Dr. Subash C Sonkar | Maulana Azad Medical College (original) (raw)
Papers by Dr. Subash C Sonkar
Mushrooms: A Wealth of Nutraceuticals and An Agent of Bioremediation
Malignancies have been among the diseases which claim most of the lives around the globe. They al... more Malignancies have been among the diseases which claim most of the lives around the globe. They also impact the socioeconomic level as well as emotional detriments among the near and dear ones. Various strategies and interventions have been devised to combat these life-threatening conditions. The ill effects associated with synthetic drugs comprising most of the anticancer drugs enforce looking for an alternative source for molecules with therapeutic potential. Mushrooms are one of the most prominent sources of bioactive molecules with diverse medicinal properties. Various mushrooms have shown their ability to inhibit the proliferation of neoplastic cells both in in vitro and in vivo investigations. Mushrooms and their active constituents can affect the various Hallmarks of Cancer. Mushrooms are not only able to inhibit the proliferation of cancer cells, but they also prevent the onset of carcinogenesis. The anti-angiogenic property of various mushrooms is indicated in several resear...
International Journal of Infectious Diseases
The introduction of spacers in coating steroid protein complex and / or enzyme conjugates or immu... more The introduction of spacers in coating steroid protein complex and / or enzyme conjugates or immunogen is known to exert an influence on the sensitivity of steroid enzyme immunoassays. We have introduced different homobifunctional spacers between enzyme and prednisolone (PSL) moiety having atomic length 3 to 10 and studied their influence on functional parameters such as sensitivity and specificity of PSL enzyme immunoassays. In this study, four enzyme conjugates of PSL-21-HS and HRP were prepared by N-Hydroxy Succinimide mediated carbodiimide reaction, these were PSL-21-HS-adipic acid dihydrazide (ADH)-HRP, PSL-21-HS- carbohydrazide (CH)-HRP, PSL-21-HS-ehylenediamine (EDA)-HRP and PSL-21-HS- urea (U)-HRP. The assays were developed using these enzymes conjugate with antibody raised against PSL-21-HS-BSA immunogen. The sensitivity of the PSL assays after insertion of bridge in enzyme conjugate were 1.22 ng/mL, 0.59 ng/mL, 0.48 ng/mL and 0.018 ng/mL with ADH, CH, EDA and urea as space...
Acta Scientific Microbiology
The highlights of the manuscript are • Strengthening the Basics Approaches to protect the lab per... more The highlights of the manuscript are • Strengthening the Basics Approaches to protect the lab personnel in dedicated COVID hospital of Low-Resource Settings. • Designed and developed in-house standard operating procedure (SOP) to fill the gap and evaluate the effect in dedicated COVID-19 hospitals. • Innovative protective devices made from OHP sheets and cardboard boxes fitted with hypochlorite spraying devices as alternatives to biosafety cabinets on contamination of laboratory surfaces. • Performances of the devices were clinically validated and it can be used as alternative in low resources settings.
Frontiers in Analytical Science
Backgrounds: Oxytocin is nowadays used to increase the agricultural products besides its use duri... more Backgrounds: Oxytocin is nowadays used to increase the agricultural products besides its use during the milking of cattle leading to the contamination of agricultural produce and milk with oxytocin. Monitoring of accurate oxytocin contaminations from foodstuffs is sometimes required to maintain the quality standard. The commonly used oxytocin assays in this study were interfered with by the food matrix. There is a need to develop an accurate and confirmed method for monitoring oxytocin contaminations in foodstuffs.Objective: An attempt is made to develop an accurate assay method of oxytocin from milk and agricultural produces.Methods: The acidified methanol was used for the extraction of oxytocin from target food stuff/matrices (agricultural produce and Milk). LC-MS/MS was used for its detection and quantification. In the chromatographic separation, Oxytocin concentration was optimized using selective reaction monitoring (SRM) with heated electrospray ionization (HESI) in positive p...
