Maharani Lakshmi Ammanni College For Women, Autonomous
(Bioinformatics Infrastructure Facility)
1.Name of the Centre : Maharani Lakshmi Ammanni College For Women,Autonomous (mLAC)
18th Cross, Malleswaram, Bangaluru.
2.Year of the Establishment: 2007
3.Area of specialization of the center: Genomics, Database creation and Drug Discovery
4.Name, Designation and Address of the Coordinator:
Dr. Sushil Kumar Middha
Associate Professor, Department of Biotechnology
Maharani Lakshmi Ammanni College for Women, Autonomous (mLAC)
18th cross, Malleswaram, Bangalore- 560 012
5.Name, Designation and Address of the Co-Coordinator:
(Dr.) Usha T
Associate Prof, Dept. of Biochemistry,
Maharani Lakshmi Ammanni College for Women, Autonomous (mLAC)
18th cross, Malleswaram, Bangalore- 560012
6.List of the Scientists working at the Centre: NA
7.Manpower details of the Centre:
|
S.No |
Designation |
Name |
|
1. |
Research Associate |
Ms. Divya.S |
|
2. |
Traineeship |
Ms.Ranjitha |
|
3. |
Traineeship |
Mr.Praveen |
|
4. |
Studentship |
Ms. Chandini.M |
|
5. |
Studentship |
Ms. Suchismita Dey |
8.Summary of the progress made by the centre during 2017-18
·Research publications in peer reviewed journals
·Poster/paper presentation in National and international conferences
·One training workshop
·One National conference
· Training programs for students: BIF has conducted workshops for 12th standard, UG and PG students to create an awareness about bioinformatics and its wide use in making biology learning more interesting and exciting.
· Specialized training programs for Biotechnology Finishing School students (Govt. of Karnataka initiative and supported by ABLE) to undertake internship and placement in biotechnology industry.
9.Budget Status: Yet to be received
10.Area of Research: Genomics,Database development and Drug discovery
url : www.bicmlacw.org
11.Projects currently under process:
-
Database for the metabolic pathways of secondary metabolites with anticancerous properties
-
In Silico Docking to elucidate Interface the effect of Plant-Originated Inhibitors and L1 capsid Protein of Highly Threatening Human Papillomavirus
-
Genome sequence analysis of Punica granatum to identify the key genes involved in the production of secondary metabolites with antidiabetic and anticancer activity.
-
Comparative genome analysis of Cajanus cajan, Brasica juncea species for its anticancer activity.
-
Pharmacophore Modeling and Virtual Screening for the Discovery of Acetylcholine esterase Inhibitors.
-
Analysing the antidiabetic, anticancer and anti-inflammatory activity of natural compounds present of Myrica nagi and M. esculanta using simulation studies.
-
Phylogenetic analysis of various species of bamboo.
12.Research paper published in National/International Journals
|
S. No |
Title of the Paper |
Authors |
Journal |
Vol |
Issue |
Starting Page |
Ending Page |
IF |
|
1 |
Identification of bioactive glucose lowering compounds of Hodgsonia heteroclita fruit pulp. |
T Usha, Goyal AK, D Narzary, L Prakash, G Wadhwa, BK Brahma, D Babu, Shanmugarajan D and SK Middha |
Frontiers in Biosciences
PMID: 28930578
|
23 |
1 |
875 |
888 |
2.497 |
|
2. |
Molecular simulation based Combinatorial Modeling and Antioxidant activities of Zingiberaceae family rhizomes found at higher latitude from North-East India-A mechanism based study. |
Usha T, Pradhan S, Goyal AK, Neelam, Pradhan P, Shanmugarajan D, Pande V, Basistha BC, Middha SK. |
Pharmacognosy Magazine (Phcog.net)
PMID:29142438
|
13 |
Suppl 3 |
S715–
|
S722 |
1.069 |
|
3. |
In Silico And In Vivo Based Scientific Evaluation of Traditional Anti-Diabetic Herb Hodgsonia Heteroclita Fruit Pulp Used By Bodo Tribe In India |
Usha T, Middha SK, Narzary D, Brahma BK, Goyal AK. |
Bangladesh Journal of Pharmacology
|
12 |
2 |
165 |
166 |
0.616 |
|
4. |
Eugenol exhibits anti-virulence properties by competitively binding to quorum sensing receptors
|
Biofouling Journal (Taylor & Francis Group)
PMID: 28792229
|
33 |
8 |
624 |
639 |
3.08 |
|
|
5 |
|
Divya S, Sureshkumar C, Bommuraj V, Chandran M, Janarthanam R, Usha T, Middha SK |
