60 results on '"Ramachandran, Thiruvengadam"'
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2. Perspectives and guidance for developing artificial intelligence-based applications for healthcare using medical images [version 1; peer review: awaiting peer review]
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Bapu Koundinya Desiraju, Ramachandran Thiruvengadam, Nitya Wadhwa, Ashok Khurana, Aris T Papageorghiou, J. Alison Noble, and Shinjini Bhatnagar
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Opinion Article ,Articles ,Medical imaging ,Artificial intelligence ,AI in healthcare ,Guide ,Introduction ,Rules of thumb - Abstract
Artificial intelligence (AI) has significant potential to transform healthcare and improve patient care. However, successful development and integration of AI models requires careful consideration of study designs and sample size calculations for development and validation of models, publishing standards, prototype development for translation and collaboration with stakeholders. As the field is relatively new and rapidly evolving there is a lack of guidance and agreement on best practices for most of these steps. We engaged stakeholders in the form of clinicians, researchers from academia and industry, and data scientists to discuss various aspects of the translational pipeline and identified the challenges researchers in the field face and potential solutions to them. In this viewpoint, we present the summary of our discussions as a brief guide on the process of developing AI-based applications for healthcare using medical images. We organized the entire process into six major themes (i.e., The gaps AI can fill in healthcare, Development of AI models for healthcare: practical and important things to consider, Good practices for validation of AI models for healthcare: study designs and sample size calculation, Points to consider when publishing AI models, Translation towards products, Challenges and potential solutions from a technical perspective) and presented important points as a rule of thumb. We conclude that successful integration of AI in healthcare requires a collaborative approach, rigorous validation, adherence to best practices as described and cited, and consideration of technical aspects.
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- 2024
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3. A quest for universal anti-SARS-CoV-2 T cell assay: systematic review, meta-analysis, and experimental validation
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Akshay Binayke, Aymaan Zaheer, Siddhesh Vishwakarma, Savita Singh, Priyanka Sharma, Rucha Chandwaskar, Mudita Gosain, Sreevatsan Raghavan, Deepika Rathna Murugesan, Pallavi Kshetrapal, Ramachandran Thiruvengadam, Shinjini Bhatnagar, Anil Kumar Pandey, Pramod Kumar Garg, and Amit Awasthi
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Immunologic diseases. Allergy ,RC581-607 ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Abstract Measuring SARS-CoV-2-specific T cell responses is crucial to understanding an individual’s immunity to COVID-19. However, high inter- and intra-assay variability make it difficult to define T cells as a correlate of protection against COVID-19. To address this, we performed systematic review and meta-analysis of 495 datasets from 94 original articles evaluating SARS-CoV-2-specific T cell responses using three assays – Activation Induced Marker (AIM), Intracellular Cytokine Staining (ICS), and Enzyme-Linked Immunospot (ELISPOT), and defined each assay’s quantitative range. We validated these ranges using samples from 193 SARS-CoV-2-exposed individuals. Although IFNγ ELISPOT was the preferred assay, our experimental validation suggested that it under-represented the SARS-CoV-2-specific T cell repertoire. Our data indicate that a combination of AIM and ICS or FluoroSpot assay would better represent the frequency, polyfunctionality, and compartmentalization of the antigen-specific T cell responses. Taken together, our results contribute to defining the ranges of antigen-specific T cell assays and propose a choice of assay that can be employed to better understand the cellular immune response against viral diseases.
