbs.res.in
Web: underconstruction

University of Agricultural Sciences
GKVK, Bangalore 5600065, Karnataka
Email: root@uas.kar.nic.in
Web: uasbng.kar.nic.in/Default.htm
BARODA

Maharaja Sayajirao University of Baroda
Fatehgunj, Vadodara 390 002, Gujarat
Web: msubaroda.ac.in/

BHOPAL
Indian Institute of Science Education and Research–Bhopal
Govindpura, Bhopal - 23
E-mail: director@iiserbhopal.ac.in
Web: www.iiserbhopal.ac.in/
Research Areas: All areas of basic sciences – Biology, chemistry, math and physics
BHUBANESHWAR
Institute of Life Sciences
Bhubaneswar 751 023, Orissa
Web: www.ils.res.in
Research Areas: Cancer, malaria, age diseases, stress biology, ecophysiology, plant molecular physiology, filariasis, tuberculosis, bio-perspecitve, agricultural biotechnology, bio-informatics.

National Institute of Science Education and Research – Bhubaneshwar
Institute of Physics Campus, Bhubaneswar, Orissa - 751 005,
e-mail : director@niser.ac.in
Web: www.niser.ac.in/
Research Areas: All areas of basic sciences – Biology, chemistry, math and physics.

Regional Research Laboratory
Bhubaneswar 751 013, Orissa
Email: root@csrrlbhu.ren.nic.in
Web: www.icast.org.in/csir/rrl_bhu.html
Research Areas: Survey & cultivation of aromatic, medicinal and other economic plants.

Utkal University
Vani Vihar, Bhubaneswar 751 004, Orissa
Web: www.utkaluniversity.org/
CHANDIGARH
Indian Institute of Science Education and Research –Mohali
Chandigarh
Email: webmaster@iisermohali.ac.in
Web: www.iisermohali.ac.in/
Research Areas: All areas of basic sciences – Biology,
chemistry, math and physics

Institute of Microbial Technology
Sector 39–A, Chandigarh 160 036
Email: raghava@imtech.res.in
Web: www.imtech.res.in/
Research Areas: Molecular biology and microbial genetics,
animal cell/tissue culture and protein engineering.

Panjab University
Chandigarh 160 014
Email: pulib@puchd.ren.nic.in
Web: www.puchd.ac.in/

Postgraduate institute of Medical Education and Research
Sector-12, Chandigarh, 160 012
Email: pgimer@chd.nic.in
Web: pgimer.nic.in/
Research Areas: Obstetrics and gynaecology, psychiatry,
biochemistry, haematology, clinical parasitology etc.
CHENNAI
Indian Institute of Technology Madras
Chennai 600 036, Tamil Nadu
Email: tppro@acer.iitm.ernet.in
Web: www.iitm.ac.in
Research Areas: Engineering: Biotechnology.

University of Madras
University Centenary Building, Chepauk, Chennai 600 005, Tamil Nadu
Email: webmaster@unom.ac.in
Web: www.unom.ac.in/
DARJEELING
University of North Bengal
Raja Rammohunpur, Darjeeling 734 430, West Bengal
Email:(Registrar): regnbu@dte.vsnl.net.in
Web: www.nbu.ac.in/
DELHI
All India Institute of Medical Sciences
New Delhi
Email: webmastr@aiims.ac.in
Web: www.aiims.ac.in/

Institute of Genomics and Integrative Biology
Delhi University Campus, Mall Road, Delhi 110 007
Email: info@igib.res.in
Web: www.igib.res.in/
Research Areas: Allergy and immunology, diagnostics, genetic engineering, bio-organics and high-tech reagents.

Indian Institute of Technology Delhi
Hauz Khas, New Delhi 110 016
Email: malhotra@admin.iitd.ernet.in
Web: www.iitd.ac.in
Research Areas: Engineering: Biochemical engineering & biotechnology.
International Centre for Genetic Engineering and Biotechnology

ICGEB Campus, Aruna Asaf Ali Marg,
New Delhi 110 067
Web: www.icgeb.trieste.it/
Research Areas: Mammalian biology:
Virology immunology, malaria,
recombinant gene products,
Plant molecular biology, plant transformation,
insect resistance, plant resistance.

