DBT-Bioinformatics Facility

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:
 
Name of the Coordinator: Prof. M.B. Nagaveni
                                 Director,
                                 Maharani Lakshmi Ammanni College for Women, Autonomous (mLAC)                  
                                 18th cross, Malleswaram, Bangalore- 560 012
 

5.      Name, Designation and Address of the Co-Coordinator:
Name of the Co coordinator:   Dr. Sushil Kumar Middha
                                       Asst Prof, Dept. of Biotechnology,
                                      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 receive
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

 

Prasanth Rathinam, H. S. Vijay Kumar & Pragasam Viswanathan

Biofouling Journal

(Taylor & Francis Group)

 

PMID: 28792229

 

33

8

624

639

3.08

5

A study of comparative modelling, simulation and molecular dynamics of CXCR3 receptor with lipid bilayer

 

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

www.bicmlacw.org/bt/

 

Bamboo database

http://www.bamboodb.in/

NBU, Siliguri

Ectomycorrhizal Database

www.ku.bic.in

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 2017followed 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.
 

23. Contact details
Name of the Coordinator: Prof. M.B. Nagaveni
Director, Maharani Lakshmi Ammanni College for Women,Autonomous,
Malleswaram, Bangalore- 560 012, Phone Number: 26692137,
Mobile: 9886205533/9886098267
Email: nagaveni_mb@yahoo.co.in/ drsushilmiddha@gmail.com