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- 2024
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4. Clinical and experimental evidence suggest omicron variant of SARS-CoV-2 is inherently less pathogenic than delta variant independent of previous immunity
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Ramachandran Thiruvengadam, Zaigham Abbas Rizvi, Sreevatsan Raghavan, Deepika Rathna Murugesan, Mudita Gosain, Jyotsna Dandotiya, Ayushi, Sweety Samal, Anil K. Pandey, Nitya Wadhwa, Shinjini Bhatnagar, Amit Awasthi, and Pramod Kumar Garg
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Omicron ,SARS-CoV-2 ,COVID-19 ,hamster ,hACE2 transgenic mice ,Medicine - Abstract
Abstract Objectives To study clinical disease outcomes in both human and animal models to understand the pathogenicity of omicron compared to the delta variant. Methods In this cross-sectional observational study, clinical outcomes of adults who tested positive at 2 testing centres in Delhi National Capital Region between January 2022 and March 2022 (omicron-infected; N = 2998) were compared to a similar geographical cohort (delta-infected; N = 3292). In addition, disease course and outcomes were studied in SARS-CoV-2-infected golden Syrian hamsters and K-18 humanized ACE2 transgenic mice. Results Omicron variant infection was associated with a milder clinical course [83% (95% CI 61, 94) reduced risk of severity compared against delta] adjusting for vaccination, age, sex, prior infection and occupational risk. This correlated with lower disease index and vir comparing omicron with other variants in animal models. Conclusions Infections caused by the omicron variant were milder compared to those caused by the delta variant independent of previous immunity.
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- 2023
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5. Severity and mortality associated with COVID-19 among children hospitalised in tertiary care centres in India: a cohort studyResearch in context
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Vidushi Gupta, Amitabh Singh, Sheetal Ganju, Raghvendra Singh, Ramachandran Thiruvengadam, Uma Chandra Mouli Natchu, Nitesh Gupta, Deepali Kaushik, Surbhi Chanana, Dharmendra Sharma, Mudita Gosain, Suman PN. Rao, Narendra Pandey, Arvind Gupta, Sandeep Singh, Urmila Jhamb, Lalitha Annayappa Venkatesh, Chitra Dinakar, Anil Kumar Pandey, Rani Gera, Harish Chellani, Nitya Wadhwa, and Shinjini Bhatnagar
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Child ,Severe COVID-19 disease ,MIS-C ,Mortality ,LMICs ,Public aspects of medicine ,RA1-1270 - Abstract
Summary: Background: It is critical to identify high-risk groups among children with COVID-19 from low-income and middle-income countries (LMICs) to facilitate the optimum use of health system resources. The study aims to describe the severity and mortality of different clinical phenotypes of COVID-19 in a large cohort of children admitted to tertiary care hospitals in India. Methods: Children aged 0–19 years with evidence of SARS-CoV-2 infection (real time polymerase chain reaction or rapid antigen test positive) or exposure (anti-SARS-CoV-2 antibody, or history of contact with SARS-CoV-2) were enrolled in the study, between January 2021 and March 2022 across five tertiary hospitals in India. All study participants enrolled prospectively and retrospectively were followed up for three months after discharge. COVID-19 was classified into severe (Multisystem Inflammatory Syndrome in Children (MIS-C), severe acute COVID-19, ‘unclassified’) or non-severe disease. The mortality rates were estimated in different phenotypes. Findings: Among 2468 eligible children enrolled, 2148 were hospitalised. Signs of illness were present in 1688 (79%) children with 1090 (65%) having severe disease. High mortality was reported in MIS-C (18.6%), severe acute COVID-19 (13.3%) and the unclassified severe COVID-19 disease (12.3%). Mortality remained high (17.5%) when modified MIS-C criteria was used. Non-severe COVID-19 disease had 14.1% mortality when associated with comorbidity. Interpretation: Our findings have important public health implications for low resource settings. The high mortality underscores the need for better preparedness for timely diagnosis and management of COVID-19. Children with associated comorbidity or coinfections are a vulnerable group and need special attention. MIS-C requires context specific diagnostic criteria for low resource settings. It is important to evaluate the clinical, epidemiological and health system-related risk factors associated with severe COVID-19 and mortality in children from LMICs. Funding: Department of Biotechnology, Govt of India and Department of Maternal, Child and Adolescent Health and Aging, WHO, Geneva, Switzerland.