Jawaharlal Nehru University
New Delhi
Email: webmaster@mail.jnu.ac.in
Web: www.jnu.ac.in

National Centre for Plant Genome Research
JNU Campus, New Delhi
Email: tapas_s3@yahoo.co.in
Web: ncpgr.nic.in/
Research Areas: Nutritional, structural, and functional genomics of various plant systems.

National Institute of Immunology
Aruna Asaf Ali Marg, New Delhi 110 067
Web: www.nii.res.in/
Research Areas: Gene regulation, immunity & infection, molecular design, reproduction & development.

TERI University
Vasant Kunj, New Delhi - 110 070 / India
E-mail: registrar@teri.res.in
Web: www.teriuniversity.ac.in
Research Areas: Environmental Studies, Natural Resources Management, Climate Science and Policy, Plant Biotechnology

University of Delhi
University Road, Delhi 110 007
Email: webmaster@du.ac.in
Web: www.du.ac.in/
GOA
National Centre for Antarctic and Ocean Research
Headland Sada, Vasco-da-Gama 403 804, Goa
Email: info@ncaor.org
Research Areas: Co–ordination and implementation of the Indian Antarctic Programme.

National Institute of Oceanography
Dona Paula 403 004, Goa
Email: webmaster@darya.nio.org
Web: www.nio.org/
Research Areas: International geosphere-bio-sphere programme, marine biotechnology.
GURGAON
National Brain Research Centre
Near NSG Campus, Nainwal Mode, Manesar, Gurgaon, Haryana
Email: info@nbrc.ac.in
Web: www.nbrc.ac.in/
Research Areas: Brain research.
GUWAHATI
Indian Institute of Technology Guwahati
North Guwahati, Guwahati 781 039, Assam
Email: mcb@iitg.ernet.in
Web: www.iitg.ernet.in
Research Areas: Engineering: Biotechnology.

Gauhati University
Gopinath Bordoloi Nagar, Guwahati 781 014, Assam
Web: http://www.gauhati.ac.in/.
HYDERABAD
Centre for Cellular & Molecular Biology
Uppal Road, Hyderabad 500 007, Andhra Pradesh
Email: (Director): lalji@ccmb.res.in
Web: www.ccmb.res.in/
Research Areas: Biophysics & biochemistry, molecular biology, genetics & evolution, biomedicines & biotechnology.

Centre for DNA Fingerprinting and Diagnostics
CDFD, Bldg. 7, Gruhakalpa, 5-4-399/B, Nampally, Hyderabad - 500 001.
Email: director@cdfd.org.in
Web: www.cdfd.org.in/
Research Areas: Automated genome analysis, bacterial genetics, cancer biology, cell biology & gene expression, computational biology, computational & functional genomics, immunology, mammalian genetics, molecular genetics, molecular oncology, molecular virology, structural biology, transcription, developmental neuroscience and drosophila genetics.

Indian Institute of Chemical Technology
Uppal Road, Hyderabad 500 007, Andhra Pradesh
Email: kvr@iict.ap.nic.in, sampath@iict.ap.nic.in
Web: www.iictindia.org/
Research Areas: Pesticides, drugs, organic intermediates and fine chemicals.

LV Prasad Eye Intstitute
Hyderabad, Andhra Pradesh, India
Email: communications@lvpei.org
Web: www.lvpei.org/
LVPEI is a World Health Organization Collaborating Center for Prevention of Blindness. Equipped with cutting-edge technology and distinguished professionals in the field of Eye care

University of Hyderabad
P.O. Central University, Gachibowli, Hyderabad 500 046, Andhra Pradesh
Email: trctcs@uohyd.ernet.in
Web: www.uohyd.ernet.in/
IMPHAL
Institute of Bioresources and Sustainable Development
Takyelpat, Imphal 795 001, Manipur
Email: ibsd_imp@sancharnet.in, ibsd-imphal@man.nic.in
Web: ibsd-imphal.nic.in/
Research Areas: Conservation of biodiversity and sustainable utilisation of biodiversity.
ITANAGAR
North Eastern Regional Institute of Science and Technology
Itanagar, Nirjuli, Papumpare 791 109, Arunachal Pradesh
Email: dir@nerist.ernet.in
Web: www.nerist.ac.in/
Research Areas: Agricultural engineering, forestry.
JAIPUR
University of Rajasthan
Jaipur 320 004, Rajasthan
Email: info@uniraj.org
Web: www.uniraj.org/
JAMMU and KASHMIR
Regional Research Laboratory
Canal Road, Jammu 130 001, Jammu & Kashmir
Email: (Director): qazi_gn@yahoo.com, root@csrrljm.ren.nic.in
Web: www.rrljammu.org/
Research Areas: Natural products & organic chemistry, improvement & cultivation of medicinal and aromatic plants, post harvest technology and applied microbiology & mutation genetics.

