12 research outputs found
VACVPlaque: mobile photography of Vaccinia virus plaque assay with segmentation masks
No full textHow to Cite Us
De, T., Thangamani, S., Urbański, A., & Yakimovich, A. (2025). A digital photography dataset for Vaccinia Virus plaque quantification using Deep Learning. Scientific Data, 12(1), 719.
@article{de2025digital,
title={A digital photography dataset for Vaccinia Virus plaque quantification using Deep Learning},
author={De, Trina and Thangamani, Subasini and Urba{\'n}ski, Adrian and Yakimovich, Artur},
journal={Scientific Data},
volume={12},
number={1},
pages={719},
year={2025},
publisher={Nature Publishing Group UK London}
}
Data Description
The VACVPlaque dataset comprises spatially correlated objects, specifically virological plaques, which are circular phenotypes indicative of vaccinia virus (VACV) spread, and the wells of the assay plate. The virus plaque assay is a common method performed by infecting a monolayer of host cells (indicator cells) that are grown in the wells of assay plates or dishes. The host cells are infected with varying concentrations of a highly diluted virus inoculum. After an incubation period, typically around 48 hours, the cells are fixed with formaldehyde and stained with a dye to reveal the plaques or areas of cell death. By counting these plaques, researchers can calculate the number of infectious particles present in the original inoculum as described in [1].
This dataset consists of mobile photographs of 6-well tissue culture plates where the VACV plaque assay was conducted. The photographs were taken using two different mobile phones, resulting in 211, 8-bit RGB images with a resolution of 2448 x 3264 pixels. Each plate was photographed from two different perspectives using two different devices, meaning there are two images of the same plate but from different angles and devices.
To aid in the training of machine learning models, the dataset is divided into training, validation, and test subsets in a 70:20:10 ratio. To prevent data leaks, only one perspective of each image is included in the validation and test subsets. The training subset, which includes images from both perspectives, consists of 148 images.
File Description:
VACVPlaque_train.zip -> train holdout
VACVPlaque_validation.zip -> validation holdout
VACVPlaque_test.zip -> test holdout
Each zip file contains:
images -> {filename}.tif
plaque_masks -> {filename}.tif
well_masks -> {filename}.tif
References:
1. Dulbecco, Renato. "Production of plaques in monolayer tissue cultures by single particles of an animal virus." Proceedings of the National Academy of Sciences 38, no. 8 (1952): 747-752
PHYTOCHEMICAL ANALYSIS OF DIFFERENT FRACTIONS OF TERMINALIA ARJUNA BARK BY GC-MS
No full textTraditionally Terminalia arjuna Roxb. (T. arjuna) is being used widely to cure various diseases like cardiovascular diseases, liver diseases, and
cancer etc. The aim of the present study is to phytochemical analysis of petroleum ether, ethyl acetate and methanolic fractions of T. arjuna bark by
GC-MS analysis. The present investigation was carried out to determine the possible bioactive components of T. arjuna bark using GC-MS analysis.
The GC-MS analysis of petroleum ether, ethyl acetate and methanolic fractions of bark of T. arjuna leads identified of 10, 12 and 16 compounds,
respectively. The main identified compounds are 9-Octadecenoic acid (Z)-methyl ester (35.38 %), Hexadeca-2,6,10,14-tetraen-1-ol (34.94 %) and
Furancarboxaldehyde, 5-(hydroxymethyl) (19.31 %) from petroleum ether, ethyl acetate and methanolic fractions of bark of T. arjuna, respectively.
