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Home > Computational Analysis of Hepatitis B Virus Genotype D Sub Genotype D1 Circulating in Pakistan, China and India

Computational Analysis of Hepatitis B Virus Genotype D Sub Genotype D1 Circulating in Pakistan, China and India

Thesis Info

Access Option

External Link

Author

Muneeb Bahar

Institute

Virtual University of Pakistan

Institute Type

Public

City

Lahore

Province

Punjab

Country

Pakistan

Thesis Completing Year

2017

Thesis Completion Status

Completed

Subject

Software Engineering

Language

English

Link

http://vspace.vu.edu.pk/detail.aspx?id=180

Added

2021-02-17 19:49:13

Modified

2024-03-24 20:25:49

ARI ID

1676720986629

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Complete genome of HBV is almost 3200 base pair long having semicircular shaped double stranded DNA, so far classified into ten genotypes labeled A to J, about 40 sub genotypes and 4 serotypes adr, adw, ayr, ayw. Distribution of HBV genotype D and sub genotype D1 is mostly predominant in Pakistan and India about more than 80% among all genotypes of HBV. While it is less dominant in China where genotype B and C predominates. Focus of this study is the computational analysis of HBV genotype D sub genotype D1 comprising Sequence analysis done using PROBCONS, Phylogenetic analysis performed by MEGA software program, Gene structure analysis using GSDS 2.0 version and Protein structure analysis using BLASTP and SWISS-MODEL.For all these analysis sample of 54 complete genome sequences of HBV genotype D sub genotype D1 were used. Representation of 3 selected countries was subject to the availability of data at Genbank. Six complete genome sequences were obtained from Pakistan 14 from China and 34 sequences were from India. Sequence alignment shows less than 4% divergence in reported sequences from Pakistan, India and China. C and X genes showed divergence of less than 3%. While comparison over the S gene showed similarity ratio of genotype D sub genotype D1 is 97?98%. Phylogenetic analysis suggested that Pakistan HBV, complete genome isolate have the closest evolutionary relationship with its neighboring countries China and India. Sub genotype D1 isolates from China (HQ833466) and Pakistan (AB583680.1) share same ancestor. Gene structure showed coding region exons of ?P? gene is largest about 75% of the gene size while gene ?S? has 2nd largest coding region. However, ?C? and ?X? genes have one smallest exon. Using BLASTP Protein structure showed that similar kind of proteins from different sequences share identical structure format. X proteins were 92% identical, both of Polymerase and Middle S proteins were 99% identical, large surface and pre-core/core proteins have 98% similar structural features relative to its own type. Results from all three X proteins homology models using SWISS MODEL revealed GMQE=0.1. Global and local quality estimate scores including Z-scores for QMEAN CBeta, All Atom, Solvation and Torsion Energy scores were similar indicating good quality, accuracy and reliability of predicted models. 3D visualization showed similar structures and Ramachandran plots showed high percentage of protein residues into favorable region for X Protein Models.
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52. At-Tur/The Mountain

52. At-Tur/The Mountain

I/We begin by the Blessed Name of Allah

The Immensely Merciful to all, The Infinitely Compassionate to everyone.

52:01
a. By the Mountain Sinai,
52:02
a. and a Scripture revealed and written,
52:03
a. on parchment unrolled,

52:04
a. and the House of worship, continuously inhabited,

52:05
a. and the roof of the sky raised so high,

52:06
a. and the sea constantly surging.

52:07
a. Surely the punishment from your Rabb - The Lord will be coming indeed– unavoidable for those who deserve it.
52:08
a. There will be no reverting or averting to it – it is bound to happen.

52:09
a. It will all happen at The Time when the celestial realm will shake in a violent shake,
52:10
a. and the mountains will move all around with an awesome movement.

52:11
a. Woe - at that Time - to those who belie and deny the coming of this Time,
52:12
a. who - in their recklessness – are playing around with speculation and conjunctures.

52:13
a. The Time when they will be shoved forcibly into the Hell,

52:14
a. and told:
b. ‘This is the Fire – the one you had been belying’ and denying.
52:15
a. ‘Is this a deception which you used to deride, or
b. do you still not see’ this as a reality?
52:16
a. ‘Enter it now!
b. It is all the same whether you endure it – the hellfire - patiently or impatiently you will have to endure it in either case -
c. for you are only being paid back...