University of Jammu
Jammu 180 006, Jammu & Kashmir
Web: www.jammuuniversity.org/

University of Kashmir
Hazratbal,Srinagar-190006,Jammu and Kashmir
Email: info@kashmiruniversity.net
Web: http://www.kashmiruniversity.net/

Sher-i-Kashmir Institute of Medical Science (SKIMS)
Srinagar, Jammu and Kashmir
Email: skimsweb@gmail.com
Web: http://www.skims.ac.in/

Sher-e-Kashmir University of Agricultural Sciences and Technology (SKUAST)
Shalimar Campus, Srinagar - 191121 Jammu and Kashmir
Email: skuastkashmir@gmail.com
Web: http://www.skuastkashmir.ac.in/
Research Areas: Agricultural Sciences, fisheries and veterinary sciences.
JORHAT
Regional Research Laboratory
Jorhat 785 006, Assam
Email: drrljt@csir.res.in, inform@csir.res.in
Web: jorhat.nic.in/rrl.htm
Research Areas: Agrochemicals, drugs and drug intermediates, organic chemistry, biochemistry.
KANPUR
Indian Institute of Technology Kanpur
GT Road, Kalyanpur, Kanpur 208 016, Uttar Pradesh
Email: infocell@iitk.ac.in
Web: www.iitk.ac.in/
Research Areas: Engineering: Biological sciences & bioengineering.
KHARAGPUR
Indian Institute of Technology Kharagpur
Kharagpur 721 302, West Bengal
Email: (PRO): ashok@hijli.iitkgp.ernet.in
Web: www.iitkgp.ernet.in/
Research Areas: Engineering: Biotechnology.
KOCHI
Cochin University of Science and Technology
South Kalamessery, Kochi 682 022, Kerala
Email: webmaster@cusat.ac.in
Web: www.cusat.ac.in/.
KOLKATA
Bose Institute
93/1, Acharya Prafulla Chandra Road, Kolkata 700 009, West Bengal
Email: sidroy@bic.boseinst.ernet.in
Web: www.boseinstitute.org/
Research Areas: Bioinformatics & computational biology, structure and functional dynamics of biomolecules, drug modeling, molecular genetics of microbes, transgenic plants etc.

Indian Institute of Chemical Biology
4, Raja S.C. Mullick Road, Jadavpur, Kolkata 700 032, West Bengal
Email: (Director): director@iicb.res.in
Web: www.iicb.res.in/
Research Areas: Natural products of medicinal, biological and industrial value, immunoassay techniques, tissue-targeted drug-delivery system.

Indian Institute of Science Education and Research –Kolkata
Mohanpur, Nadia, West Bengal
Web: www.iiserkol.ac.in/
Research Areas: All areas of basic sciences – Biology, chemistry, math and physics

Indian Statistical Institute, Kolkata
203 Barrackpore Trunk Road, Kolkata 700 108, West Bengal
Email: postmaster@isical.ac.in
Web: www.isical.ac.in/
Research Areas: Agricultural and ecological research, biological anthropology, human genetics.

Jadavpur University
188 Raja S.C. Mallik Road, Kolkata 700 032, West Bengal
Email: registrar@jdvu.ac.in
Web: www.jadavpur.edu/

University of Calcutta
Kolkata 700 009, West Bengal
Web: www.kolkata.org/cu/
KURUKSHETRA
Kurukshetra University
Kurukshetra 136 119, Haryana
Email: jskadian@rediffmail.com
Web: kuk.ernet.in/
LUCKNOW
Birbal Sahni Institute of Palaeobotany
53 University Road, Lucknow, Uttar Pradesh
Email: director@bsip.res.in
Web: www.bsip-india.org/index.htm
Research Areas: Botanical palaeobotany: Morphotaxonomy, palaeoecology, palaeogeography, phylogeny and evolution.

