The Department's of Biochemistry and Biotechnology of St. Joseph's College for Women, Visakhapatnam, in collaboration with TCABS-E are organizing a 2 day virtual National workshop on " Insights into Bioinformatics Tools and Databases to Analyze Biological Data" during the date - 20th and 21st November, 2021.
ABOUT THE COLLEGE
St. joseph’s college for women was Started by
Sisters of St. Joseph of Annecy in India,
is the year 1958, exclusively for
women, the first of its kind in Visakhapatnam.
In the 50s, Visakhapatnam did not have any facility for higher
education of young women. So impressed were the public of Visakhapatnam with
the service rendered by the Sisters that, in 1957, a group of prominent
citizens requested the Sisters of St. Joseph to undertake the task of setting
up an institution of higher learning for the young women of the city.
The college, affiliated to Andhra University, was founded on 2nd
July 1958.
The college is now a grant-in-aid institution, with a campus
area of 7.5 acres and student strength of 2500, offering Three Intermediate
courses, 12 Undergraduate courses in BA, B.Com, B.B.A and B.Sc and Six
Postgraduate courses. The UGC, recognising the outstanding quality of
education and excellent academic record, conferred Autonomy on the
College in 1987.
The college is a member of the All India Association of
Christian Higher Education as also the Xavier Board and utilizes the facilities
of these agencies for training the faculty. The Department of French has
linkages with the educational wing of the French Embassy, New Delhi and
Alliance Francaise, Hyderabad. The Department of Home Science has a Memorandum
of Understanding with the Community Foods and Nutrition Unit, Ministry of Human
Resource Development, for training the Home Science students in the techniques
of Fruit and Vegetable Preservation.
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The DEPARTMENTS OF BIOCHEMISTRY AND
BIOTECHNOLOGY Established in 2008, the Departments
of Biochemistry and biotechnology offers B.Sc (BBC) program combination with
Biochemistry, Biotechnology and chemistry. The curriculum of B.Sc. programs
is designed covering basics to advanced aspects imparting hands on experience
in the respective fields to cater the needs of Industry and research organizations. |
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The departments have excellent
Infrastructure facilities like well equipped spacious laboratories with state
of the art equipment for an effective teaching learning process and research.
The teaching-learning process is
woven around project works, seminars, field work and Industrial visits apart
from generic theoretical issues. The placement record has been Impressive
with students joining reputed Pharma Industries, Diagnostic Laboratories and
Institute of Life Sciences. A significant number of students are
pursuing higher studies in advanced research Institutions in India. |
Program sheet for 20-11-2021
6.0 pm – Invitation to the program by Dr P. Mary
Anupama
6.02pm – Prayer song by Ms Bhoomija
6.04pm – Introduction to college and departments by Dr
Anupama
6.08 pm- Introduction to workshop by Dr T. Verabrahmam
, In charge head of Biotechnology
6.10 pm by the Founder of TCABS-E- Dr Ravi Kiran
Yedidi
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20th Nov, 2021, 6:00 pm to 6:30 pm |
Inauguration of Workshop |
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20th Nov, 2021 6:30 pm to 7:00 pm |
Ms Madhumita Aggunna, Hod of Mutiomics-Oncology & Immunotherapy Topic- Introduction to Bioinformatics NCBI Navigation & Databases |
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20th Nov, 2021 7:00 pm to 7:30 pm |
Ms Niharikha Mukala, HoD of Multiomics- Infectious Disease Topic- Data Analysis |
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21st Nov, 2021 6:00pm to 6:30 pm |
Ms Madhuri Vissapragada, HoD of Synthetic Biology Topic- BLAST |
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21st
Nov, 2021 6:30 pm to 7:00 pm |
Ms.
Santhi Nissi Addala, HoD Stem Cell Biology Topic- Global Align & Clustal Omega |
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21st Nov, 2021 7:00 pm to 7:30 pm |
Valedictory program |
REPORT
20th November, 2021. Time – 6 to 7.30
Ms Madhumita Aggunna, Hod of Mutiomics-Oncology & Immunotherapy
Topic-
Introduction to Bioinformatics NCBI Navigation & Databases
The talk started with introduction to The National Center for
Biotechnology Information advances science and health that provides access to
biomedical and genomic information.
https://www.ncbi.nlm.nih.gov/.
It
has primary and secondary data bases and scientists dump first in primary
database and secondary- data which is analyzed after deposition
We
can select the sublinks for DNA or protein sources while many toher formats
also exist. Next is PUBMED- easy to find recent research using filters. Filter
help us to sort out and make search easy while PUBMED central gives free
articles.
Ms Niharikha Mukala, HoD of Multiomics- Infectious Disease
Topic-
Data Analysis
In search type the gene, It displays gene id,
description, location, locus tag
Annoted genes are coded genes and Ref sequence-
annoted and accessible genes
XC/XR/XP are synthetic genes.
Upon retrieval the following are seen-
Green bar- complete gene sequence
Red bar- protein binding site
Golden brown- recombinant site-
Black- annoted protein
She talked about Gen bank and how to retrive and
track the latest publication too.
The difference between pub med and pubmed central
was explained
Changing BLAST sequence and all the related aspects
were very well narrated
Day 21-11-2021
Ms Madhuri Vissapragada, HoD of Synthetic Biology
Topic-
BLAST
Blast- Basic local alignment tool. It is used to
find regions of local similarity
Sequences of nucleotides and proteins are available.
Give- query which is compared to set of sequences in databases- it gives
statistical details of comparison
Features of blast were dealt- Different kinds of
blast features are there- Ig BLAST is latest. Nucleotide and protein blast are frequently
used
Nucleotide blast- - give n. Nucleotide sequence has
6 open reading frames- Blast X takes all the six possible frames and compares
with proteins
tBlastn- all possible reading frames are compared to
all available nucleotide sequences.
There are specialized search features in BLAST
Run blast by giving entire sequence- choose option,
give job title and run blast.
E value= M x n x 2power bit score
E value less than 1 is good hit
% similarity - % identity
Download description table so that all description
of all will be displayed with hyper links
Graphic summary- Alignments helps us to understand
similarity and also evolution relation
100% alignment- red bar
Less alignments changes color of bar
Alignments- give sequences with nucleotide to
nucleotide alignment
Ms. Santhi Nissi Addala, HoD Stem Cell Biology
Topic-
Global Align & Clustal Omega
Sequence
alignment- it is used to identify sequence similarity, evolution relationships
etc
2
types- pair wise and multiple sequence alignment
Pair
wise- one pair at a time- 2 type- global and local alignment
Multiple
allows multiple sequence at single stretch
Global
alignment- was displayed and narrated with
all results and options
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