syedzayyan/paper_mill_benchmark huggingface dataset:
Deep Learning-Based Real-Time Discriminate Correlation Analysis for Breast Cancer Detection

Breast cancer is the most common cancer in women, and the breast mass recognition model can effectively assist doctors in clinical diagnosis.However, the scarcity of medical image samples makes the recognition model prone to overfitting.A breast mass recognition model integrated with deep pathological information mining is proposed: constructing a sample selection strategy, screening high‐quality samples across different mammography image datasets, and dealing with the scarcity of medical image samples from the perspective of data enhancement; mining the pathology contained in limited labeled models from shallow to deep information; and dealing with the shortage of medical image samples from the perspective of feature optimization.The multiview effective region gene optimization (mv ergs) algorithm is designed to refine the original image features, improve the feature discriminate and compress the feature dimension, better match the number of samples, and perform discriminate correlation analysis (dca) on the advanced new features; in‐depth cross‐modal correlation between heterogeneous elements, that is, the deep pathological information, can be mined to describe the breast mass lesion area accurately.Based on deep pathological information and traditional classifiers, an efficient breast mass recognition model is trained to complete the classification of mammography images.Experiments show that the key technical indicators of the recognition model, including accuracy and auc, are better than the mainstream baselines, and the overfitting problem caused by the scarcity of samples is alleviated.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Cyclic GAN Model to Classify Breast Cancer Data for Pathological Healthcare Task

An algorithm framework based on cycle gan and an upgraded dual‐path network (dpn) is suggested to address the difficulties of uneven staining in pathological pictures and difficulty of discriminating benign from malignant cells.Cycle gan is used for color normalization in pathological pictures to tackle the problem of uneven staining.However, the resultant detection model is ineffective.By overlapping the images, the dpn uses the addition of small convolution, deconvolution, and attention mechanisms to enhance the model’s ability to classify the texture features of pathological images on the brea khis dataset.The parameters that are taken into consideration for measuring the accuracy of the proposed model are false‐positive rate, false‐negative rate, recall, precision, and f 1 score.Several experiments are carried out over the selected parameters, such as making comparisons between benign and malignant classification accuracy under different normalization methods, comparison of accuracy of image level and patient level using different cnn models, correlating the correctness of dpn68‐a network with different deep learning models and other classification algorithms at all magnifications.The results thus obtained have proved that the proposed model dpn68‐a network can effectively classify the benign and malignant breast cancer pathological images at various magnifications.The proposed model also is able to better assist the pathologists in diagnosing the patients by synthesizing the images of different magnifications in the clinical stage.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Curcumin-Chitosan Nanocomposite Formulation Containing Pongamia pinnata-Mediated Silver Nanoparticles, Wound Pathogen Control, and Anti-Inflammatory Potential

Because of its diverse range of use in several ethics of diagnosis and care of multiple diseases, nanotechnology has seen remarkable growth and has become a key component of medical sciences.In recent years, there has been rapid advancement in medicine and biomaterials.Nanomedicine aids in illness prevention, diagnosis, monitoring, and treatment.Aim .The purpose of this work is to evaluate the antibacterial, anti‐inflammatory, and cytotoxic capabilities of green produced silver nanoparticle with the addition of curcumin‐assisted chitosan nanocomposite (sccn) against wound pathogenic as reducing agents.Materials and methods .The plant extract of pongamia pinnata , silver nanoparticles, and its based curcumin nanoformulations was studied in this study utilizing uv visible spectrophotometer, selected area electron diffraction (saed), and tem.Anti‐inflammatory, antimicrobial, and cytotoxic tests were performed on silver nanoparticles with the addition of curcumin‐assisted chitosan nanocomposite (sccn).Furthermore, these produced nanocomposites were coated on clinical silk and tested for antibacterial activity.Results .The produced silver nanoparticle with the addition of curcumin‐assisted chitosan nanocomposite (sccn) has significant antibacterial activities against pseudomonas aeruginosa and staphylococcus aureus .They are as well as possess anti‐inflammatory activity and furthermore prove to be biocompatible.Conclusion .This advancement in the field of biomaterials, which means nanocomposite, not only helps to reduce the harmful effects of pathogenic organisms while representing an environmentally benign material but it also shows to be a material with zero danger to humans and the environment.