BioMed Research International, 2015
Neisseria gonorrhoeaeis an important sexually transmitted diseases (STD) causing pathogen worldwi... more Neisseria gonorrhoeaeis an important sexually transmitted diseases (STD) causing pathogen worldwide. Due to absence of an affordable diagnostic assay, routine screening of gonococcal infection becomes impossible in developing countries where infection rates are maximum. Treatment is given on the basis of symptoms alone which leads to spread of infection. Thus, development of a rapid, sensitive, specific, and PCR based visual diagnostic assay suitable for developing countries, required for better disease management, is aimed at in present study. Endocervical swabs were collected from patients visiting gynecology department of various hospitals in Delhi. In-house PCR based assay was developed and modified to visual assay using molecular beacon for end-point detection. It was evaluated against Roche AMPLICOR NG kit andrmpgene. Specificity of beacon was confirmed by competition experiments. Diagnostic test was 98.21% specific and 99.59% sensitive whereas negative and positive predicted ...
Clinica Chimica Acta, 2022
Background and aims: Monoclonal/biclonalgammopathy of unknown significance (MGUS/BGUS) is observe... more Background and aims: Monoclonal/biclonalgammopathy of unknown significance (MGUS/BGUS) is observed in COVID-19. This study was conducted to determine the changes in serum protein electrophoresis (SPEP) in COVID-19. Materials and methods: In this descriptive (cross-sectional) study, serum inflammatory markers (CRP, IL-6 and ferritin) were measured and SPEP was carried out by capillary electrophoresis method in 35 controls and 30 moderate & 58 severe COVID-19 cases. Results: Serum inflammatory markers were increased in COVID-19 cases with severity. M− band(s), β-γ bridging and pre-albumin band(s) on SPEP were observed in 15.5, 11 & 12% of severe cases and 3, 4 & 0% moderate COVID-19 cases respectively. Area under curve (AUC) of α 1 and α 2 bands of SPEP increased significantly in severe COVID-19. Conclusions: We conclude that SPEP changes like the appearance of M− band(s) indicating MGUS(BGUS), β-γ bridging indicating the presence of fast-moving immunoglobulins, pre-albumin band indicating the rise in serum transthyretin level and the increase in AUC of α 1 and α 2 bands indicating the rise in positive acute phase reactants occur in COVID-19. The occurrence and magnitude of these changes are higher in severe COVID-19 than that in moderate COVID-19. The diagnostic and prognostic significance of these SPEP changes are worth exploring.
AJOG Global Reports, 2021
Frontiers in Microbiology
BackgroundAntibody testing is often used for serosurveillance of coronavirus disease 2019 (COVID-... more BackgroundAntibody testing is often used for serosurveillance of coronavirus disease 2019 (COVID-19). Enzyme-linked immunosorbent assay and chemiluminescence-based antibody tests are quite sensitive and specific for such serological testing. Rapid antibody tests against different antigens are developed and effectively used for this purpose. However, their diagnostic efficiency, especially in real-life hospital setting, needs to be evaluated. Thus, the present study was conducted in a dedicated COVID-19 hospital in New Delhi, India, to evaluate the diagnostic efficacy of a rapid antibody kit against the receptor-binding domain (RBD) of the spike protein of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2).MethodsSixty COVID-19 confirmed cases by reverse transcriptase–polymerase chain reaction (RT-PCR) were recruited and categorized as early, intermediate, and late cases based on the days passed after their first RT-PCR–positive test report, with 20 subjects in each categor...
Frontiers in Medicine
The severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) that was first identified in Dec... more The severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) that was first identified in December 2019, in Wuhan, China was found to be the etiological agent for a novel respiratory infection that led to a Coronavirus Induced Disease named COVID-19. The disease spread to pandemic magnitudes within a few weeks and since then we have been dealing with several waves across the world, due to the emergence of variants and novel mutations in this RNA virus. A direct outcome of these variants apart from the spike of cases is the diverse disease presentation and difficulty in employing effective diagnostic tools apart from confusing disease outcomes. Transmissibility rates of the variants, host response, and virus evolution are some of the features found to impact COVID-19 disease management. In this review, we will discuss the emerging variants of SARS-CoV-2, notable mutations in the viral genome, the possible impact of these mutations on detection, disease presentation, and managemen...