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- 2023
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6. Studying the post-COVID-19 condition: research challenges, strategies, and importance of Core Outcome Set development
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Daniel Munblit, Timothy R. Nicholson, Dale M. Needham, Nina Seylanova, Callum Parr, Jessica Chen, Alisa Kokorina, Louise Sigfrid, Danilo Buonsenso, Shinjini Bhatnagar, Ramachandran Thiruvengadam, Ann M. Parker, Jacobus Preller, Sergey Avdeev, Frederikus A. Klok, Allison Tong, Janet V. Diaz, Wouter De Groote, Nicoline Schiess, Athena Akrami, Frances Simpson, Piero Olliaro, Christian Apfelbacher, Regis Goulart Rosa, Jennifer R. Chevinsky, Sharon Saydah, Jochen Schmitt, Alla Guekht, Sarah L. Gorst, Jon Genuneit, Luis Felipe Reyes, Alan Asmanov, Margaret E. O’Hara, Janet T. Scott, Melina Michelen, Charitini Stavropoulou, John O. Warner, Margaret Herridge, and Paula R. Williamson
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COVID-19 ,COVID-19 sequalae ,Long COVID ,Post-acute sequelae of SARS-CoV-2 infection ,PASC ,Post-COVID-19 condition ,Medicine - Abstract
Abstract Background A substantial portion of people with COVID-19 subsequently experience lasting symptoms including fatigue, shortness of breath, and neurological complaints such as cognitive dysfunction many months after acute infection. Emerging evidence suggests that this condition, commonly referred to as long COVID but also known as post-acute sequelae of SARS-CoV-2 infection (PASC) or post-COVID-19 condition, could become a significant global health burden. Main text While the number of studies investigating the post-COVID-19 condition is increasing, there is no agreement on how this new disease should be defined and diagnosed in clinical practice and what relevant outcomes to measure. There is an urgent need to optimise and standardise outcome measures for this important patient group both for clinical services and for research and to allow comparing and pooling of data. Conclusions A Core Outcome Set for post-COVID-19 condition should be developed in the shortest time frame possible, for improvement in data quality, harmonisation, and comparability between different geographical locations. We call for a global initiative, involving all relevant partners, including, but not limited to, healthcare professionals, researchers, methodologists, patients, and caregivers. We urge coordinated actions aiming to develop a Core Outcome Set (COS) for post-COVID-19 condition in both the adult and paediatric populations.
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- 2022
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7. P650: Genomewide longitudinal DNA methylation profiling of pregnant women and its association with preterm birth outcomes
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Jagyashila Das, Arindam Maitra, Pallavi Kshetrapal, Nitya Wadhwa, Shinjini Bhatnagar, Ramachandran Thiruvengadam, Partha Majumder, Uma Chandramouli Natchu, Indranil Bagchi, and Shekhar Ghosh
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Genetics ,QH426-470 ,Medicine - Published
- 2023
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8. Developing Clinical Artificial Intelligence for Obstetric Ultrasound to Improve Access in Underserved Regions: Protocol for a Computer-Assisted Low-Cost Point-of-Care UltraSound (CALOPUS) Study
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Alice Self, Qingchao Chen, Bapu Koundinya Desiraju, Sumeet Dhariwal, Alexander D Gleed, Divyanshu Mishra, Ramachandran Thiruvengadam, Varun Chandramohan, Rachel Craik, Elizabeth Wilden, Ashok Khurana, Shinjini Bhatnagar, Aris T Papageorghiou, and J Alison Noble
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Medicine ,Computer applications to medicine. Medical informatics ,R858-859.7 - Abstract
BackgroundThe World Health Organization recommends a package of pregnancy care that includes obstetric ultrasound scans. There are significant barriers to universal access to antenatal ultrasound, particularly because of the cost and need for maintenance of ultrasound equipment and a lack of trained personnel. As low-cost, handheld ultrasound devices have become widely available, the current roadblock is the global shortage of health care providers trained in obstetric scanning. ObjectiveThe aim of this study is to improve pregnancy and risk assessment for women in underserved regions. Therefore, we are undertaking the Computer-Assisted Low-Cost Point-of-Care UltraSound (CALOPUS) project, bringing together experts in machine learning and clinical obstetric ultrasound. MethodsIn this prospective study conducted in two clinical centers (United