Neelabh Datta | Asutosh College (original) (raw)
Papers by Neelabh Datta
Journal of Experimental and Molecular Biology, 2022
In contrast to Watson-Crick (WC) base pairing, Hoogsteen (HG) base pairing involves flipping a pu... more In contrast to Watson-Crick (WC) base pairing, Hoogsteen (HG) base pairing involves flipping a purine base 180° between its anti and syn conformation. Recent studies have shown that HG pairs coexist in dynamical equilibrium, and several biological functions depend on them. This significance has stirred computational research on this base-pairing transition. However, a methodical reproduction of sequence variations has continued to be out of reach. It is becoming increasingly clear that Hoogsteen base pairs play a crucial role in DNA replication, recognition, damage repair, and incorrect sequence repair. The Protein Data Bank contains a variety of Hoogsteen base pairing modes that include the preference for AT versus G-C bps, TA versus GG pairs, and a preference for 5'-purines at terminal ends. RNA A-form duplexes are strongly disfavoured by Hoogsteen base pairs, in stark contrast to B-form DNA. Therefore, N1-methyl adenosine and N1-methyl guanosine, which is found in DNA as alkylation impairment and in RNA as posttranscriptional adjustments, have great differences in effects. They create G-C+ and A-U Hoogsteen base pairs in duplex DNA that preserve the structural integrity of the double helix but obstruct base pairing altogether and induce local duplex melting in RNA, providing a mechanism for potently disrupting RNA structure through posttranscriptional modifications. In duplex DNA, they maintain the structural integrity of the double helix by creating G-C+ and A-U Hoogsteen base pairs, but block base pairing altogether and cause local duplex melting in RNA, thus providing a potent means for disrupting RNA structure post transcriptionally. As a result of the markedly different inclinations for B-DNA and A-RNA to form Hoogsteen base pairs, they may be able to balance the opposing demands of maintaining genome stability and dynamically modulating the epitranscriptome. This review examines the occurrence of Hoogsteen base pairs in DNA and RNA duplexes.
Acta Biologica Marisiensis
There have been significant advances in our understanding of how changes in the fluidity and perm... more There have been significant advances in our understanding of how changes in the fluidity and permeability of the cell membrane can affect drug resistance in cancer. Research has shown that cancer cells often have changes in the fluidity and permeability of their cell membrane that contribute to their resistance to drugs used to treat cancer. These changes may be due to changes in the composition and organization of the lipid bilayer that makes up the membrane, as well as changes in the expression or localization of proteins and other molecules embedded in the membrane. The lipid composition in the tumor cell membrane changes with drug resistance, which can affect the fluidity and permeability of the cell membrane. Reversal of drug resistance can be achieved by altering cell membrane fluidity and permeability. In recent years, there have been numerous studies aimed at understanding the mechanisms underlying these changes and identifying strategies to overcome drug resistance in cance...
Studia Universitatis Babeş-Bolyai Biologia
Protein-protein interactions are essential for the normal function of cells and are involved in v... more Protein-protein interactions are essential for the normal function of cells and are involved in various cellular processes. These interactions can occur through a variety of mechanisms, including hydrogen bonding, ionic interactions, and hydrophobic interactions. Changes in protein-protein interactions can alter the normal function of the cell and lead to various diseases. Understanding protein-protein interactions is important for the development of therapeutic approaches targeting these interactions for the treatment of diseases. In this article, I will discuss the role of protein-protein interactions in normal cellular function, the consequences of changes in these interactions, and the importance and significance of understanding these interactions by using the example of dynein-dynactin.
Keywords: protein-protein interactions, dynein, dynactin, dysregulation, cargo transport.
AIMS Biophysics
In humans particularly in children, adenovirus is one of the most common viruses that cause respi... more In humans particularly in children, adenovirus is one of the most common viruses that cause respiratory illnesses. Knowing how to detect adenovirus proficiently and rapidly will help reinforce surveillance of adenovirus infections, detect epidemic situations in real-time, and understand the trend of virus epidemics, which will allow effective actions to be taken quickly. The rapid detection of antiviral antibodies or viral antigens in clinical samples can be achieved by molecular diagnostic techniques like PCR, Real-Time PCR, LAMP, mPCR-RLB, PCR-ELISA, Tem-PCR, Gene Chip, and so on. Some of the molecular diagnostic methods are relatively economical, exceedingly sensitive and explicit. There are several commercially accessible molecular diagnostic techniques that enable their use in clinical laboratories all over the world. In this review, the principles, characteristics, and applications of molecular biology surveillance methods commonly used in labs and clinics for the detection of...