Frontiers in Medicine
BackgroundA prospective cohort was conducted to assess the prevalence of seven RTIs/STIs in adole... more BackgroundA prospective cohort was conducted to assess the prevalence of seven RTIs/STIs in adolescent asymptomatic pregnant women to find a significant correlation between infection and pregnancy.MethodsThe study was restricted to 18–19 years of asymptomatic adolescent pregnant women attending Ante-Natal Care and the health status of the pregnant women were followed up to parturition. The health status of the infant was followed till 6 months post-delivery. The prevalence of the concerning pathogens and the significance of their association with adverse outcomes of pregnancy were determined.ResultsAmong 279 subjects, the most significant co-infections were observed for M. hominis with U. parvum (9.31%; p-value–0.0071/OR−2.6421) and U. urealyticum (7.88%; p-value–0.0119/OR−2.6455). Statistically significant associations were found between C. trachomatis [(p-value-0.0439); OR−2.9902] and M. genitalium [(p-value−0.0284); OR−3.442] with PTB, N. gonorrhoeae with LBW <2.5 kg [(p-value...
Protocols used in Molecular Biology is a compilation of several examples of molecular biology pro... more Protocols used in Molecular Biology is a compilation of several examples of molecular biology protocols. Each example is presented with a concise introduction, materials and chemicals required, a step-by-step procedure and troubleshooting tips. Information about the application of the protocol is also provided. The techniques included in this book are essential to research in the fields of proteomics, genomics, cell culture, epigenetic modification and structural biology. The protocols can also be used by clinical researchers (neuroscientists and oncologists, for example) for medical applications (diagnostics, therapeutics and multidisciplinary projects).
Cells, 2020
The S100A1 protein, involved in various physiological activities through the binding of calcium i... more The S100A1 protein, involved in various physiological activities through the binding of calcium ions (Ca2+), participates in several protein-protein interaction (PPI) events after Ca2+-dependent activation. The present work investigates Ca2+-dependent conformational changes in the helix-EF hand-helix using the molecular dynamics (MD) simulation approach that facilitates the understanding of Ca2+-dependent structural and dynamic distinctions between the apo and holo forms of the protein. Furthermore, the process of ion binding by inserting Ca2+ into the bulk of the apo structure was simulated by molecular dynamics. Expectations of the simulation were demonstrated using cluster analysis and a variety of structural metrics, such as interhelical angle estimation, solvent accessible surface area, hydrogen bond analysis, and contact analysis. Ca2+ triggered a rise in the interhelical angles of S100A1 on the binding site and solvent accessible surface area. Significant configurational regu...
Scientific reports, May 3, 2017
Utility of syndromic case management (SCM) in women visiting obstetrics & gynecology department n... more Utility of syndromic case management (SCM) in women visiting obstetrics & gynecology department needs to be evaluated as it is subjective and imperfect. Consequently, antibiotic resistance has accelerated along with increased risk of infection to the partners. To understand the effectiveness and/or inadequacies of SCM, 11000 women were recruited and examined by clinicians for infection by Chlamydia trachomatis (CT), Neisseria gonorrhoeae (NG), Trichomonas vaginalis (TV), Bacterial vaginosis (BV) and others. Amongst these patients, 1797 (16.3%) reported vaginal discharge (VD). Other symptoms included: vaginitis (97%), cervicitis (75%), genital ulcers (60%), abnormal vaginal discharge (55%) and lower abdominal pain (48%). The patients were treated for single or co-infections using pre-packed National Aids Control Program III STI/RTI Kits. However, based on PCR diagnostics, 1453/1797 (81%) subjects were uninfected for NG/TV/CT. Amongst 344 (19%) infected patients, 257 (75%) carried inf...
Scientific Reports, 2021
The aim of the present study is to investigate the functional role of TNF-α single-nucleotide pol... more The aim of the present study is to investigate the functional role of TNF-α single-nucleotide polymorphisms/haplotypes in an association with reproductive tract infections (RTIs) in symptomatic and asymptomatic women. A total of 850 consecutive subjects consisting of 400 cases and 450 healthy controls, were screened for RTIs, along with their risk factors and associated symptoms. The propensity score matching was performed to reduce the confounding bias arise owing to covariates and to balance the data between two groups. A total of 211 pairs (1:1) have been created. Genotyping of rs1800629 (-308) and rs361525 (-238) SNPs of TNF-α was done by PCR–RFLP followed by sequencing. The functional implication of TNF-α SNPs in an association with RTIs was also checked by using ELISA. The frequency of -238A allele and -308A allele was found to be twofold (P
medRxiv, 2020
Background: Health Care Workers (HCWs) of diagnostic laboratory handling COVID positive samples a... more Background: Health Care Workers (HCWs) of diagnostic laboratory handling COVID positive samples are at risk and need to take protective measures. Many protective materials were not available when the pandemic reached India forcing laboratory managers to take innovative measures to protect the laboratory staffs. Methods: We made face shields from OHP sheets and substitute of biosafety cabinets from cardboard boxes fitted with hypochlorite spraying devices. Here we present if these two in-house developed safety devices when incorporated in standard operating procedure (SOP) of laboratory safety were effective in clinical biochemistry laboratory of dedicated COVID hospitals. Results: We assessed contamination of laboratory surfaces (n=6) and rate of SARS-nCov-2 positivity from their nasal and throat swab by RT-PCR among laboratory personnel (n=18) after 14 days of their use along with other routine safety devices like use of gloves, surgical masks, OT gowns etc. These HCWs were checked...