Kingdom and India), participating pregnant women were scanned and full-length ultrasounds were performed. Each woman underwent 2 consecutive ultrasound scans. The first was a series of simple, standardized ultrasound sweeps (the CALOPUS protocol), immediately followed by a routine, full clinical ultrasound examination that served as the comparator. We describe the development of a simple-to-use clinical protocol designed for nonexpert users to assess fetal viability, detect the presence of multiple pregnancies, evaluate placental location, assess amniotic fluid volume, determine fetal presentation, and perform basic fetal biometry. The CALOPUS protocol was designed using the smallest number of steps to minimize redundant information, while maximizing diagnostic information. Here, we describe how ultrasound videos and annotations are captured for machine learning. ResultsOver 5571 scans have been acquired, from which 1,541,751 label annotations have been performed. An adapted protocol, including a low pelvic brim sweep and a well-filled maternal bladder, improved visualization of the cervix from 28% to 91% and classification of placental location from 82% to 94%. Excellent levels of intra- and interannotator agreement are achievable following training and standardization. ConclusionsThe CALOPUS study is a unique study that uses obstetric ultrasound videos and annotations from pregnancies dated from 11 weeks and followed up until birth using novel ultrasound and annotation protocols. The data from this study are being used to develop and test several different machine learning algorithms to address key clinical diagnostic questions pertaining to obstetric risk management. We also highlight some of the challenges and potential solutions to interdisciplinary multinational imaging collaboration. International Registered Report Identifier (IRRID)RR1-10.2196/37374
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- 2022
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9. Comparison of first trimester dating methods for gestational age estimation and their implication on preterm birth classification in a North Indian cohort
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Ramya Vijayram, Nikhita Damaraju, Ashley Xavier, Bapu Koundinya Desiraju, Ramachandran Thiruvengadam, Sumit Misra, Shilpa Chopra, Ashok Khurana, Nitya Wadhwa, GARBH-Ini Study Group, Raghunathan Rengaswamy, Himanshu Sinha, and Shinjini Bhatnagar
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Gestational age ,Crown-rump length ,CRL ,Preterm birth ,Last menstrual period ,GARBH-Ini ,Gynecology and obstetrics ,RG1-991 - Abstract
Abstract Background Different formulae have been developed globally to estimate gestational age (GA) by ultrasonography in the first trimester of pregnancy. In this study, we develop an Indian population-specific dating formula and compare its performance with published formulae. Finally, we evaluate the implications of the choice of dating method on preterm birth (PTB) rate. This study’s data was from GARBH-Ini, an ongoing pregnancy cohort of North Indian women to study PTB. Methods Comparisons between ultrasonography-Hadlock and last menstrual period (LMP) based dating methods were made by studying the distribution of their differences by Bland-Altman analysis. Using data-driven approaches, we removed data outliers more efficiently than by applying clinical parameters. We applied advanced machine learning algorithms to identify relevant features for GA estimation and developed an Indian population-specific formula (Garbhini-GA1) for the first trimester. PTB rates of Garbhini-GA1 and other formulae were compared by estimating sensitivity and accuracy. Results Performance of Garbhini-GA1 formula, a non-linear function of crown-rump length (CRL), was equivalent to published formulae for estimation of first trimester GA (LoA, − 0.46,0.96 weeks). We found that CRL was the most crucial parameter in estimating GA and no other clinical or socioeconomic covariates contributed to GA estimation. The estimated PTB rate across all the formulae including LMP ranged 11.27–16.50% with Garbhini-GA1 estimating the least rate with highest sensitivity and accuracy. While the LMP-based method overestimated GA by 3 days compared to USG-Hadlock formula; at an individual level, these methods had less than 50% agreement in the classification of PTB. Conclusions An accurate estimation of GA is crucial for the management of PTB. Garbhini-GA1, the first such formula developed in an Indian setting, estimates PTB rates with higher accuracy, especially when compared to commonly used Hadlock formula. Our results reinforce the need to develop population-specific gestational age formulae.
