Tumor cell type and gene marker identification by single layer perceptron neural network on single-cell RNA sequence data
This study also focused on classifying these unique cell types and gene markers using scRNA sequence datasets. The proposed single layer perceptron was assessed using two datasets: normal mucosa and colorectal tumors. Our findings showed that the proposed single layer perceptron performed exceptionally well with accuracy, precision, recall, and F1 value.PMID:38525885 (Source: Journal of Biosciences)
Source: Journal of Biosciences - March 25, 2024 Category: Biomedical Science Authors: Biswajit Senapati Ranjita DAS Source Type: research

Tumor cell type and gene marker identification by single layer perceptron neural network on single-cell RNA sequence data
This study also focused on classifying these unique cell types and gene markers using scRNA sequence datasets. The proposed single layer perceptron was assessed using two datasets: normal mucosa and colorectal tumors. Our findings showed that the proposed single layer perceptron performed exceptionally well with accuracy, precision, recall, and F1 value.PMID:38525885 (Source: Journal of Biosciences)
Source: Journal of Biosciences - March 25, 2024 Category: Biomedical Science Authors: Biswajit Senapati Ranjita DAS Source Type: research

Cobra ( < em > Naja naja < /em > ) venom L-amino acid oxidase (NNLAAO70) induces apoptosis and secondary necrosis in human lung epithelial cancer cells
J Biosci. 2024;49:43.ABSTRACTSnake venom L-amino acid oxidases (LAAOs) are flavoenzymes with diverse physiological and pharmacological effects. These enzymes are found to showcase anticoagulant, antiplatelet, cytotoxicity and other biological effects in bite victims. However, the exact mechanism through which they exhibit several biological properties is not yet fully understood. The current study focussed on the purification of cobra venom LAAO and the functional characterization of purified LAAO. A novel L-amino acid oxidase NNLAAO70 with a molecular weight ~70 kDa was purified from the venom of an Indian spectacled cobr...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Ananda Murali Rayapati Bhadramurthy Vemulapati Chandrasekhar Chanda Source Type: research

Role of mitochondria and chloroplasts during stomatal closure: Subcellular location of superoxide and H < sub > 2 < /sub > O < sub > 2 < /sub > production in guard cells of < em > Arabidopsis thaliana < /em >
J Biosci. 2024;49:44.ABSTRACTStomatal guard cells are unique in that they have more mitochondria than chloroplasts. Several reports emphasized the importance of mitochondria as the major energy source during stomatal opening. We re-examined their role during stomatal closure. The marked sensitivity of stomata to both menadione (MD) and methyl viologen (MV) demonstrated that both mitochondria and chloroplasts helped to promote stomatal closure in Arabidopsis. As in the case of abscisic acid (ABA), a plant stress hormone, MD and MV induced stomatal closure at micromolar concentration. All three compounds generated superoxide...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Shashibhushan Gahir Pulimamidi Bharath Deepak Saini Gudipalli Padmaja Agepati S Raghavendra Source Type: research

Crosstalk between photosynthesis and respiration in microbes
J Biosci. 2024;49:45.ABSTRACTPhototrophic organisms harbor two main bioenergetic hubs, photosynthesis and respiration, and these processes dynamically exchange and share metabolites to balance the energy of the cell. In microalgae and cyanobacteria, the crosstalk between the light-triggered reactions of photosynthesis and respiration is particularly prominent with respiratory O2 uptake which can be stimulated upon illumination. Since its discovery, this light-enhanced respiration has been proposed to be critical in dissipating the excess reducing power generated by photosynthesis. Importantly, the physiological role and pu...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Ginga Shimakawa Yusuke Matsuda Adrien Burlacot Source Type: research

From sequence to consequence: Deciphering the complex cisregulatory landscape
J Biosci. 2024;49:46.ABSTRACTCell type-specific expression of genes plays a pivotal role in the development and evolution of multicellular organisms over millions of years. The majority of regulatory control resides within the non-coding regions of the genome, referred to as 'dark matter', which contains cis-regulatory modules. These cis-regulatory modules function collectively and can impact gene expression even when located far from the target gene, exhibiting context-specific behaviour. Consequently, the cis-regulatory code governing gene expression patterns is intricate, in contrast to the universally understood geneti...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Greg Jude Dsilva Sanjeev Galande Source Type: research

Cobra ( < em > Naja naja < /em > ) venom L-amino acid oxidase (NNLAAO70) induces apoptosis and secondary necrosis in human lung epithelial cancer cells
J Biosci. 2024;49:43.ABSTRACTSnake venom L-amino acid oxidases (LAAOs) are flavoenzymes with diverse physiological and pharmacological effects. These enzymes are found to showcase anticoagulant, antiplatelet, cytotoxicity and other biological effects in bite victims. However, the exact mechanism through which they exhibit several biological properties is not yet fully understood. The current study focussed on the purification of cobra venom LAAO and the functional characterization of purified LAAO. A novel L-amino acid oxidase NNLAAO70 with a molecular weight ~70 kDa was purified from the venom of an Indian spectacled cobr...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Ananda Murali Rayapati Bhadramurthy Vemulapati Chandrasekhar Chanda Source Type: research

Role of mitochondria and chloroplasts during stomatal closure: Subcellular location of superoxide and H < sub > 2 < /sub > O < sub > 2 < /sub > production in guard cells of < em > Arabidopsis thaliana < /em >
J Biosci. 2024;49:44.ABSTRACTStomatal guard cells are unique in that they have more mitochondria than chloroplasts. Several reports emphasized the importance of mitochondria as the major energy source during stomatal opening. We re-examined their role during stomatal closure. The marked sensitivity of stomata to both menadione (MD) and methyl viologen (MV) demonstrated that both mitochondria and chloroplasts helped to promote stomatal closure in Arabidopsis. As in the case of abscisic acid (ABA), a plant stress hormone, MD and MV induced stomatal closure at micromolar concentration. All three compounds generated superoxide...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Shashibhushan Gahir Pulimamidi Bharath Deepak Saini Gudipalli Padmaja Agepati S Raghavendra Source Type: research

