Abstract: De novo genome assembly is always fragmented. Assembly fragmentation is more serious using the popular next generation sequencing (NGS) data because NGS sequences are shorter than the traditional Sanger sequences. As the data throughput of NGS is high, the fragmentations in assemblies are usually not the result of missing data. On the contrary, the assembled sequences, called contigs, are often connected to more than one other contigs in a complicated manner, leading to the fragmentations. False connections in such complicated connections between contigs, named a contig graph, are inevitable because of repeats and sequencing/assembly errors. Simplifying a contig graph by removing false connections directly improves genome assembly. In this work, we have developed a tool, SIMGraph, to resolve ambiguous connections between contigs using NGS data. Applying SIMGraph to the assembly of a fungus and a fish genome, we resolved 27.6% and 60.3% ambiguous contig connections, respectively. These results can reduce the experimental efforts in resolving contig connections.
Abstract: Animation is simply defined as the sequencing of a
series of static images to generate the illusion of movement. Most
people believe that actual drawings or creation of the individual
images is the animation, when in actuality it is the arrangement of
those static images that conveys the motion. To become an animator,
it is often assumed that needed the ability to quickly design
masterpiece after masterpiece. Although some semblance of artistic
skill is a necessity for the job, the real key to becoming a great
animator is in the comprehension of timing. This paper will use a
combination of sprite animation, frame animation, and some other
techniques to cause a group of multi-colored static images to slither
around in the bounded area. In addition to slithering, the images
will also change the color of different parts of their body, much like
the real world creatures that have this amazing ability to change the
colors on their bodies do. This paper was implemented by using
Java 2 Standard Edition (J2SE).
It is both time-consuming and expensive to create animations,
regardless if they are created by hand or by using motion-capture
equipment. If the animators could reuse old animations and even
blend different animations together, a lot of work would be saved in
the process. The main objective of this paper is to examine a method
for blending several animations together in real time. This paper
presents and analyses a solution using Weighted Skeleton
Animation (WSA) resulting in limited CPU time and memory waste
as well as saving time for the animators. The idea presented is
described in detail and implemented. In this paper, text animation,
vertex animation, sprite part animation and whole sprite animation
were tested.
In this research paper, the resolution, smoothness and movement
of animated images will be carried out from the parameters, which
will be obtained from the experimental research of implementing
this paper.
Abstract: Removal of PCP by a system combining
biodegradation by biofilm and adsorption was investigated here.
Three studies were conducted employing batch tests, sequencing
batch reactor (SBR) and continuous biofilm activated carbon
column reactor (BACCOR). The combination of biofilm-GAC
batch process removed about 30% more PCP than GAC adsorption
alone. For the SBR processes, both the suspended and attached
biomass could remove more than 90% of the PCP after
acclimatisation. BACCOR was able to remove more than 98% of
PCP-Na at concentrations ranging from 10 to 100 mg/L, at empty
bed contact time (EBCT) ranging from 0.75 to 4 hours. Pure and
mixed cultures from BACCOR were tested for use of PCP as sole
carbon and energy source under aerobic conditions. The isolates
were able to degrade up to 42% of PCP under aerobic conditions in
pure cultures. However, mixed cultures were found able to degrade
more than 99% PCP indicating interdependence of species.
Abstract: Mixed Model Production is the practice of assembling
several distinct and different models of a product on the same
assembly line without changeovers and then sequencing those models
in a way that smoothes the demand for upstream components. In this
paper, we consider an objective function which minimizes total
stoppage time and total idle time and it is presented sequence
dependent set up time. Many studies have been done on the mixed
model assembly lines. But in this paper we specifically focused on
reducing the idle times. This is possible through various help policies.
For improving the solutions, some cases developed and about 40 tests
problem was considered. We use scatter search for optimization and
for showing the efficiency of our algorithm, experimental results
shows behavior of method. Scatter search and help policies can
produce high quality answers, so it has been used in this paper.