BMC Infectious Diseases, 2014
Sonkar et al.: Evaluations of in-house PCR based diagnostic assay using pfoB gene for diagnosis o... more Sonkar et al.: Evaluations of in-house PCR based diagnostic assay using pfoB gene for diagnosis of Trichomonas vaginalis among symptomatic women with vaginal discharge. BMC Infectious Diseases 2014 14(Suppl 3):E47.
Background Antibody testing are often used for serosurveillance of COVID-19. ELISA and Chemilumin... more Background Antibody testing are often used for serosurveillance of COVID-19. ELISA and Chemiluminesence based antibody test are quiet sensitive and specific for such serological testing. Rapid antibody tests are developed and effectively used for this purpose. But their diagnostic efficiency needs to be evaluated. So, the present study was conducted in a dedicated COVID-19 hospital in Delhi, India to evaluate the diagnostic efficacy of a Rapid antibody kit for COVID-19. Material and Method : Sixty COVID-19 confirmed cases by RT-PCR were recruited and categorized as early, intermediate and late cases based on the number of days of their first RT-PCR + ve tests, 20 subjects in each category. Twenty samples from pre-covid era were taken as controls. IgM and IgG antibodies against RBD of spike protein (S) of SARS-CoV2 virus were detected by Rapid antibody test and compared with total antibody against the nucleocapsid (N) antigen of SARS-CoV-2 by Electrochemiluminescence based Immunoassa...
Mushrooms: A Wealth of Nutraceuticals and An Agent of Bioremediation
Malignancies have been among the diseases which claim most of the lives around the globe. They al... more Malignancies have been among the diseases which claim most of the lives around the globe. They also impact the socioeconomic level as well as emotional detriments among the near and dear ones. Various strategies and interventions have been devised to combat these life-threatening conditions. The ill effects associated with synthetic drugs comprising most of the anticancer drugs enforce looking for an alternative source for molecules with therapeutic potential. Mushrooms are one of the most prominent sources of bioactive molecules with diverse medicinal properties. Various mushrooms have shown their ability to inhibit the proliferation of neoplastic cells both in in vitro and in vivo investigations. Mushrooms and their active constituents can affect the various Hallmarks of Cancer. Mushrooms are not only able to inhibit the proliferation of cancer cells, but they also prevent the onset of carcinogenesis. The anti-angiogenic property of various mushrooms is indicated in several resear...
International Journal of Infectious Diseases
The introduction of spacers in coating steroid protein complex and / or enzyme conjugates or immu... more The introduction of spacers in coating steroid protein complex and / or enzyme conjugates or immunogen is known to exert an influence on the sensitivity of steroid enzyme immunoassays. We have introduced different homobifunctional spacers between enzyme and prednisolone (PSL) moiety having atomic length 3 to 10 and studied their influence on functional parameters such as sensitivity and specificity of PSL enzyme immunoassays. In this study, four enzyme conjugates of PSL-21-HS and HRP were prepared by N-Hydroxy Succinimide mediated carbodiimide reaction, these were PSL-21-HS-adipic acid dihydrazide (ADH)-HRP, PSL-21-HS- carbohydrazide (CH)-HRP, PSL-21-HS-ehylenediamine (EDA)-HRP and PSL-21-HS- urea (U)-HRP. The assays were developed using these enzymes conjugate with antibody raised against PSL-21-HS-BSA immunogen. The sensitivity of the PSL assays after insertion of bridge in enzyme conjugate were 1.22 ng/mL, 0.59 ng/mL, 0.48 ng/mL and 0.018 ng/mL with ADH, CH, EDA and urea as space...