The present study is therefore an effort to give detailed information on phytochemical profile of T. arjuna bark by GC-MS method
Markov Chain Model and its Application Yearly Rainfall Data in Nagapattinam District
No full textA stochastic model expresses a sequence of possible events in which the possible event of each event depends on the previous event and is called a Markov chain. This paper has analyzed yearly rainfall in the Nagapattinam district and formulated three-state models. The first-order Markov chain to determine the long-term probability of rainfall in the following years and the steady-state. It can be used to make a forecast of the annual rainfall pattern. This model can give some information about rainfall to farmers and the government to plan strategies for high crop production in the Nagapattinam distric
MONITORING OF HYDROCHEMICAL PROFILE OF LOWER STRETCHES OF RIVER DAMODAR, INDIA
No full textRiver Damodar is an important tributary of the Ganges. The key objectives of the present study were to determine the seasonal variations in the physicochemical characteristics of the riverine water at pre-designated stations and to evaluate the impact of pollution load on spatial and seasonal differences. Monthly investigation was carried out from March, 2017- February, 2018 to assess the water quality of the lower stretches of River Damodar. Ten Physicochemical parameters such as water temperature (T), pH, Electrical conductivity (EC), dissolved oxygen (DO), biochemical oxygen demand (BOD), total Dissolved solids (TDS),Nitrate, Phosphate etc. were monitored in four sampling stations of diverse eco-hydrological characteristics. The obtained dataset were treated using ANOVA and multivariate statistical techniques such as correlation matrix, Principal Component Analysis to assess the spatiotemporal variation and to identify most important factors governing the water quality of the river. The pH was found neutral to mildly alkaline (6.97-8.3) throughout the study period, while conductance was obtained in the range of 228.65 - 692.33μS/cm. The results of different parameters of Damodar river water are varied and Temperature (F=89.79, P<0.05) and nitrate level (F=10.87, P<0.05) displayed significant seasonal variation.DO (F=5.46, P<0.05), BOD (F=5.98, P<0.05) and TDS (F=6.67, P<0.05) significantly differed among sampling stations. The mean concentration of different water quality variables ranged as, DO- 4.76 to 7.53 mgLˉ1,TDS-86.0 to 648 mgLˉ1, PO43- 0.28to 1.17 mgLˉ1 , NO3–-0.43 to 3.21 mgLˉ1, SO42--10 to 57.19 mgLˉ1and BOD-0.96 to 5.57 mgLˉ1 respectively. Impact of the southwest monsoon and spatial heterogeneity were pronounced in the distribution of the TDS and inorganic nutrients. Results of Principal Component Analysis show that 4 varifactors/ PCs are accountable for 81.8% variation. This study would be helpful in formulating control strategy in near future
Anti-hyperlipidemic and antioxidant potential of different fractions of <i style="">Terminalia arjuna</i> Roxb. bark against PX- 407 induced hyperlipidemia
No full text282-288The three fractions diethyl ether, ethyl acetate and
ethanol. of T. arjuna exerted
hypolipidemic and antioxidative effects at two different doses levels of 175
and 350 mg/kg body weight in Poloxamer (PX)-407 induced hyperlipidemic albino
Wistar rats. The hypolipidemic and antioxidant effects of T. arjuna fractions
were noticed as EtOH>diethyl ether>ethyl acetate. The results suggest
that ethanolic fraction of T. arjuna
possesses the potent properties of being antioxidant and hypolipidemic than
other fractions. In turn, it has therapeutic potential for the prevention of coronary
arterial disease
Characterization of Chemical Compounds in Volatile Oil and Ethyl Acetate Extract of Lavandula angustifolia by GC-MS
No full textLavandula angustifolia is an important aromatic plant and rich source of linalool. L. angustifolia
and its bioactive compounds have been reported to possess several bioactivities such as antioxidant,
antifungal, antibacterial and antidiabetic etc. The aim of the present study is to characterize chemical
compounds present in volatile oil and ethyl acetate extract of L. angustifolia aerial parts by gas
chromatography mass spectroscopy (GC-MS). The hydrodistillation of aerial parts of L. angustifolia
yielded 1.56±0.27% v/w volatile oil. The GC-MS analysis of volatile oil of L. angustifolia yielded 74
chemical compounds, and lavandulyl isobutyrate (52.61%), and linalool (5.41%) were identified as major
compounds. Ultrasonication was utilized for extraction of L. angustifolia using ethyl acetate as solvent and
extraction yield was found to be 3.59±0.73% w/w. The GC-MS analysis of ethyl acetate extract of L.
angustifolia yielded 40 chemical compounds and the major compounds were dotriacontane (8.33%),
linalool (7.09%), eucalyptol (6.42%), linalyl acetate (4.69%), 1,4-cineole (4.62%), and trans-linalool oxide
(4.51%). The present study explores the chemical composition of volatile oil and ethyl acetate extract of
L. angustifolia
A Critical Review on Potential Pharmacological Activity and Pharmacokinetic Perspective of Swertiamarin
No full textSwertiamarin is a secoiridoid glycoside found extensively in Enicostemma littorale and Swertia chirata belonging to the family of Gentianaceae, which has been reported to cure many diseases including diabetes, hypertension, atherosclerosis, arthritis, malaria and abdominal ulcers. The present review aimed to compile up-to-date information on the progress made in the protective role of swertiamarin and its metabolites such as gentianine and erythrocentaurin in diabetes mellitus and related complications to provide a guide for future research on this bioactive molecule. Information on the swertiamarin was collected from major scientific databases (Pubmed, Springer, Google Scholar and Web of Science) for publication in1974-2020. In this review, the role of swertiamarin and its metabolites in the management of diabetes mellitus and related complications was discussed. Swertiamarin and its metabolites reported exhibiting a wide range of biological activities such as antidiabetic, anti-atherosclerotic, anti-inflammatory and antioxidant effects. These activities were mainly due to their effect on various signalling pathways associated with swertiamarin such as PPAR-gene upregulation, P-407-induction, inhibition of HMG-Co A reductase, LDL oxidation, lipid peroxidation markers and stimulation of antioxidant enzymes. Swertiamarin and its metabolites exhibit a wide range of biological activities. This review presents evidence supporting the point of view that swertiamarin should be considered a potential therapeutic agent for the management of diabetes mellitus and related complications, giving rise to novel applications in their prevention and treatment