Central Drug Research Institute
Chattar Manzil Palace, Post Box No. 173, Lucknow 226 001, Uttar Pradesh
Email: info@cdriindia.org
Web: www.cdriindia.org/
Research Areas: Development of contraceptives, new drugs for tropical diseases (malaria, filariasis, leishmaniasis), cardio-vascular and central nervous system disorders.

Indian Institute of Science Education and Research –Kolkata
Mohanpur, Nadia, West Bengal
Web: www.iiserkol.ac.in/
Research Areas: All areas of basic sciences – Biology, chemistry, math and physics

Indian Statistical Institute, Kolkata
203 Barrackpore Trunk Road, Kolkata 700 108, West Bengal
Email: postmaster@isical.ac.in
Web: www.isical.ac.in/
Research Areas: Agricultural and ecological research, biological anthropology, human genetics.

Central Institute of Medicinal and Aromatic Plants
Lucknow 226 015, Uttar Pradesh
Email: director@cimap.res.in
Web: www.cimap.res.in/
Research Areas: Agrotechnologies for medicinal and aromatic plants, phytochemistry, plant physiology and biochemistry, pathology, genetics, entomology and pharmacognosy.

Industrial Toxicology Research Centre
Mahatma Gandhi Marg, P.O. Box No. 80, Lucknow 226 001, Uttar Pradesh
Email: info@itrcindia.org
Web: www.itrcindia.org/
Research Areas: Neurotoxicology, environmental health, immunotoxicology and environmental biotechnology.

National Botanical Research Institute
Rana Pratap Marg, Lucknow 226 001, Uttar Pradesh
Email: p.pushpangadan@nbri.res.in
Web: www.nbri-lko.org/
Research Areas: Plant biotechnology, environmental sciences, taxonomy and ethnobotany, plant molecular biology.
MUMBAI
Advanced Centre for Treatment, Research and Education in Cancer (ACTREC)
Tata Memorial Centre, Navi Mumbai - 410 210
Web: www.actrec.gov.in/
Research Areas: Research investigations currently focus on molecular mechanisms of cancer, drug development and emerging therapies for treatment and prevention of cancer.

Bhabha Atomic Research Centre
Trombay, Mumbai 400 085, Maharashtra
Email: webmaster@magnum.barc.ernet.in
Web: www.barc.ernet.in/
Research Areas: Chemical and life sciences, nuclear agriculture.

Bombay Natural History Society
Hornbill House, Shaheed Bhagat Singh Road, Mumbai 400 023, Maharashtra
Email: bnhs@bom4.vsnl.net.in
Web: www.bnhs.org/

Indian Institute of Technology Bombay
Powai, Mumbai 400 076, Maharashtra
Email: registrar@iitb.ac.in
Web: www.iitb.ac.in/
Research Areas: Earth sciences; Science: Biology, chemistry, mathematics, physics.

Tata Institute of Fundamental Research
Homi Bhabha Road, Navy Nagar, Colaba, Mumbai 400 005.
Web: www.tifr.res.in/
Department of Biological Sciences: www.tifr.res.in/~dbs
Research Areas: TIFR is a multidisciplinary research organisation working in the area of Natural Sciences (Biology, Chemistry, and Physics), Mathematics and Computer Science.

University of Mumbai
Vidyanagari, Kalina, Santa Cruz (W), Mumbai 400 098, Maharashtra
Web: www.mu.ac.in/

National Botanical Research Institute
Rana Pratap Marg, Lucknow 226 001, Uttar Pradesh
Email: p.pushpangadan@nbri.res.in
Web: www.nbri-lko.org/
Research Areas: Plant biotechnology, environmental sciences, taxonomy and ethnobotany, plant molecular biology.
NAGPUR
National Environmental Engineering Research Institute
Nehru Marg, Nagpur 440 020, Maharashtra
Email: dirneeri@nagpur.dot.net.in
Web: www.neeri.nic.in/
Research Areas: Environmental biotechnology.
PUNE
Agharkar Research Institute
G.G. Agarkar Road, Pune 411 004, Maharashtra
Web: www.aripune.org/
Research Areas: Animal sciences, microbial sciences, plant sciences.