Acta Scientific Microbiology
The highlights of the manuscript are • Strengthening the Basics Approaches to protect the lab per... more The highlights of the manuscript are • Strengthening the Basics Approaches to protect the lab personnel in dedicated COVID hospital of Low-Resource Settings. • Designed and developed in-house standard operating procedure (SOP) to fill the gap and evaluate the effect in dedicated COVID-19 hospitals. • Innovative protective devices made from OHP sheets and cardboard boxes fitted with hypochlorite spraying devices as alternatives to biosafety cabinets on contamination of laboratory surfaces. • Performances of the devices were clinically validated and it can be used as alternative in low resources settings.
Frontiers in Analytical Science
Backgrounds: Oxytocin is nowadays used to increase the agricultural products besides its use duri... more Backgrounds: Oxytocin is nowadays used to increase the agricultural products besides its use during the milking of cattle leading to the contamination of agricultural produce and milk with oxytocin. Monitoring of accurate oxytocin contaminations from foodstuffs is sometimes required to maintain the quality standard. The commonly used oxytocin assays in this study were interfered with by the food matrix. There is a need to develop an accurate and confirmed method for monitoring oxytocin contaminations in foodstuffs.Objective: An attempt is made to develop an accurate assay method of oxytocin from milk and agricultural produces.Methods: The acidified methanol was used for the extraction of oxytocin from target food stuff/matrices (agricultural produce and Milk). LC-MS/MS was used for its detection and quantification. In the chromatographic separation, Oxytocin concentration was optimized using selective reaction monitoring (SRM) with heated electrospray ionization (HESI) in positive p...
BioMed Research International, 2015
Neisseria gonorrhoeaeis an important sexually transmitted diseases (STD) causing pathogen worldwi... more Neisseria gonorrhoeaeis an important sexually transmitted diseases (STD) causing pathogen worldwide. Due to absence of an affordable diagnostic assay, routine screening of gonococcal infection becomes impossible in developing countries where infection rates are maximum. Treatment is given on the basis of symptoms alone which leads to spread of infection. Thus, development of a rapid, sensitive, specific, and PCR based visual diagnostic assay suitable for developing countries, required for better disease management, is aimed at in present study. Endocervical swabs were collected from patients visiting gynecology department of various hospitals in Delhi. In-house PCR based assay was developed and modified to visual assay using molecular beacon for end-point detection. It was evaluated against Roche AMPLICOR NG kit andrmpgene. Specificity of beacon was confirmed by competition experiments. Diagnostic test was 98.21% specific and 99.59% sensitive whereas negative and positive predicted ...
Clinica Chimica Acta, 2022
Background and aims: Monoclonal/biclonalgammopathy of unknown significance (MGUS/BGUS) is observe... more Background and aims: Monoclonal/biclonalgammopathy of unknown significance (MGUS/BGUS) is observed in COVID-19. This study was conducted to determine the changes in serum protein electrophoresis (SPEP) in COVID-19. Materials and methods: In this descriptive (cross-sectional) study, serum inflammatory markers (CRP, IL-6 and ferritin) were measured and SPEP was carried out by capillary electrophoresis method in 35 controls and 30 moderate & 58 severe COVID-19 cases. Results: Serum inflammatory markers were increased in COVID-19 cases with severity. M− band(s), β-γ bridging and pre-albumin band(s) on SPEP were observed in 15.5, 11 & 12% of severe cases and 3, 4 & 0% moderate COVID-19 cases respectively. Area under curve (AUC) of α 1 and α 2 bands of SPEP increased significantly in severe COVID-19. Conclusions: We conclude that SPEP changes like the appearance of M− band(s) indicating MGUS(BGUS), β-γ bridging indicating the presence of fast-moving immunoglobulins, pre-albumin band indicating the rise in serum transthyretin level and the increase in AUC of α 1 and α 2 bands indicating the rise in positive acute phase reactants occur in COVID-19. The occurrence and magnitude of these changes are higher in severe COVID-19 than that in moderate COVID-19. The diagnostic and prognostic significance of these SPEP changes are worth exploring.