![Research paper thumbnail of [Review] Investigating the Role of Urokinase in Cancer Metastasis: A Review](https://attachments.academia-assets.com/99819227/thumbnails/1.jpg)
](The greatest cause of cancer-related mortality is cancer metastasis, which is the spread of cance... more The greatest cause of cancer-related mortality is cancer metastasis, which is the spread of cancer cells from the original tumour to distant areas. Urokinase (uPA) is one of the important proteases involved in this process. By encouraging cell migration, invasion, and angiogenesis, uPA plays a critical part in the spread of cancer. Numerous cancers have an overexpressed uPA system, which is linked to a poor prognosis and a higher chance of metastasis. The project focuses on the state of the science around uPA inhibitors as a possible therapeutic for preventing or treating cancer metastasis. Different kinds of uPA inhibitors, including as monoclonal antibodies, small molecule inhibitors, and plasminogen activator inhibitors (PAIs), have been created and have showed promise in preclinical investigations. To prove their effectiveness in treating cancer patients, more study is necessary. A promising strategy for preventing or treating cancer metastasis involves targeting the uPA system ...
The null hypothesis is a statement that asserts that there is no relationship between two variabl... more The null hypothesis is a statement that asserts that there is no relationship between two variables or no difference between two groups. In molecular genetics, the null hypothesis is often used to test the validity of research hypotheses that pertain to the relationship between specific genetic variations and various traits or diseases. In this article, I will discuss the process of disapproving the null hypothesis in the context of molecular genetics research and the importance of accurately doing so in order to draw valid conclusions from studies.
Indian Journal of Medical and Paediatric Oncology
The field of oncology research has made many successful advances, and new discoveries have starte... more The field of oncology research has made many successful advances, and new discoveries have started making headlines. As an example, the identification of immune checkpoint inhibition mechanisms in carcinogenic cells led to the development of immunoassays, which have helped many cancer convalescents recover. This article covers the most advanced cutting-edge areas of cancer research: exosomes, microbiomes, immunotherapy, nanocarriers, and organoids. Research on exosomes advances cancer detection and treatment modalities, as well as further understanding of mechanisms that regulate carcinogen cell division, proliferation, invasion, and metastasis. Microbiome consents the researchers to understand the disease cancer. Immunotherapy is the third method in the treatment of cancer. Organoid biology will be further expanded with the aim of translating research into customized therapeutic therapies. Nanocarriers enable cancer specific drug delivery by inherent unreceptive targeting phenomena...
Genomic DNA (gDNA) from Corchorus olitorius O four was used for the High Throughput Next Generati... more Genomic DNA (gDNA) from Corchorus olitorius O four was used for the High Throughput Next Generation Sequencing (NGS) podiums. About 50-fold coverage of Jute's genome sequencing data was intended for the recombination assignment. Molecular analysis of repetitive DNA sequences, which account for a large percentage of plant genomes, has not been conducted in jute, but it may be useful for studying chromosome long-range organization. Several open-source and industrial-grade genome assemblage and annotation conduits were used for accumulating and appraise raw statistics. For authenticating the genome project, a transcriptome genome and proteome assessment were additionally also implemented for which evaluated data is assessed by exceptional computing resources, ranging from an overall high-performance cluster server to Dell servers, were used. The jute plant is well adapted to grow in hot and humid climates; however, it is typically grown in a wide range of climatic conditions. Abiotic stress can limit its growth, yield, and quality and affects the metabolism, growth, physiology, and fiber yield of the plant. Despite jute's adaptedness to grow.in hot and humid climates, its growth can be adapted to a wide range of climates and it is relatively resistant to some environmental stresses. However, abiotic stress hinders both jute's growth, yield, and quality significantly. Jute is restricted in its growth, yield, and quality significantly by abiotic stress. Abiotic stress directly affects jute's metabolism, growth, physiology, and fiber yield. However, the utmost proficient array of 858 EST was deposited in the Gene Bank database. Ostensibly, the communal record is far from satisfactory to apprehend the molecular machinery of filamentous biosynthesis. In this review I will cite some of the recent information in the field of sequencing and analysis of Jute (Corchous species) plant by which we can develop jute varieties that are highly productive, saline-tolerant, and produce good quality fibre, including strength and color.
Journal of Sustainable Materials Processing and Management
Sustainable Forest Management refers to the management and utilization of forests and their biodi... more Sustainable Forest Management refers to the management and utilization of forests and their biodiversity, productivity, reproducibility potential and prospective in the relevant environment, both now and in the future in a manner that does not harm economic and social outputs at different levels, which creates socially equitable, environmentally sound and economically viable outcomes. Proper and sustainable plastic waste management is now seen as a necessity for sustainable forest use, leading to the setting of ambitious targets for recyclability as well as incorporating recycled plastics into products. For the scientific and forest management community, the challenges hindering efforts to mitigate plastic pollution are identified to inform the recommendations presented and emphasize the urgency of finding sustainable solutions to plastic pollution that do not only address the existing issues faced by forests and environments but also future threats presented by plastic pollution. A...