Indian Institute of Science Education and Research–Pune
Email: director@iiserpune.ac.in
Web: www.iiserpune.ac.in/
Research Areas: All areas of basic sciences – Biology, chemistry, math and physics.

National Chemical Laboratory
Dr. Homi Bhabha Road, Pune 411 008, Maharashtra
Email: director@ems.ncl.res.in
Web: www.ncl-india.org/
Research Areas: biotechnology, biochemistry.>

National Centre for Cell Sciences
NCCS Complex, Ganeshkhind, Pune 411 007, Maharashtra
Email: infonccs@giaspn01.vsnl.net.in
Web: www.nccs.res.in/
Research Areas: Cell biology, molecular biology, immunology, parasitology, hybridoma technology, tissue banking & tissue engineering, regenerative biology, virology (HIV), cancer biology, diabetes, cryobiology transplantation, gene therapy.

University of Pune
Ganeshkhind Road, Pune 411 007, Maharashtra Telephone: 020-5601305
Email: Registrar): regis@unipune.ernet.in
Web: www.unipune.ernet.in/
PALAMPUR
Institute of Himalayan Bioresource Technology
Post Box No. 6, Palampur 176 061, Himachal Pradesh
Email: root@csihbt.ren.nic.in, director@ihbt.csir.res.in
Web: www.icast.org.in/csir/ihbt.html
Research Areas: Floriculture, tea sciences, biotechnology and natural plant products.
PATIALA
Punjabi University
Patiala 147 002, Punjab
Email: ucc@pbi.ac.in
Web: www.universitypunjabi.org/
PILANI
Birla Institute of Technology and Science
Vidhya Vihar Campus, Pilani, 333 031, Rajasthan
Email: mmsanand@bits-pilani.ac.in
Web: www.bits-pilani.ac.in/
ROORKEE
Indian Institute of Technology Roorkee
Roorkee 247 667, Uttaranchal
Email: (Registrar): regis@iitr.ernet.in
Web: www.iitr.ernet.in/
Research Areas: Engineering: Biotechnology.
SHANTINIKETAN
Visva-Bharati University
Santiniketan, Birbhum 731 235, West Bengal
Email: Root@vbharat.ernet.in
Web: www.visva-bharati.ac.in/
SHILLONG
North-Eastern Hill University
Umshing, Shillong 793 022, Meghalaya
Email: admin@nehu.ac.in
Web: www.nehu.ac.in/
SILCHAR
Assam University
P.O. Box 63, Silchar 788 011, Assam
Email: auliba@sancharnet.in, asokesen@sancharnet.in
Web: assamuniversity.nic.in/
TRIVANDUM
Indian Institute of Science Education and Research–Trivandum
Trivandrum, Kerala,India.
Web: www.iisertvm.ac.in/
Research Areas: All areas of basic sciences – Biology, chemistry, math and physics

Rajiv Gandhi Centre for Biotechnology
Thycaud P.O., Thiruvananthapuram 695 , Kerala
Email: info@rgcb.res.in
Web: rgcb.res.in/
Research Areas: Disease biology and molecular medicine, Plant biotechnology

Regional Research Laboratory
Industrial Estate P.O., Pappanamcode, Thiruvananthapuram 695 019, Kerala
Email: root@csrrltrd.ren.nic.in
Web: w3rrlt.csir.res.in/
Research Areas: Chemistry of natural products, agroprocessing, photochemical systems including solar energy conversion, analysis of pollutants and waste-water technology.