Journal: BioMed Research International (2021)
Publication types: Research Article;
Correlation-Based Mutual Information Model for Analysis of Lung Cancer CT Image

Most of the people all over the world pass away from complications related to lung cancer every single day.It is a deadly form of the disease.To improve a person’s chances of survival, an early diagnosis is a necessary prerequisite.In this regard, the existing methods of tumour detection, such as ct scans, are most commonly used to recognize infected regions.Despite this, there are certain obstacles presented by ct imaging, so this paper proposes a novel model which is a correlation‐based model designed for analysis of lung cancer.When registering pictures of thoracic and abdominal organs with slider motion, the total variation regularization term may correct the border discontinuous displacement field, but it cannot maintain the local characteristics of the image and loses the registration accuracy.The thin‐plate spline energy operator and the total variation operator are spatially weighted via the spatial position weight of the pixel points to construct an adaptive thin‐plate spline total variation regular term for lung image ct single‐mode registration and ct/pet dual‐mode registration.The regular term is then combined with the crmi similarity measure and the l‐bfgs optimization approach to create a nonrigid registration procedure.The proposed method assures the smoothness of interior of the picture while ensuring the discontinuous motion of the border and has greater registration accuracy, according to the experimental findings on the dir‐lab 4d‐ct public dataset and the ct/pet clinical dataset.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Construction and Application of MALDI-TOF Mass Spectrometry for the Detection of Haemophilus parasuis

To construct a protein fingerprint database of haemophilus parasuis ( h.Parasuis ), thus improving its clinical diagnosis efficiency.A total of 15 h.Parasuis standard strains were collected to establish a protein fingerprint database of h.Parasuis using matrix‐assisted laser desorption ionization time‐of‐flight mass spectrometry (maldi‐tof ms), and the effects of different culture media and culture time on the quality and identification results of the protein fingerprint were investigated.The results showed that tryptone soy agar (tsa) and tryptone soy broth (tsb) media and different incubation times had no significant effect on the characteristic peaks of the protein profiles.In addition, 18 clinical isolates were used to compare the identification results of the self‐built protein fingerprint database, pcr detection, and basic database.Only one strain was identified in the original vitek‐ms system database, while the self‐made protein fingerprint database of h.Parasuis was 100% accurate for the detection of 18 clinical isolate strains.The protein fingerprint database of h.Parasuis built by our laboratory is suitable for rapid clinical diagnosis of h.Parasuis , due to its high accuracy, efficiency, and strong specificity.

Journal: BioMed Research International (2021)
Publication types: Research Article;
Computational Insights into the Structural and Functional Impacts of nsSNPs of Bone Morphogenetic Proteins

Bmps (bone morphogenetic proteins) are multipurpose (transforming growth factor)tgf‐superfamily released cytokines.These glycoproteins, acting as disulfide‐linked homo‐ or heterodimers, are highly potent regulators of bone and cartilage production and repair, cell proliferation throughout embryonic development, and bone homeostasis in the adults.Due to the fact that genetic variation might influence structural functions, this study is aimed to determine the pathogenic effect of nonsynonymous single‐nucleotide polymorphisms (ns snps) in bmp genes.The implications of these variations, investigated using computational analysis and molecular models of the mature tgf‐ β domain, revealed the impact of modifications on the function of bmp protein.The three‐dimensional (3d) structure analysis was performed on the ns snp y316s, v386g, e387g, c389g, and c391g ns snp in the tgf‐ β domain of chicken bmp2 and h344p, s347p, v357a ns snp in the tgf‐ β domain of chicken bmp4 protein that was anticipated to be harmful and of high risk.The ability of the proteins to perform variety of tasks interact with other molecules depends on their tertiary structural composition.The current analysis revealed the four most damaging variants (y316s, v386g, e387g, c389g, and c391g), highly conserved and functional and are located in the tgf‐beta domain of bmp2 and bmp4.The amino acid substitutions e387g, c389g, and c391g are discovered in the binding region.It was observed that the mutations in the tgf‐beta domain caused significant changes in its structural organization including the substrate binding sites.Current findings will assist future research focused on the role of these variants in bmp function loss and their role in skeletal disorders, and this will possibly help to develop practical strategies for treating bone‐related conditions.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Compound Shuganjieyu Capsule on CYP450 Enzyme Activity