J Biomolecular Structure Dynamics (Taylor & Francis Group)
PMID:28705088
|
28
|
|
1 |
12 |
3.123 |
|
6 |
Recent updates on Computer-aided drug discovery: Time for a Paradigm Shift |
Usha T, Shanmugarajan D, SureshKumar C and Middha SK |
Current Topics in Medicinal Chemistry (Bentham Publisher) |
(In press) |
|
|
|
2.561 |
|
7. |
Morphological phylogeny among 15 accessions of bamboos growing in Kokrajhar district of BTAD, Assam |
Basumatary A, Basumatary AK, Middha SK, Usha T, Bhattacharya S, Brahma BK, Goyal AK. |
Journal of Forestry Research (Springer) |
(In press) |
|
|
|
0.774 |
|
|
|
|
|
|
|
|
Total |
13.72 |
13.Patents/Copyrights : NA
14.Papers presented at national/international conferences
1.Usha T, Afsan I. Mab, Middha SK, “Anxiolytic effect of Centella asiatica in chronically immobilised wistar rats” Presented in BangaloreTechSubmit2017, Bangalore, India held on 18th -20th Nov, 2017. (Awarded IInd best poster award)
2.Panda P, Shenoy S, Usha T, Middha SK. “In Silico Docking to elucidate Interface the effect of Plant-Originated Inhibitors and L1 capsid Protein of Highly Threatening Human Papillomavirus” will be Presented on 24th ISCB2018, Jaipur, India held on 11th -13th Jan, 2018.
15. Software developed: NA
16. Database developed
|
Name |
Website address
|
Collaborator |
|
Phytomellitus database |
|
|
|
Bamboo database |
NBU, Siliguri |
|
|
Ectomycorrhizal Database |
KU, Nanital |
17. Training Organized
·3 days hands-on workshop on “NGS data analysis” will be held from March 1st to 3rd 2018
·Faculty development workshop on Analytics with R in collaboration with Predictive Analytics, Bangalore at BIF facility, mLAC on 20th March 2017 followed by online training for 3 months.
·1 day training on Oxford nanopore sequencing for faculty of biotechnology department MLACW was held on 26th June 2017.
·Hands on workshop for BSc (Diploma in Bioinformatics) students on discovery studio 3.5 by Ms.Divya, Apsara Innovation on 2nd August 2017
18. Bioinformatics Infrastructure available at the Centre
|
Hardware |
Software |
|
25 computers(8/16Gb RAM, 250 GB hard disk) |
Commercial packages for Drug discovery Discovery studio 3.5 Suite Accelrys GCG package Quantum Commercial packages for NGS analysis CLC BIO |
|
A dedicated BSNL line |
|
|
High end Xeon Server |
|
|
High end workstation (32GB RAM, 500GB Hard Disk, Xeon Server) |
|
|
|
|
|
|
|
|
|
Free wares for Drug discovery: Hex, RasMol, Qmol, Autodock, iGem dock
Free wares for for NGS analysis: FastQC, SPAdes genome assembler, SSPACE, MaSuRCA, Unipro UGENE.
|
19. List of the servers and tools developed by the Centre and used internationally: NA
20. Conferences Organized (National/International):
1.Training workshop with Apasara Innovation regarding commercial package for drug discovery (August 2017)
2.“Mentoring the mentors” - Session – I by Dr.Ravikumar CEO, Xcyton Diagnostics, Bangalore on 4th Jan, 2017.Faculty development program
3.Open science day for PUC students of Colleges with in Bangalore, Exposure to students about various Bioinformatics tools for better understanding of Biology was held on 13th January 2018.
21. List of latest technologies used in the centers like NGS, Bigdata, Microarray data analysis:
CLC Bio FastQC, SPAdes genome assembler, SSPACE, MaSuRCA, Unipro UGENE.software for NGS
22. Future activities proposed
·Transcriptome anlaysis of Centella asiatica to understand the anxiolytic effect
·3D QSAR pharmacophore mapping of natural compounds for cervical cancer
·Training program on commercial software packages (Accelrys Software-Discovery studio software) and R programming.
·Training program on NGS and data analysis.
·Conducting national level conference and workshop drug Discovery and NGS.
·Free training to Pre-university students to create interest towards life sciences
·Conducting Diploma and Certificate courses in Bioinformatics for students comprising both UG and PG courses.
·Creating human resource in basics of bioinformatics, microarray and NGS data analysis catering to the industrial needs through conducting workshops and industry internship programs.