VARANASI
Banaras Hindu University
Varanasi 221 005, Uttar Pradesh
Email: webmaster@bhu.ac.in
Web: www.bhu.ac.in/index.html

Rajiv Gandhi Centre for Biotechnology
Thycaud P.O., Thiruvananthapuram 695 , Kerala
Email: info@rgcb.res.in
Web: rgcb.res.in/
Research Areas: Disease biology and molecular medicine, Plant biotechnology

Indian Council for Agricultural Research
Main Web site: www.icar.org.in/
Research Institutes under ICAR: www.icar.org.in/icar15.html

CSIR Laboratories
Main CSIR website–www.csir.res.in/

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

Department of Atomic Energy
Main CSIR website–www.barc.ernet.in/

Department of Biotechnology
Main CSIR website–dbtindia.nic.in/index.asp

Dept. of Science & Technology
Main Website: Main Website: www.dst.gov.in/

Indian Council for Medical Research
Main Web site: icmr.nic.in/
Research Institutes under ICMR: icmr.nic.in/institute.htm#Permanent%20Institutes/Centres

Ministry of Environment and Forest
Main Web site: envfor.nic.in/
Research Institutes under ICAR: cyberjournalist.org.in/linksr.html

Linux Sort Commands for Bioinformatics

Rahul Nayak — Sat, 31 May 2014 15:41:16 -0500

Almost all the scripting languages such as Perl, Python etc have built-in sort, but unfortunately none of them are as flexible as sort command. But one when it come to space efficiency GNU sort stands at the top. It can sort a 20Gb file with less than 2Gb memory. It is not trivial to implement so powerful a sort by yourself.

sort a space-delimited file based on its first column, then the second if the first is the same, and so on:
sort input.txt

sort a huge file (GNU sort ONLY):
sort -S 1500M -t $HOME/tmp input.txt > sorted.txt

sort starting from the third column, skipping the first two columns:
sort +2 input.txt

sort the second column as numbers, descending order; if identical, sort the 3rd as strings, ascending order:
sort -k2,2nr -k3,3 input.txt

sort starting from the 4th character at column 2, as numbers:
sort -k2.4n input.txt

More Linxu sort command information

If you have any sort commands you'd like to share, please add them to our comments section below. For more help, you can also type:

man sort

or

sort --help

on your Unix/Linux system.

Coronavirus COVID ‐19 Testing Sites In India

Neel — Mon, 16 Mar 2020 16:13:41 -0500

COVID-19 is a new illness that can affect your lungs and airways. It's caused by a virus called coronavirus.

Stay at home if you have coronavirus symptoms

Stay at home if you have either:

a high temperature – you feel hot to touch on your chest or back
a new, continuous cough – this means you've started coughing repeatedly

DO NOT TAKE

Ibrufen

https://amp.theguardian.com/world/2020/mar/14/anti-inflammatory-drugs-may-aggravate-coronavirus-infection

How to avoid catching and spreading coronavirus (social distancing)

Everyone should do what they can to stop coronavirus spreading.

It is particularly important for people who:

are 70 or over
have a long-term condition
are pregnant
have a weakened immune system

Below are the 52 Coronavirus COVID-19 Testing sites/locations in India.

State: Andhra Pradesh

Sri Venkateswara Institute of Medical Sciences, Tirupati
Andhra Medical College, Visakhapatnam, Andhra Pradesh
GMC, Anantapur, AP

State: Andaman & Nicobar islands

Regional Medical Research Centre, Port Blair, Andaman, and Nicobar

State: Assam

Gauhati Medical College, Guwahati
Regional Medical Research Center, Dibrugarh

State: Bihar

Rajendra Memorial Research Institute of Medical Sciences, Patna

State: Chandigarh

Post Graduate Institute of Medical Education & Research, Chandigarh

State: Chhattisgarh

All India Institute Medical Sciences, Raipur

Union Territory: Delhi-NCT

All India Institute Medical Sciences, Delhi
National Centre for Disease Control, Delhi

State: Gujarat

BJ Medical College, Ahmedabad
M.P.Shah Government Medical College, Jamnagar

State: Haryana

Pt. B.D. Sharma Post Graduate Inst. of Med. Sciences, Rohtak, Haryana
BPS Govt Medical College, Sonipat

State: Himachal Pradesh

Indira Gandhi Medical College, Shimla, Himachal Pradesh
Dr.Rajendra Prasad Govt. Med. College, Kangra, Tanda, HP

Union Territory: Jammu and Kashmir

Sher‐e‐ Kashmir Institute of Medical Sciences, Srinagar
Government Medical College, Jammu

State: Jharkhand

MGM Medical College, Jamshedpur

State: Karnataka

Bangalore Medical College & Research Institute, Bangalore
National Institute of Virology Field Unit Bangalore
Mysore Medical College & Research Institute, Mysore
Hassan Inst. of Med. Sciences, Hassan, Karnataka
Shimoga Inst. of Med. Sciences, Shivamogga, Karnataka