To evaluate the potential drug‐drug interactions of the shuganjieyu capsule by establishing a chronic unpredictable mild stress (cums) depression model combined with the cocktail probe substrate method.Methods .The whole study was divided into the single‐dose and multiple‐dose groups.Animals were randomly divided into further subgroups in each group.Following chronic unpredictable mild stress model development, shuganjieyu capsules were administered to the drug administration group.The single‐dose subgroup received the drug for one day, and the multiple‐dose subgroup received the drug for three months.Liver microsomes of each group were extracted, and the effects of the shuganjieyu capsule on the cyp450 enzyme were investigated by liquid chromatography‐mass spectrometry (lc‐ms) (lc‐ms) based on the cocktail probe substrate method.The immunohistochemical method and rt‐q pcr were used to detect the activity of cyp450 immunoprotein in rat liver.Results .In the single‐dose subgroup, there were no statistical differences between the administration and model groups.In the multiple‐dose subgroup, the conversion and protein expression rates of cyp1a2 and cyp2c19 were significantly increased in the model group compared with the blank group.In the administration group, the conversion and protein expression rates of cyp1a2 and cyp2c19 were inhibited.Conclusion .Long‐term administration of the shuganjieyu capsule could relieve depression‐related behaviors in cums rats and downregulate the cyp1a2 and cyp2c19 enzyme activities in cums rats by inhibiting the expression of cyp1a2 and cyp2c19 protein.Long‐term administration of the shuganjieyu capsule may affect the bioavailability of other drugs metabolized by cyp1a2 and cyp2c19 enzymes, but the clinical guidance’s specific significance needs to be clarified further.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Composite Dietary Antioxidant Index and Plasma Levels of Soluble Klotho: Insights from NHANES

S.The association between dietary antioxidants and soluble klotho (s-klotho) levels remains unknown.We investigated to explore whether the composite dietary antioxidant index (cdai) was associated with serum levels of s-klotho in the middle-aged population.Methods.Eligible participants were identified from the national health and nutrition examination surveys (nhanes) from 2007 until 2016.The cdai was calculated from the intake of six dietary antioxidants.The serum levels of s-klotho were measured via enzyme-linked immunosorbent assay (elisa).Generalized linear and nonlinear models were established to analyze the relationship between cdai and s-klotho levels.Results.Based on the s-klotho quartiles, s-klotho levels were higher in young women, blacks, higher education, never smokers, lower waistlines, no medication use, and those with higher cdai.Univariate analysis revealed that age, gender, race, smoking status, body mass index, waistline, and medication use were associated with serum levels of s-klotho.When potential confounders were controlled, cdai was significantly associated with s-klotho levels.Subgroup analysis also revealed that this association remained significant in individuals who had the highest quartiles of cdai, aged population (&gt;60 years), male, and never smoker.A nonlinear relationship was observed between the cdai and s-klotho plasma concentrations.Conclusion.Cdai was positively correlated with plasma levels of s-klotho after controlling for covariates.Further studies are needed to validate the current findings and explore the fundamental mechanisms.

Journal: Oxidative Medicine and Cellular Longevity (2023)
Publication types: Research Article;
Comparison of the Effects of Repeated Applications of Platelet-Rich Plasma versus Platelet-Poor Plasma on Fat Graft Survival in Nude Mice

Autologous fat grafting has been widely used for soft tissue filling in plastic surgery.Platelet‐rich plasma (prp) could play a wide role in health and disease because of containing a variety of growth factors and cytokines.Although previous studies have described the positive effect of autologous prp mixed with fat grafts, only minimal improvements in fat graft survival have been reported.The present study is aimed at comparing the effects of prp and platelet‐poor plasma (ppp) on the survival and quality of fat grafting.We built a 180‐day nude mouse model implanted with a fat graft supplemented with prp, ppp, or saline, respectively.The above reagents (prp, ppp, or saline) were injected two additional times after the initial engraftment.The survival ratio of the fat grafts and the capillary density in the prp group were significantly higher than those in the ppp group and the saline group (control group) at 15, 30, 90, and 180 days posttransplantation ( p &lt; 0.05).The survival ratio of the ppp group was higher than that of the saline group ( p &lt; 0.05), but the capillary density in the ppp group was not significantly different from that in the saline group at any time point ( p &gt; 0.05).We hence conclude that the repeated application of prp or ppp three times can enhance the survival of fat grafts within 180 days.Moreover, the effect of prp is superior to that of ppp.

Journal: BioMed Research International (2021)
Publication types: Research Article;
Comparative Genomic Characterization of Insulin-Like Growth Factor Binding Proteins in Cattle and Buffalo