AJOG Global Reports, 2021
Frontiers in Microbiology
BackgroundAntibody testing is often used for serosurveillance of coronavirus disease 2019 (COVID-... more BackgroundAntibody testing is often used for serosurveillance of coronavirus disease 2019 (COVID-19). Enzyme-linked immunosorbent assay and chemiluminescence-based antibody tests are quite sensitive and specific for such serological testing. Rapid antibody tests against different antigens are developed and effectively used for this purpose. However, their diagnostic efficiency, especially in real-life hospital setting, needs to be evaluated. Thus, the present study was conducted in a dedicated COVID-19 hospital in New Delhi, India, to evaluate the diagnostic efficacy of a rapid antibody kit against the receptor-binding domain (RBD) of the spike protein of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2).MethodsSixty COVID-19 confirmed cases by reverse transcriptase–polymerase chain reaction (RT-PCR) were recruited and categorized as early, intermediate, and late cases based on the days passed after their first RT-PCR–positive test report, with 20 subjects in each categor...
Frontiers in Medicine
The severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) that was first identified in Dec... more The severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) that was first identified in December 2019, in Wuhan, China was found to be the etiological agent for a novel respiratory infection that led to a Coronavirus Induced Disease named COVID-19. The disease spread to pandemic magnitudes within a few weeks and since then we have been dealing with several waves across the world, due to the emergence of variants and novel mutations in this RNA virus. A direct outcome of these variants apart from the spike of cases is the diverse disease presentation and difficulty in employing effective diagnostic tools apart from confusing disease outcomes. Transmissibility rates of the variants, host response, and virus evolution are some of the features found to impact COVID-19 disease management. In this review, we will discuss the emerging variants of SARS-CoV-2, notable mutations in the viral genome, the possible impact of these mutations on detection, disease presentation, and managemen...
Frontiers in Medicine
BackgroundA prospective cohort was conducted to assess the prevalence of seven RTIs/STIs in adole... more BackgroundA prospective cohort was conducted to assess the prevalence of seven RTIs/STIs in adolescent asymptomatic pregnant women to find a significant correlation between infection and pregnancy.MethodsThe study was restricted to 18–19 years of asymptomatic adolescent pregnant women attending Ante-Natal Care and the health status of the pregnant women were followed up to parturition. The health status of the infant was followed till 6 months post-delivery. The prevalence of the concerning pathogens and the significance of their association with adverse outcomes of pregnancy were determined.ResultsAmong 279 subjects, the most significant co-infections were observed for M. hominis with U. parvum (9.31%; p-value–0.0071/OR−2.6421) and U. urealyticum (7.88%; p-value–0.0119/OR−2.6455). Statistically significant associations were found between C. trachomatis [(p-value-0.0439); OR−2.9902] and M. genitalium [(p-value−0.0284); OR−3.442] with PTB, N. gonorrhoeae with LBW <2.5 kg [(p-value...
Protocols used in Molecular Biology is a compilation of several examples of molecular biology pro... more Protocols used in Molecular Biology is a compilation of several examples of molecular biology protocols. Each example is presented with a concise introduction, materials and chemicals required, a step-by-step procedure and troubleshooting tips. Information about the application of the protocol is also provided. The techniques included in this book are essential to research in the fields of proteomics, genomics, cell culture, epigenetic modification and structural biology. The protocols can also be used by clinical researchers (neuroscientists and oncologists, for example) for medical applications (diagnostics, therapeutics and multidisciplinary projects).
Cells, 2020
The S100A1 protein, involved in various physiological activities through the binding of calcium i... more The S100A1 protein, involved in various physiological activities through the binding of calcium ions (Ca2+), participates in several protein-protein interaction (PPI) events after Ca2+-dependent activation. The present work investigates Ca2+-dependent conformational changes in the helix-EF hand-helix using the molecular dynamics (MD) simulation approach that facilitates the understanding of Ca2+-dependent structural and dynamic distinctions between the apo and holo forms of the protein. Furthermore, the process of ion binding by inserting Ca2+ into the bulk of the apo structure was simulated by molecular dynamics. Expectations of the simulation were demonstrated using cluster analysis and a variety of structural metrics, such as interhelical angle estimation, solvent accessible surface area, hydrogen bond analysis, and contact analysis. Ca2+ triggered a rise in the interhelical angles of S100A1 on the binding site and solvent accessible surface area. Significant configurational regu...