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- 2021
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10. Sub-optimal neutralisation of omicron (B.1.1.529) variant by antibodies induced by vaccine alone or SARS-CoV-2 Infection plus vaccine (hybrid immunity) post 6-months
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Guruprasad R Medigeshi, Gaurav Batra, Deepika Rathna Murugesan, Ramachandran Thiruvengadam, Souvick Chattopadhyay, Bhabatosh Das, Mudita Gosain, Ayushi, Janmejay Singh, Anantharaj Anbalagan, Heena Shaman, Kamal Pargai, Farha Mehdi, Soon Jyoti Das, Namrata Kahlon, Savita Singh, Pallavi Kshetrapal, Nitya Wadhwa, Anil K Pandey, Shinjini Bhatnagar, and Pramod Kumar Garg
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SARS-CoV-2 ,Omicron ,Live-virus neutralisation ,Covaxin ,ChAdOx1 nCoV-19 ,Covishield ,Medicine ,Medicine (General) ,R5-920 - Abstract
Summary: Background: Rapid spread of the omicron SARS-CoV-2 variant despite extensive vaccination suggests immune escape. The neutralising ability of different vaccines alone or with natural SARS-CoV-2 infection against omicron is not well-known. Methods: In this cross-sectional study, we tested the ability of vaccine and natural infection induced antibodies to neutralise omicron variant in a live virus neutralisation assay in four groups of individuals: (i) ChAdOx1 nCoV-19 vaccination, (ii) ChAdOx1 nCoV-19 vaccination plus prior SARS-CoV-2 infection, (iii) vaccination with inactivated virus vaccine (BBV152), and (iv) BBV152 vaccination plus prior SARS-CoV-2 infection. Primary outcome was fold-change in virus neutralisation titre against omicron compared with ancestral virus. Findings: We included 80 subjects. The geometric mean titre (GMT) of the 50% focus reduction neutralisation test (FRNT50) was 380·4 (95% CI: 221·1, 654·7) against the ancestral virus with BBV152 vaccination and 379·3 (95% CI: 185·6, 775·2) with ChAdOx1 nCov-19 vaccination alone. GMT for vaccination plus infection groups were 806·1 (95% CI: 478·5, 1357·8) and 1526·2 (95% CI: 853·2, 2730·0), respectively. Against omicron variant, only 5 out of 20 in both BBV152 and ChAdOx1 nCoV-19 vaccine only groups, 6 out of 20 in BBV152 plus prior SARS-CoV-2 infection group, and 9 out of 20 in ChAdOx1 nCoV-19 plus prior SARS-CoV-2 infection group exhibited neutralisation titres above the lower limit of quantification (1:20) suggesting better neutralisation with prior infection. A reduction of 26·6 and 25·7 fold in FRNT50 titres against Omicron compared to ancestral SARS-CoV-2 strain was observed for individuals without prior SARS-CoV-2 infection vaccinated with BBV152 and ChAdOx1 nCoV-19, respectively. The corresponding reduction was 57·1 and 58·1 fold, respectively, for vaccinated individuals with prior infection. The 50% neutralisation titre against omicron demonstrated moderate correlation with serum anti-RBD IgG levels [Spearman r: 0·58 (0·41, 0·71)]. Interpretation: Significant reduction in the neutralising ability of both vaccine-induced and vaccine plus infection-induced antibodies was observed for omicron variant which might explain immune escape. Funding: Department of Biotechnology, India; Bill & Melinda Gates Foundation, USA
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- 2022
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11. A combination of potently neutralizing monoclonal antibodies isolated from an Indian convalescent donor protects against the SARS-CoV-2 Delta variant.