Journal of Experimental and Molecular Biology, 2022
In contrast to Watson-Crick (WC) base pairing, Hoogsteen (HG) base pairing involves flipping a pu... more In contrast to Watson-Crick (WC) base pairing, Hoogsteen (HG) base pairing involves flipping a purine base 180° between its anti and syn conformation. Recent studies have shown that HG pairs coexist in dynamical equilibrium, and several biological functions depend on them. This significance has stirred computational research on this base-pairing transition. However, a methodical reproduction of sequence variations has continued to be out of reach. It is becoming increasingly clear that Hoogsteen base pairs play a crucial role in DNA replication, recognition, damage repair, and incorrect sequence repair. The Protein Data Bank contains a variety of Hoogsteen base pairing modes that include the preference for AT versus G-C bps, TA versus GG pairs, and a preference for 5'-purines at terminal ends. RNA A-form duplexes are strongly disfavoured by Hoogsteen base pairs, in stark contrast to B-form DNA. Therefore, N1-methyl adenosine and N1-methyl guanosine, which is found in DNA as alkylation impairment and in RNA as posttranscriptional adjustments, have great differences in effects. They create G-C+ and A-U Hoogsteen base pairs in duplex DNA that preserve the structural integrity of the double helix but obstruct base pairing altogether and induce local duplex melting in RNA, providing a mechanism for potently disrupting RNA structure through posttranscriptional modifications. In duplex DNA, they maintain the structural integrity of the double helix by creating G-C+ and A-U Hoogsteen base pairs, but block base pairing altogether and cause local duplex melting in RNA, thus providing a potent means for disrupting RNA structure post transcriptionally. As a result of the markedly different inclinations for B-DNA and A-RNA to form Hoogsteen base pairs, they may be able to balance the opposing demands of maintaining genome stability and dynamically modulating the epitranscriptome. This review examines the occurrence of Hoogsteen base pairs in DNA and RNA duplexes.
Acta Biologica Marisiensis
There have been significant advances in our understanding of how changes in the fluidity and perm... more There have been significant advances in our understanding of how changes in the fluidity and permeability of the cell membrane can affect drug resistance in cancer. Research has shown that cancer cells often have changes in the fluidity and permeability of their cell membrane that contribute to their resistance to drugs used to treat cancer. These changes may be due to changes in the composition and organization of the lipid bilayer that makes up the membrane, as well as changes in the expression or localization of proteins and other molecules embedded in the membrane. The lipid composition in the tumor cell membrane changes with drug resistance, which can affect the fluidity and permeability of the cell membrane. Reversal of drug resistance can be achieved by altering cell membrane fluidity and permeability. In recent years, there have been numerous studies aimed at understanding the mechanisms underlying these changes and identifying strategies to overcome drug resistance in cance...
Studia Universitatis Babeş-Bolyai Biologia
Protein-protein interactions are essential for the normal function of cells and are involved in v... more Protein-protein interactions are essential for the normal function of cells and are involved in various cellular processes. These interactions can occur through a variety of mechanisms, including hydrogen bonding, ionic interactions, and hydrophobic interactions. Changes in protein-protein interactions can alter the normal function of the cell and lead to various diseases. Understanding protein-protein interactions is important for the development of therapeutic approaches targeting these interactions for the treatment of diseases. In this article, I will discuss the role of protein-protein interactions in normal cellular function, the consequences of changes in these interactions, and the importance and significance of understanding these interactions by using the example of dynein-dynactin.
Keywords: protein-protein interactions, dynein, dynactin, dysregulation, cargo transport.
AIMS Biophysics
In humans particularly in children, adenovirus is one of the most common viruses that cause respi... more In humans particularly in children, adenovirus is one of the most common viruses that cause respiratory illnesses. Knowing how to detect adenovirus proficiently and rapidly will help reinforce surveillance of adenovirus infections, detect epidemic situations in real-time, and understand the trend of virus epidemics, which will allow effective actions to be taken quickly. The rapid detection of antiviral antibodies or viral antigens in clinical samples can be achieved by molecular diagnostic techniques like PCR, Real-Time PCR, LAMP, mPCR-RLB, PCR-ELISA, Tem-PCR, Gene Chip, and so on. Some of the molecular diagnostic methods are relatively economical, exceedingly sensitive and explicit. There are several commercially accessible molecular diagnostic techniques that enable their use in clinical laboratories all over the world. In this review, the principles, characteristics, and applications of molecular biology surveillance methods commonly used in labs and clinics for the detection of...