Abstract: MMR vaccine failure had been reported globally and
here we report that it occurs now in India. Samples were collected from clinically suspected mumps cases were subjected for anti
mumps antibodies, virus isolation, RT-PCR, sequencing and
phylogenetic tree analysis. 56 samples collected from men and women belonging to various age groups. 30 had been vaccinated and
the status of 26 patients was unknown. 28 out of 30 samples were
found to be symptomatic and positive for Mumps IgM, indicating
active mumps infection in 93.4% of the vaccinated population. A
phylogenetic tree comparison of the clinical isolate is shown to be genotype C which is distinct from vaccine strain. Our study clearly sending warning signs that MMR vaccine is a failure and it needs to be revamped for the human use by increasing its efficacy and efficiency.
Abstract: Foodborne Salmonella infections have become a
major problem world wide. Salmonellosis transmitted from fish are
quite common. Established quality control measures exist for export
oriented fish, none exists for fish consumed locally. This study aimed
at characterization of Salmonella isolated from Nile tilapia . The
study was carried out in selected beaches along L. Victoria in
Western Kenya between March and June 2007. One hundred and
twenty fish specimens were collected. Salmonella isolates were
confirmed using serotyping, biochemical testing in addition to malic
acid dehydrogenase (mdh) and fliC gene sequencing. Twenty
Salmonella isolates were confirmed by mdh gene sequencing. Nine
(9) were S. enterica serotype typhimurium, four (4) were S. enterica
Serotype, enteritidis and seven (7) were S. enterica serotype typhi.
Nile tilapia have a role in transmission of Salmonellosis in the study
area, poor sanitation was a major cause of pollution at the beach
inshore waters.
Abstract: In this work, the surgical theater of a local hospital in
KSA was analyzed using simulation. The focus was on attempting to
answer questions related to how many Operating Rooms (ORs) to
open and to analyze the performance of the surgical theater in
general and mainly the Post Anesthesia Care Unit (PACU) to assist
making decisions regarding PACU staffing. The surgical theater
consists of ten operating rooms and the PACU unit which has a
maximum capacity of fifteen beds. Different sequencing rules to
sequence the surgical cases were tested and the Longest Case First
(LCF) were superior to others. The results of the different
alternatives developed and tested can be used by the manager as a
tool to plan and manage the OR and PACU
Abstract: Fourty one strains of ESBL producing P.aeruginosa
which were previously isolated from burn patients in Kerman
University general hospital, Iran were subjected to PCR, RFLP and
sequencing in order to determine the type of extended spectrum β-
lactamases (ESBL), the restriction digestion pattern and possibility of
mutation among detected genes. DNA extraction was carried out by
phenol chloroform method. PCR for detection of bla genes was
performed using specific primer for each gene. Restriction Fragment
Length Polymorphism (RFLP) for ESBL genes was carried out using
EcoRI, NheI, PVUII, EcoRV, DdeI, and PstI restriction enzymes. The
PCR products were subjected to direct sequencing of both the strands
for identification of the ESBL genes.The blaCTX-M, blaVEB-1, blaPER-1,
blaGES-1, blaOXA-1, blaOXA-4 and blaOXA-10 genes were detected in the
(n=1) 2.43%, (n=41)100%, (n=28) 68.3%, (n=10) 24.4%, (n=29)
70.7%, (n=7)17.1% and (n=38) 92.7% of the ESBL producing isolates
respectively. The RFLP analysis showed that each ESBL gene has
identical pattern of digestion among the isolated strains. Sequencing
of the ESBL genes confirmed the genuinety of PCR products and
revealed no mutation in the restriction sites of the above genes. From
results of the present investigation it can be concluded that blaVEB-1
and blaCTX-M were the most and the least frequently isolated ESBL
genes among the P.aeruginosa strains isolated from burn patients. The
RFLP and sequencing analysis revealed that same clone of the bla
genes were indeed existed among the antibiotic resistant strains.