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Nitin Hingankar, Suprit Deshpande, Payel Das, Zaigham Abbas Rizvi, Constantinos Kurt Wibmer, Poppy Mashilo, Mohammed Yousuf Ansari, Alison Burns, Shawn Barman, Fangzhu Zhao, Sohini Mukherjee, Jonathan L Torres, Souvick Chattopadhyay, Farha Mehdi, Jyoti Sutar, Deepak Kumar Rathore, Kamal Pargai, Janmejay Singh, Sudipta Sonar, Kamini Jakhar, Jyotsna Dandotiya, Sankar Bhattacharyya, Shailendra Mani, Sweety Samal, Savita Singh, Pallavi Kshetrapal, Ramachandran Thiruvengadam, Gaurav Batra, Guruprasad Medigeshi, Andrew B Ward, Shinjini Bhatnagar, Amit Awasthi, Devin Sok, and Jayanta Bhattacharya
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Immunologic diseases. Allergy ,RC581-607 ,Biology (General) ,QH301-705.5 - Abstract
Although efficacious vaccines have significantly reduced the morbidity and mortality of COVID-19, there remains an unmet medical need for treatment options, which monoclonal antibodies (mAbs) can potentially fill. This unmet need is exacerbated by the emergence and spread of SARS-CoV-2 variants of concern (VOCs) that have shown some resistance to vaccine responses. Here we report the isolation of five neutralizing mAbs from an Indian convalescent donor, out of which two (THSC20.HVTR04 and THSC20.HVTR26) showed potent neutralization of SARS-CoV-2 VOCs at picomolar concentrations, including the Delta variant (B.1.617.2). One of these (THSC20.HVTR26) also retained activity against the Omicron variant. These two mAbs target non-overlapping epitopes on the receptor-binding domain (RBD) of the spike protein and prevent virus attachment to its host receptor, human angiotensin converting enzyme-2 (hACE2). Furthermore, the mAb cocktail demonstrated protection against the Delta variant at low antibody doses when passively administered in the K18 hACE2 transgenic mice model, highlighting their potential as a cocktail for prophylactic and therapeutic applications. Developing the capacity to rapidly discover and develop mAbs effective against highly transmissible pathogens like coronaviruses at a local level, especially in a low- and middle-income country (LMIC) such as India, will enable prompt responses to future pandemics as an important component of global pandemic preparedness.
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- 2022
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12. The Vaginal Microbial Signatures of Preterm Birth Delivery in Indian Women
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Shakti Kumar, Naina Kumari, Daizee Talukdar, Akansha Kothidar, Mousumi Sarkar, Ojasvi Mehta, Pallavi Kshetrapal, Nitya Wadhwa, Ramachandran Thiruvengadam, Bapu Koundinya Desiraju, G. Balakrish Nair, Shinjini Bhatnagar, Souvik Mukherjee, Bhabatosh Das, GARBH-Ini Study Group, Vineeta Bal, Sumit Misra, Uma Chandra Mouli Natchu, Satyajit Rath, Kanika Sachdeva, Dharmendra Sharma, Amanpreet Singh, Shailaja Sopory, Arindam Maitra, Partha P. Majumder, Tushar K. Maiti, Monika Bahl, Shubra Bansal, Umesh Mehta, Sunita Sharma, Brahmdeep Sindhu, Sugandha Arya, Rekha Bharti, Harish Chellani, Pratima Mittal, Anju Garg, Siddharth Ramji, Ashok Khurana, Reva Tripathi, Yashdeep Gupta, Smriti Hari, Nikhil Tandon, Rakesh Gupta, Dinakar M. Salunke, and G Balakrish Nair
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vaginal microbiota ,microbial ecology ,Lactobacillus ,preterm birth ,16S rRNA gene sequencing ,Microbiology ,QR1-502 - Abstract