The greatest cause of cancer-related mortality is cancer metastasis, which is the spread of cance... more The greatest cause of cancer-related mortality is cancer metastasis, which is the spread of cancer cells from the original tumour to distant areas. Urokinase (uPA) is one of the important proteases involved in this process. By encouraging cell migration, invasion, and angiogenesis, uPA plays a critical part in the spread of cancer. Numerous cancers have an overexpressed uPA system, which is linked to a poor prognosis and a higher chance of metastasis. The project focuses on the state of the science around uPA inhibitors as a possible therapeutic for preventing or treating cancer metastasis. Different kinds of uPA inhibitors, including as monoclonal antibodies, small molecule inhibitors, and plasminogen activator inhibitors (PAIs), have been created and have showed promise in preclinical investigations. To prove their effectiveness in treating cancer patients, more study is necessary. A promising strategy for preventing or treating cancer metastasis involves targeting the uPA system ...
The null hypothesis is a statement that asserts that there is no relationship between two variabl... more The null hypothesis is a statement that asserts that there is no relationship between two variables or no difference between two groups. In molecular genetics, the null hypothesis is often used to test the validity of research hypotheses that pertain to the relationship between specific genetic variations and various traits or diseases. In this article, I will discuss the process of disapproving the null hypothesis in the context of molecular genetics research and the importance of accurately doing so in order to draw valid conclusions from studies.
Indian Journal of Medical and Paediatric Oncology
The field of oncology research has made many successful advances, and new discoveries have starte... more The field of oncology research has made many successful advances, and new discoveries have started making headlines. As an example, the identification of immune checkpoint inhibition mechanisms in carcinogenic cells led to the development of immunoassays, which have helped many cancer convalescents recover. This article covers the most advanced cutting-edge areas of cancer research: exosomes, microbiomes, immunotherapy, nanocarriers, and organoids. Research on exosomes advances cancer detection and treatment modalities, as well as further understanding of mechanisms that regulate carcinogen cell division, proliferation, invasion, and metastasis. Microbiome consents the researchers to understand the disease cancer. Immunotherapy is the third method in the treatment of cancer. Organoid biology will be further expanded with the aim of translating research into customized therapeutic therapies. Nanocarriers enable cancer specific drug delivery by inherent unreceptive targeting phenomena...
Genomic DNA (gDNA) from Corchorus olitorius O four was used for the High Throughput Next Generati... more Genomic DNA (gDNA) from Corchorus olitorius O four was used for the High Throughput Next Generation Sequencing (NGS) podiums. About 50-fold coverage of Jute's genome sequencing data was intended for the recombination assignment. Molecular analysis of repetitive DNA sequences, which account for a large percentage of plant genomes, has not been conducted in jute, but it may be useful for studying chromosome long-range organization. Several open-source and industrial-grade genome assemblage and annotation conduits were used for accumulating and appraise raw statistics. For authenticating the genome project, a transcriptome genome and proteome assessment were additionally also implemented for which evaluated data is assessed by exceptional computing resources, ranging from an overall high-performance cluster server to Dell servers, were used. The jute plant is well adapted to grow in hot and humid climates; however, it is typically grown in a wide range of climatic conditions. Abiotic stress can limit its growth, yield, and quality and affects the metabolism, growth, physiology, and fiber yield of the plant. Despite jute's adaptedness to grow.in hot and humid climates, its growth can be adapted to a wide range of climates and it is relatively resistant to some environmental stresses. However, abiotic stress hinders both jute's growth, yield, and quality significantly. Jute is restricted in its growth, yield, and quality significantly by abiotic stress. Abiotic stress directly affects jute's metabolism, growth, physiology, and fiber yield. However, the utmost proficient array of 858 EST was deposited in the Gene Bank database. Ostensibly, the communal record is far from satisfactory to apprehend the molecular machinery of filamentous biosynthesis. In this review I will cite some of the recent information in the field of sequencing and analysis of Jute (Corchous species) plant by which we can develop jute varieties that are highly productive, saline-tolerant, and produce good quality fibre, including strength and color.
Journal of Sustainable Materials Processing and Management
Sustainable Forest Management refers to the management and utilization of forests and their biodi... more Sustainable Forest Management refers to the management and utilization of forests and their biodiversity, productivity, reproducibility potential and prospective in the relevant environment, both now and in the future in a manner that does not harm economic and social outputs at different levels, which creates socially equitable, environmentally sound and economically viable outcomes. Proper and sustainable plastic waste management is now seen as a necessity for sustainable forest use, leading to the setting of ambitious targets for recyclability as well as incorporating recycled plastics into products. For the scientific and forest management community, the challenges hindering efforts to mitigate plastic pollution are identified to inform the recommendations presented and emphasize the urgency of finding sustainable solutions to plastic pollution that do not only address the existing issues faced by forests and environments but also future threats presented by plastic pollution. A...