Crosstalk between photosynthesis and respiration in microbes
J Biosci. 2024;49:45.ABSTRACTPhototrophic organisms harbor two main bioenergetic hubs, photosynthesis and respiration, and these processes dynamically exchange and share metabolites to balance the energy of the cell. In microalgae and cyanobacteria, the crosstalk between the light-triggered reactions of photosynthesis and respiration is particularly prominent with respiratory O2 uptake which can be stimulated upon illumination. Since its discovery, this light-enhanced respiration has been proposed to be critical in dissipating the excess reducing power generated by photosynthesis. Importantly, the physiological role and pu...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Ginga Shimakawa Yusuke Matsuda Adrien Burlacot Source Type: research

From sequence to consequence: Deciphering the complex cisregulatory landscape
J Biosci. 2024;49:46.ABSTRACTCell type-specific expression of genes plays a pivotal role in the development and evolution of multicellular organisms over millions of years. The majority of regulatory control resides within the non-coding regions of the genome, referred to as 'dark matter', which contains cis-regulatory modules. These cis-regulatory modules function collectively and can impact gene expression even when located far from the target gene, exhibiting context-specific behaviour. Consequently, the cis-regulatory code governing gene expression patterns is intricate, in contrast to the universally understood geneti...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Greg Jude Dsilva Sanjeev Galande Source Type: research

Cobra ( < em > Naja naja < /em > ) venom L-amino acid oxidase (NNLAAO70) induces apoptosis and secondary necrosis in human lung epithelial cancer cells
J Biosci. 2024;49:43.ABSTRACTSnake venom L-amino acid oxidases (LAAOs) are flavoenzymes with diverse physiological and pharmacological effects. These enzymes are found to showcase anticoagulant, antiplatelet, cytotoxicity and other biological effects in bite victims. However, the exact mechanism through which they exhibit several biological properties is not yet fully understood. The current study focussed on the purification of cobra venom LAAO and the functional characterization of purified LAAO. A novel L-amino acid oxidase NNLAAO70 with a molecular weight ~70 kDa was purified from the venom of an Indian spectacled cobr...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Ananda Murali Rayapati Bhadramurthy Vemulapati Chandrasekhar Chanda Source Type: research

Role of mitochondria and chloroplasts during stomatal closure: Subcellular location of superoxide and H < sub > 2 < /sub > O < sub > 2 < /sub > production in guard cells of < em > Arabidopsis thaliana < /em >
J Biosci. 2024;49:44.ABSTRACTStomatal guard cells are unique in that they have more mitochondria than chloroplasts. Several reports emphasized the importance of mitochondria as the major energy source during stomatal opening. We re-examined their role during stomatal closure. The marked sensitivity of stomata to both menadione (MD) and methyl viologen (MV) demonstrated that both mitochondria and chloroplasts helped to promote stomatal closure in Arabidopsis. As in the case of abscisic acid (ABA), a plant stress hormone, MD and MV induced stomatal closure at micromolar concentration. All three compounds generated superoxide...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Shashibhushan Gahir Pulimamidi Bharath Deepak Saini Gudipalli Padmaja Agepati S Raghavendra Source Type: research

Crosstalk between photosynthesis and respiration in microbes
J Biosci. 2024;49:45.ABSTRACTPhototrophic organisms harbor two main bioenergetic hubs, photosynthesis and respiration, and these processes dynamically exchange and share metabolites to balance the energy of the cell. In microalgae and cyanobacteria, the crosstalk between the light-triggered reactions of photosynthesis and respiration is particularly prominent with respiratory O2 uptake which can be stimulated upon illumination. Since its discovery, this light-enhanced respiration has been proposed to be critical in dissipating the excess reducing power generated by photosynthesis. Importantly, the physiological role and pu...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Ginga Shimakawa Yusuke Matsuda Adrien Burlacot Source Type: research

From sequence to consequence: Deciphering the complex cisregulatory landscape
J Biosci. 2024;49:46.ABSTRACTCell type-specific expression of genes plays a pivotal role in the development and evolution of multicellular organisms over millions of years. The majority of regulatory control resides within the non-coding regions of the genome, referred to as 'dark matter', which contains cis-regulatory modules. These cis-regulatory modules function collectively and can impact gene expression even when located far from the target gene, exhibiting context-specific behaviour. Consequently, the cis-regulatory code governing gene expression patterns is intricate, in contrast to the universally understood geneti...
Source: Journal of Biosciences - March 22, 2024 Category: Biomedical Science Authors: Greg Jude Dsilva Sanjeev Galande Source Type: research

Finding identical sequence repeats in multiple protein sequences: An algorithm
J Biosci. 2024;49:41.ABSTRACTIn recent years, several experimental evidences suggest that amino acid repeats are closely linked to many disease conditions, as they have a significant role in evolution of disordered regions of the polypeptide segments. Even though many algorithms and databases were developed for such analysis, each algorithm has some caveats, like limitation on the number of amino acids within the repeat patterns and number of query protein sequences. To this end, in the present work, a new method called the internal sequence repeats across multiple protein sequences (ISRMPS) is proposed for the first time ...
Source: Journal of Biosciences - March 6, 2024 Category: Biomedical Science Authors: Vikas Kumar Maurya Madhumathi Sanjeevi Chandrasekar Narayanan Rahul Ajitha Mohan Dhanalakshmi Ramachandran Rashmi Siddalingappa Roshan Rauniyar Sekar Kanagaraj Source Type: research