BackgroundThe incidence of preterm birth (PTB) in India is around 13%. Specific bacterial communities or individual taxon living in the vaginal milieu of pregnant women is a potential risk factor for PTB and may play an important role in its pathophysiology. Besides, bacterial taxa associated with PTB vary across populations.ObjectiveConduct a comparative analysis of vaginal microbiome composition and microbial genomic repertoires of women who enrolled in the Interdisciplinary Group for Advanced Research on Birth Outcomes – A DBT India Initiative (GARBH-Ini) pregnancy cohort to identify bacterial taxa associated with term birth (TB) and PTB in Indian women.MethodsVaginal swabs were collected during all three trimesters from 38 pregnant Indian women who delivered spontaneous term (n=20) and preterm (n=18) neonates. Paired-end sequencing of V3-V4 region of 16S rRNA gene was performed using the metagenomic DNA isolated from vaginal swabs (n=115). Whole genome sequencing of bacterial species associated with birth outcomes was carried out by shotgun method. Lactobacillus species were grown anaerobically in the De Man, Rogosa and Sharpe (MRS) agar culture medium for isolation of genomic DNA and whole genome sequencing.ResultsVaginal microbiome of both term and preterm samples reveals similar alpha diversity indices. However, significantly higher abundance of Lactobacillus iners (p-value All_Trimesters
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- 2021
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13. Development of a Fast SARS-CoV-2 IgG ELISA, Based on Receptor-Binding Domain, and Its Comparative Evaluation Using Temporally Segregated Samples From RT-PCR Positive Individuals
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Farha Mehdi, Souvick Chattopadhyay, Ramachandran Thiruvengadam, Sarla Yadav, Manjit Kumar, Sangita Kumari Sinha, Sandeep Goswami, Pallavi Kshetrapal, Nitya Wadhwa, Uma Chandramouli Natchu, Shailaja Sopory, Bapu Koundinya Desiraju, Anil K. Pandey, Asim Das, Nikhil Verma, Nandini Sharma, Pragya Sharma, Vandita Bhartia, Mudita Gosain, Rakesh Lodha, Urpo Lamminmäki, Tripti Shrivastava, Shinjini Bhatnagar, and Gaurav Batra
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receptor binding domain ,ELISA ,SARS-CoV-2 ,SARS-CoV-2 IgG antibodies ,diagnostics ,COVID-19 ,Microbiology ,QR1-502 - Abstract
SARS-CoV-2 antibody detection assays are crucial for gathering seroepidemiological information and monitoring the sustainability of antibody response against the virus. The SARS-CoV-2 Spike protein’s receptor-binding domain (RBD) is a very specific target for anti-SARS-CoV-2 antibodies detection. Moreover, many neutralizing antibodies are mapped to this domain, linking antibody response to RBD with neutralizing potential. Detection of IgG antibodies, rather than IgM or total antibodies, against RBD is likely to play a larger role in understanding antibody-mediated protection and vaccine response. Here we describe a rapid and stable RBD-based IgG ELISA test obtained through extensive optimization of the assay components and conditions. The test showed a specificity of 99.79% (95% CI: 98.82–99.99%) in a panel of pre-pandemic samples (n = 470) from different groups, i.e., pregnancy, fever, HCV, HBV, and autoantibodies positive. Test sensitivity was evaluated using sera from SARS-CoV-2 RT-PCR positive individuals (n = 312) and found to be 53.33% (95% CI: 37.87–68.34%), 80.47% (95% CI: 72.53–86.94%), and 88.24% (95% CI: 82.05–92.88%) in panel 1 (days 0–13), panel 2 (days 14–20) and panel 3 (days 21–27), respectively. Higher sensitivity was achieved in symptomatic individuals and reached 92.14% (95% CI: 86.38–96.01%) for panel 3. Our test, with a shorter runtime, showed higher sensitivity than parallelly tested commercial ELISAs for SARS-CoV-2-IgG, i.e., Euroimmun and Zydus, even when equivocal results in the commercial ELISAs were considered positive. None of the tests, which are using different antigens, could detect anti-SARS-CoV-2 IgGs in 10.5% RT-PCR positive individuals by the fourth week, suggesting the lack of IgG response.