State: Kerala

National Institute of Virology Field Unit, Kerala
Govt. Medical College, Thiruvananthapuram, Kerala
Govt. Medical College, Kozhikode, Kerala

State: Madhya Pradesh

All India Institute Medical Sciences, Bhopal
National Institute of Research in Tribal Health (NIRTH), Jabalpur

State: Meghalaya

NEIGRI of Health and Medical Sciences, Shillong, Meghalaya

State: Maharashtra

Indira Gandhi Government Medical College, Nagpur
Kasturba Hospital for Infectious Diseases, Mumbai

State: Manipur

J N Inst. of Med. Sciences Hospital, Imphal‐East, Manipur

State: Odisha

Regional Medical Research Center, Bhubaneswar

Union Territory: Puducherry

Jawaharlal Institute of Postgraduate Medical Education & Research, Puducherry

State: Punjab

Government Medical College, Patiala, Punjab
Government Medical College, Amritsar

State: Rajasthan

Sawai Man Singh, Jaipur
Dr. S.N Medical College, Jodhpur
Jhalawar Medical College, Jhalawar, Rajasthan
SP Med. College, Bikaner, Rajasthan

State: Tamil Nadu

King’s Institute of Preventive Medicine & Research, Chennai
Government Medical College, Theni

State: Tripura

Government Medical College, Agartala

State: Telangana

Gandhi Medical College, Secunderabad

State: Uttar Pradesh

King’s George Medical University, Lucknow
Institute of Medical Sciences, Banaras, Hindu University, Varanasi
Jawaharlal Nehru Medical College, Aligarh

State: Uttarakhand

Government Medical College, Haldwani

State: West Bengal

National Institute of Cholera and Enteric Diseases, Kolkata
IPGMER, Kolkata

Does anyone have Nanopore latest updates?

Poonam Mahapatra — Mon, 12 Aug 2013 12:19:29 -0500

There was a lot of buzz about Oxford Nanopore Technologies® is developing the GridION™ system and miniaturised MinION™ device. These are a new generation of electronic molecular analysis system for use in scientific research, personalised medicine, crop science, security/defence and more. The platform technology uses nanopores to analyse single molecules including DNA/RNA and proteins. With a broad patent portfolio, the Oxford Nanopore pipeline includes biological nanopores and solid-state nanopores.

Is this available, or still under trial mode?

https://www.nanoporetech.com/

https://www.nanoporetech.com/technology/the-minion-device-a-miniaturised-sensing-system/the-minion-device-a-miniaturised-sensing-system

Postdoc position at Centre Méditerranéen de Médecine Moléculaire - Nice - France

Wed, 04 Jun 2014 07:20:57 -0500

The research group of Dr. Michele Trabucchi at the Centre Méditerranéen de Médecine Moléculaire (C3M) at INSERM U1065 (University of Nice Sophia-Antipolis, France) is seeking candidates for a Postdoctoral fellow position to start on October 2014 for 3 years funded by FRM (Fondation pour la Recherche Médicale).
The broad interest of the lab is in understanding the expression control and function of small RNAs in activated myeloid cells (visit our webpage to check research interests and publications of the group : http://www.unice.fr/c3m/EN/Equipe10.html ).

The work will focus on the functional studies of small RNAs by using next-generation sequencing approaches.

Candidates should hold a Ph.D. degree and have strong background in bioinformatics.
The University of Nice Sophia-Antipolis provides a wide range of facilities and training essential for biomedical research.

Interested applicants should send a PDF with a cover letter stating research interests and qualifications, an updated CV, a summary of previous research experience and contact information for two references to Michele Trabucchi ( mtrabucchi@unice.fr )

Homepage: http://www.unice.fr/c3m/EN/Equipe10.html

A powerful, yet simple, gene set analysis tool for interpreting RNA-seq and NGS results.

Shani — Thu, 30 Oct 2014 09:19:29 -0500

LifeMap Sciences is introducing GeneAnalytics, our new gene set analysis tool, which is applicable for NGS results and differentially expressed gene lists from variable sources. GeneAnalytics provides gene associations with tissues & cells, diseases, pathways, GO terms and compounds.