Scientific reports, May 3, 2017
Utility of syndromic case management (SCM) in women visiting obstetrics & gynecology department n... more Utility of syndromic case management (SCM) in women visiting obstetrics & gynecology department needs to be evaluated as it is subjective and imperfect. Consequently, antibiotic resistance has accelerated along with increased risk of infection to the partners. To understand the effectiveness and/or inadequacies of SCM, 11000 women were recruited and examined by clinicians for infection by Chlamydia trachomatis (CT), Neisseria gonorrhoeae (NG), Trichomonas vaginalis (TV), Bacterial vaginosis (BV) and others. Amongst these patients, 1797 (16.3%) reported vaginal discharge (VD). Other symptoms included: vaginitis (97%), cervicitis (75%), genital ulcers (60%), abnormal vaginal discharge (55%) and lower abdominal pain (48%). The patients were treated for single or co-infections using pre-packed National Aids Control Program III STI/RTI Kits. However, based on PCR diagnostics, 1453/1797 (81%) subjects were uninfected for NG/TV/CT. Amongst 344 (19%) infected patients, 257 (75%) carried inf...
Scientific Reports, 2021
The aim of the present study is to investigate the functional role of TNF-α single-nucleotide pol... more The aim of the present study is to investigate the functional role of TNF-α single-nucleotide polymorphisms/haplotypes in an association with reproductive tract infections (RTIs) in symptomatic and asymptomatic women. A total of 850 consecutive subjects consisting of 400 cases and 450 healthy controls, were screened for RTIs, along with their risk factors and associated symptoms. The propensity score matching was performed to reduce the confounding bias arise owing to covariates and to balance the data between two groups. A total of 211 pairs (1:1) have been created. Genotyping of rs1800629 (-308) and rs361525 (-238) SNPs of TNF-α was done by PCR–RFLP followed by sequencing. The functional implication of TNF-α SNPs in an association with RTIs was also checked by using ELISA. The frequency of -238A allele and -308A allele was found to be twofold (P
medRxiv, 2020
Background: Health Care Workers (HCWs) of diagnostic laboratory handling COVID positive samples a... more Background: Health Care Workers (HCWs) of diagnostic laboratory handling COVID positive samples are at risk and need to take protective measures. Many protective materials were not available when the pandemic reached India forcing laboratory managers to take innovative measures to protect the laboratory staffs. Methods: We made face shields from OHP sheets and substitute of biosafety cabinets from cardboard boxes fitted with hypochlorite spraying devices. Here we present if these two in-house developed safety devices when incorporated in standard operating procedure (SOP) of laboratory safety were effective in clinical biochemistry laboratory of dedicated COVID hospitals. Results: We assessed contamination of laboratory surfaces (n=6) and rate of SARS-nCov-2 positivity from their nasal and throat swab by RT-PCR among laboratory personnel (n=18) after 14 days of their use along with other routine safety devices like use of gloves, surgical masks, OT gowns etc. These HCWs were checked...
BMC Infectious Diseases, 2014
Sonkar et al.: Evaluations of in-house PCR based diagnostic assay using pfoB gene for diagnosis o... more Sonkar et al.: Evaluations of in-house PCR based diagnostic assay using pfoB gene for diagnosis of Trichomonas vaginalis among symptomatic women with vaginal discharge. BMC Infectious Diseases 2014 14(Suppl 3):E47.
Background Antibody testing are often used for serosurveillance of COVID-19. ELISA and Chemilumin... more Background Antibody testing are often used for serosurveillance of COVID-19. ELISA and Chemiluminesence based antibody test are quiet sensitive and specific for such serological testing. Rapid antibody tests are developed and effectively used for this purpose. But their diagnostic efficiency needs to be evaluated. So, the present study was conducted in a dedicated COVID-19 hospital in Delhi, India to evaluate the diagnostic efficacy of a Rapid antibody kit for COVID-19. Material and Method : Sixty COVID-19 confirmed cases by RT-PCR were recruited and categorized as early, intermediate and late cases based on the number of days of their first RT-PCR + ve tests, 20 subjects in each category. Twenty samples from pre-covid era were taken as controls. IgM and IgG antibodies against RBD of spike protein (S) of SARS-CoV2 virus were detected by Rapid antibody test and compared with total antibody against the nucleocapsid (N) antigen of SARS-CoV-2 by Electrochemiluminescence based Immunoassa...