قرآنی طرز زندگی کے مطابق قیادت و رہبریت کی شرائط

Islam teach us complete way of life. It guides human to face any circumstance from birth to death such as clothing and appearance etc, Beard on male face is one of those guidance, through which male can be differentiated from female. Quran and Sunnah, Ijma and Qiyas (four principles of sharia) has made beard a part of human and Islamic nature. Due to this beard is obligatory and not having beard on face and large mustaches on face is the appearance of non-Muslims. And we are ordered to oppose that appearance. And by leaving beard less than one hand is forbidden, and group of many sins. And Hazrath Muhammad (SAW) also hate them. And according to sharia having beard on face have a lot of benefits for health and not having beard on face is much harmful for health. And cutting beard more than one hand is allowed and as well evident that it is Sunnah and Mustahib, because it is the original quantity of beard. And also it is based on the principles of nature and common sense instead of copying.

Synthesis and Characterization of Polymeric Membranes for Dialysis Application

Membrane is a thin, delicate, flat sheet which acts as a barrier for selective transport of species under the impact of some driving force. Membrane technology has gained important place in industrial and medicinal field because of its easy utility, efficient performance and low cast. Hemodialysis is an extensively used medical therapy for renal failure and dialysis membranes are essential components of a hemodialysis. The essential properties of a dialysis membrane are high mass transfer of toxic solutes (urea and uric acid) to reduce the dialysis time, maximum protein rejection ability and moderate water flux. Protein adsorption or deposition on the surface or in its pores results in reduction in flux, change of selectivity of the membrane and the low toxin elimination. Polymeric membrane fabricated from cellulose, regenerated cellulose and synthetic polymers are well known for dialysis. Asymmetric Cellulose Acetate (CA) membranes were prepared through phase inversion method and they were modified by blending various organic and inorganic additives. The effects of these additives on membrane’s morphology were investigated using Atomic Force Microscopy, Scanning Electron Microscopy, Fourier Transform Infra-Red Spectroscopy and Contact Angle. Fabricated membrane’s performance was studied in terms of pure water flux, porosity, water uptake, BSA rejection and urea clearance tests. Biocompatibility and blood mimic tests were conducted to find the interaction of synthesized membrane towards cell culture and blood comparable fluids. In first part, CA was blended with poly-ethylene glycol (PEG). The membranes were modified by blending CA/PEG casting solution with glycol. The modified membrane showed good selectivity for urea but was not suitable for dialysis operation. Hence, the composition was reformed using Hydroxyapatite particles (inorganic additive). The results showed enhanced BSA rejection and urea clearance but the obtained percentages were low to be utilized in dialysis. The biocompatibility outcomes of CA/PEG/HA membrane make it appropriate for other biomedical applications. In the second part, CA was blended with organic additives including sericine, Poly vinylpyrolidone (PVP) and polyethylene imine (PEI) to improve BSA rejection and Urea clearance of polymeric membrane. These membranes possess moderate pure water flux and hydrophilicity. Performance evaluation investigations confirmed that all these membranes had good pure water flux and BSA rejection above 90%. Membranes fabricated using blend of CA and PEI have highest urea clearance of 67.2%. So, this membrane was selected for further adjustment. During the last part, effect of solvent on CA/PEI dialysis membrane was investigated. Various solvents including acetic acid, formic acid, N, N-Dimethylacetamide (DMAC) and 1-Methyl-2-pyrolidone (NMP) were tested. The performance efficiency of synthesized membranes verified to, when CA was blended with formic acid (F.A) have desired dialysis characteristics. It possesses moderate hydrophilicity, desired pure water flux value, optimum water uptake, above 98% BSA rejection and urea clearance percentage of 69%. The biocompatibility tests were conducted for CA/PEI/FA membrane using MTT (3-(4,5- dimethylthiazol-2-yl)-2,5-diphenyl tetrazolium bromide )assay. It was found that the materials selected for this membrane fabrication were most suitable for dialysis application. Highest cell viability and cellular attachment found in biocompatibility analysis was higher in comparison with commercial dialysis tubing and non-treated control standard. CA/PEI/F.A membrane was further inspected via blood mimic solution to find the performance of membrane commensurate with blood type feed. The up short of the present work is that CA/PEI/F.A membrane is the best possible solution for dialysis. Providing new insight in the dialysis domain; this membrane is not only cost effective but also has high BSA rejection and Urea clearance. Accordingly, biocompatibility and blood mimic results prove it to be the finest device/implant for hemodialyser unit.