Silybum marianum (Milk Thistle): Review on Its chemistry, morphology, ethno medical uses, phytochemistry and pharmacological activities
No full textThe oldest remedies identified to mankind are herbal medicines. India is recognized worldwide for its Ayurvedic treatment. India has rich history of using many plants for medicinal purposes. Remedial plants are cooperating extremely dynamic position in customary drugs for the action of a variety of illness. However a key obstacle, which has hindered the promotion in use of alternative medicines in the developed countries, is no evidence of documentation and absence of stringent quality control measures. There is a demand for the evidence of every investigate effort execute on conventional remedies in the appearance of certification. The purpose of current review is to make accessible up-to-date information on, botany, morphology, ecological biodiversity, therapeutic uses, phytochemistry and pharmacological activities on diverse parts of Silybum marianum (L.) Gaertn (S. marianum). This review was assembled using technical literature from electronic search engine such as Springer link, Bio Med Central, Pub Med, Scopus, Science Direct, Scielo, Medline and Science domain. Supplementary texts were obtained from books, book chapters, dissertations, websites and other scientific publications. S. marianum a member of the Asteraceae family, is a tall herb with large prickly white veined green leaves and a reddish-purple flower that ends in sharp spines. It is native of the Mediterranean region and which has also spread in East Asia, Europe, Australia and America. Confident chemical constituents were exposed cognate as silybin A, silybin B, isosilybin A, isosilybin B, silychristin, silydianin, apigenin 7-O-β-(2″- O-α-rhamnosyl)galacturonide, kaempferol 3-O-α-rhamnoside-7-O-β-galacturonide, apigenin 7-O-β-glucuronide, apigenin 7-O-β-glucoside, apigenin 7-O-β-galactoside, kaempferol-3-O-α-rhamnoside, kaempferol, taxifolin and quercetin. The plant is exclusively used as anti-diabetic, hepatoprotective, hypocholesterolaemic, anti-hypertensive, anti-inflammatory, anti-cancer, and as an anti-oxidant. Seeds of the plant are also used as an anti-spasmodic, neuroprotective, anti-viral, immunomodulant, cardioprotective, demulcent and anti-haemorrhagic. The plant is also serves as a galactagogue, agent that induces milk secretion and used in the treatment of uterine disorders. The plant is employed in dissimilar conventional schemes of remedy in the cure of different illness
Efficiency Enhancement of Photovoltaic Cell
No full textABSTRACT: The solar PV is an exciting technology but suffers from low efficiency. A study on low efficiency in multi MW solar power plants reveals that the electric yield of the PV modules is reduced due to reflection from the sun and when a module temperature is elevated, there is decrease in the voltage and efficiency. This paper is an effort to improve the efficiency of the solar photovoltaic panels by active cooling to reduce the temperature losses and by using optical filter to reduce reflection losses considerably to some extent. The hardware implements a cooling technology which incorporates water as a coolant so that the temperature losses are reduced and the efficiency is enhanced, also it has a solar tracker with LDR circuit and DC motor for moving the solar panel to achieve better insolation. The effects of frequency of solar radiation (electro-magnetic radiation) on solar insolation and efficiency using optical filters have been studied
GCMS Analysis and Hypolipidemic Activity of Dioscorea bulbifera (L) in High Fat Diet Induced Hypercholesterolemic Rats
No full textBackground and Objective: Hypercholesterolemia is the leading cause of the development of various diseases that made pharmaceutical companies turn towards herbal products with fewer side effects. Hyperlipidemic and reactive oxygen species in the body are important factors for the development of cardiovascular disease such as hypercholesterolemia. The present study investigated the phytochemical analysis using GCMS and hypolipidemic activity of ethanolic extract of D. bulbifera tubers. Materials and Methods: In the present study, the 70% ethanolic extract of D. bulbifera tubes are attempted to evaluate for the cardio-protective activity and hypolipidemic activity in High fat diet-induced hyperlipidaemia along with the phytochemical evaluation of the same extract by the GC-MS analysis. Results: The results showed that 50 mg kg–1 b.wt., ofD. bulbiferaextract treatment for seven days decreases the level of cholesterol and LDL significantly (p<0.05). Likewise, 30 days of treatment with 50 mg kg–1 b.wt., of D. bulbifera extract exhibits cardioprotective activity in high-fat diet-induced hyperlipidemic rats by increasing HDL cholesterol (p<0.05) and decreasing the total cholesterol, LDL and triglycerides (p<0.05). GC-MS analysis of methanolic fraction from 70% ethanolic extract ofD. bulbifera showed the presence of fatty acids in higher concentrations. Conclusion: The D. bulbifera exhibits hypolipidemic and cardio-protective activity in high-fat diet-induced diseased animals