Our main advantages over other similar tools are:

GeneAnalytics is very simple and intuitive to use.
GeneAnalytics is based on our proprietary databases – GeneCards, MalaCards, PathCards and LifeMap Discovery, each of them integrates information from a very large number of resources.
GeneAnalytics supplies links for extensive background information on each of the matched results.

I invite you to try it out for free at geneanalytics.genecards.org, and would be happy to hear your comments and thoughts on how we can improve.

Yours,

Shani Ben-Ari Fuchs

LifeMap Sciences Team

Ten recommendations for creating usable bioinformatics command line software

RAJESH DETROJA — Sun, 08 Jun 2014 10:06:26 -0500

Bioinformatics software varies greatly in quality. In terms of usability, the command line interface is the first experience a user will have of a tool. Unfortunately, this is often also the last time a tool will be used. Here I present ten recommendations for command line software author’s tools to follow, which I believe would greatly improve the uptake and usability of their products, waste less user’s time, and improve the quality of scientific analyses.

Address of the bookmark: http://www.gigasciencejournal.com/content/2/1/15?utm_content=buffer25ee0&utm_medium=social&utm_source=twitter.com&utm_campaign=buffer

Alignment of closely related whole genomes/scaffolds

Rahul Nayak — Fri, 29 Jan 2016 10:37:27 -0600

With the relative ease and low cost of current generation sequencing technologies has led to a dramatic increase in the number of sequenced genomes for species across the tree of life. This increasing volume of data requires tools that can quickly compare multiple whole-genome sequences, millions of base pairs in length, to aid in the study of populations, pan-genomes, and genome evolution.This bookmaks have been created to report new tools for whole genome alignments.

Please report new whole genome alignment tools under comment sections.

Address of the bookmark: http://www.cs.utoronto.ca/~brudno/721.full.pdf

Finishing !!

Jit — Sat, 20 May 2017 15:50:20 -0500

The process of finishing a genome and moving it from a draft stage (the result of sequencing and initial assembly) to a complete genome is typically a time and resource intensive task. The advent of new sequencing technologies has come with its own set of opportunities and pitfalls in the finishing process. While genomes can now be sequenced to high redundancy in a cost-effective manner, the process of assembling the genomes is more challenging and often draft genomes are fragmented into hundreds of contigs. Correspondingly, the task of producing the complete genome can involve months of lab work and thousands of finishing experiments and is usually done in large genome centers.

The work in our lab has focussed on computational approaches to speed-up the finishing process. Specifically, we have explored the use of optical mapping and mate-pair data to augment assemblies and direct finishing experiments. The tools developed in our lab have been used in several finishing projects, producing complete genomes (and near-complete ones) with surprisingly little computational and experimental effort (Nagarajan et al., in submission). The executables (as well as source code) for these tools are freely available here:

Scaffolding using Optical Restriction Mapping
Optical Maps are global, ordered maps of restriction site locations in a genome. This information can be quite useful in scaffolding contigs from a shotgun assembly to guide the finishing process. A set of programs to exploit optical maps for assembly can be found here: SOMA v2.0 (63 MB tar.gz file). This version of SOMA contains several improvements to programs in v1.0 as well as new scripts for working with multiple maps, contig graphs and scaffolds.
Augmenting assemblies with mate-pair data
Mate-pair information can be valuable in augmenting short-read assemblies and reconstructing the genome as larger scaffolds. AMOS-Hybrid is a pipeline written in the AMOS framework (open-source assembly tools) to merge arbitrary mated reads into an existing assembly and merge contigs and create scaffolds where possible. Source code and executables for AMOS-Hybrid are available here: AMOS-Hybrid v1.0 (142 MB tar.gz file).
Assembly and sequence-composition guided finishing
Contigs from a shotgun assembly are typically linked together in a graph structure that can serve to guide finishing and in some case close gaps in-silico. Also, in many cases, sequence composition of contigs can provide clues to fill gaps in scaffolds. A set of scripts to automate some of these tasks can be found here: Finishing Scripts v1.0 (63 MB tar.gz file).

http://www.cbcb.umd.edu/finishing/

Address of the bookmark: http://www.cbcb.umd.edu/finishing/