The somatotropic axis consists of genes associated with economic traits like muscle growth and carcass traits in livestock.Insulin‐like growth factor binding proteins ( igfbps ) are the major proteins that play a vital role in the somatotropic axis.The present study performed a genome‐wide characterization of igfbp genes in cattle.Genomic sequences of the igfbp gene family for different mammals (cattle, buffalo, goat, and sheep) were recovered from the ncbi database.Sequence analyses were performed to investigate cattle’s genomic variations in the igfbp gene family.Phylogenetic analysis, gene structure, motif patterns, and conserved domain analysis (cda) of the igfbp family revealed the evolutionarily conserved nature of the igfbp genes in cattle and other studied species.Physicochemical properties of igfbp proteins in cattle revealed that most of these proteins are unstable, hydrophilic, thermostable, and acidic.Comparative amino acid analysis revealed variations in all protein sequences with single indels in igfbp3 and igfbp6.Mutation analysis revealed only one nonsynonymous mutation d212 &gt; e in the igfbp6 protein of cattle.A total of 245 nuclear hormone receptor (nhrs) sites were detected, including 139 direct repeats (dr), 65 everted repeats (er), and 41 inverted repeats (ir).Out of 133 transcription factors (tfs), 10 tfs ( ahr , ahrarnt , ap4 , cmyb , e47 , egr2 , gata , sp1 , and srf ) had differential distribution ( p value &lt; 0.05) of putative transcriptional binding sites (tfbs) in cattle compared to buffalo.Synteny analysis revealed the conserved nature of genes between cattle and buffalo.Two gene pairs (igfbp1/igfbp3 and igfbp2/igfbp5) showed tandem duplication events in cattle and buffalo.This study highlights the functional importance of genomic variation in igfbp genes and necessitates further investigations better to understand the role and mechanisms of igfbp s in bovines.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Comparative Analysis of Antioxidants Activity of Indigenously Produced Moringa Oleifera Seeds Extracts

Medicinal plants are used to control and remediate oxidative stress related diseases caused by free radicals.Thus, these plants find their use as remedy.Moringa oleifera is an extremely valued plant for its medicinal properties.Herein, two indigenously produced accessions of moringa oleifera seeds [originated from multan (m‐mln) and india (pkm1)] were investigated for their antioxidant properties by 2.2‐diphenyl‐1picrylhydrazyl (dpph) assay, total phenolics content and total flavonoids content.The presence of various phenolics as well as flavonoids was further confirmed by high performance liquid chromatography.Moreover, fourier transform infrared spectroscopy detected the presence of various functional groups.In conclusion, these findings revealed that the methanol extract of m‐mln variety seeds showed high antioxidant potential, having ic50 value of 84 μ g/ml.While, hexane extract of pkm1 showed least activity.The methanol extract of m‐mln was found to show highest total phenolics content as 33.83 ± 1.19 mg gae/g.The methanol extract of m‐mln was found to show highest total flavonoids content as 76.07 ± 1.10 mg cae/g.The hexane extract of pkm1 was found to show least total flavonoids content as 22.47 ± 1.70 mg cae/g.The detection of phenolics (ferulic acid, caffeic acid, chlorogenic acid, coumaric acid, and gallic acid) as well as flavonoids (catechin and quercetin) revealed the potential of methanol extracts of both varieties as a good source of antioxidants.The results indicated the importance of seed extracts in the treatment of oxidative stress related diseases.In future, the use of natural antioxidants will prevent the progression of diseases.

Journal: BioMed Research International (2022)
Publication types: Research Article;
Combined Association of Low-Density Lipoprotein Cholesterol Levels and Systolic Blood Pressure to the Outcome of Intracerebral Hemorrhage: Data from the China Stroke Center Alliance

Limited data were available about the combined impact of systolic blood pressure (sbp) and low-density lipoprotein cholesterol (ldl-c) levels on intracerebral hemorrhage (ich) prognosis.The objective of this study is to explore whether the relationship between ldl-c and ich outcomes was modified by sbp levels in a chinese population.From august 1, 2015, to july 31, 2019, 75,443 ich patients enrolled from the chinese stroke center alliance program were included in our study.Patients were divided into ldl-c levels of &lt;70 mg/d l, 70-100 mg/d l, and ≥100 mmol/l.Sbp was stratified as &lt;140 mm hg, 140-180 mm hg, and ≥180 mm hg.The primary outcome was the occurrence of hematoma expansion (he), and the second outcome was in-hospital mortality.Correlation between ldl-c levels and sbp on ich outcomes were assessed by logistic regression.6,116 (8.1%) and 1,576 (2.1%) patients suffered he and in-hospital mortality.Compared with the ≥100 mg/d l group, patients with ldl-c concentrations under 70 mg/d l had a 19% and 24% increase in the relative risk of he (crude or 1.19, 95% ci 1.11-1.28) and in-hospital mortality (crude or 1.24, 95% ci 1.08-1.42).When sbp was added as a stratification variable, the above-mentioned association was attenuated in patients under a threshold sbp of 140 mm hg ( p &gt; 0.05 ).However, no statistical interaction was detected between sbp and ldl-c levels.Lower ldl-c levels (&lt;70 mg/d l) are related to a higher risk of he and in-hospital mortality confined to ich patients with elevated sbp (≥140 mm hg).

Journal: Oxidative Medicine and Cellular Longevity (2022)
Publication types: Research Article;