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- 2021
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14. Ancestral SARS-CoV-2-Driven Antibody Repertoire Diversity in an Unvaccinated Individual Correlates with Expanded Neutralization Breadth
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Suprit Deshpande, Mohammed Yousuf Ansari, Jyoti Sutar, Payel Das, Nitin Hingankar, Sohini Mukherjee, Priyanka Jayal, Savita Singh, Anbalagan Anantharaj, Janmejay Singh, Souvick Chattopadhyay, Sreevatsan Raghavan, Mudita Gosain, Supriya Chauhan, Shweta Shrivas, Chaman Prasad, Sangeeta Chauhan, Neha Sharma, Pradipta Jana, Ramachandran Thiruvengadam, Pallavi Kshetrapal, Nitya Wadhwa, Bhabatosh Das, Gaurav Batra, Guruprasad Medigeshi, Devin Sok, Shinjini Bhatnagar, Pramod Kumar Garg, and Jayanta Bhattacharya
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Microbiology (medical) ,Infectious Diseases ,General Immunology and Microbiology ,Ecology ,Physiology ,Genetics ,Cell Biology - Abstract
Understanding the quality of immune repertoire triggered during natural infection can provide vital clues that form the basis for development of humoral immune response in some individuals capable of broadly neutralizing pan SARS-CoV-2 variants. We assessed the diversity of neutralizing antibody responses developed in an unvaccinated individual infected with ancestral SARS-CoV-2 by examining the ability of the distinct B cell germline-derived monoclonal antibodies (mAbs) in neutralizing known and currently circulating Omicron variants by pseudovirus and authentic virus neutralization assays. The ability of the antibodies developed post vaccination in neutralizing Omicron variants was compared to that obtained at baseline of the same individual and to those obtained from Omicron breakthrough infected individuals by pseudovirus neutralization assay. Broadly SARS-CoV-2 neutralizing mAbs representing unique B cell lineages with non-overlapping epitope specificities isolated from a single donor varied in their ability to neutralize Omicron variants. Plasma antibodies developed post vaccination from this individual demonstrated neutralization of Omicron BA.1, BA.2 and BA.4 with increased magnitude and found to be comparable with those obtained from other vaccinated individuals who were infected with ancestral SARS-CoV-2. Development of B cell repertoire capable of producing antibodies with distinct affinity and specificities for the antigen immediately after infection capable of eliciting broadly neutralizing antibodies offers highest probability in protecting against evolving SARS-CoV-2 variants.ImportanceDevelopment of robust neutralizing antibodies in SARS-CoV-2 convalescent individuals is known, however varies at population level. We isolated monoclonal antibodies from an individual infected with ancestral SARS-CoV-2 in early 2020 that not only varied in their B cell lineage origin but also varied in their capability and potency to neutralize all the known VOC and currently circulating Omicron variants. This indicated establishment of unique lineages that contributed in forming B cell repertoire in this particular individual immediately following infection giving rise to diverse antibody responses that could compensate each other in providing broadly neutralizing polyclonal antibody response. Individuals who were able to produce such potent polyclonal antibody responses after infection have a higher chance of being protected from evolving SARS-CoV-2 variants.
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- 2023
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15. Gestational weight gain trajectories in GARBH–Ini pregnancy cohort in North India and a comparative analysis with global references
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Sumit Misra, Neera Parmar, GARBH–Ini study team, Rekha Bharti, Shinjini Bhatnagar, Reva Tripathi, Siddarth Ramji, Mukesh Juyal, Kanika Sachdeva, Ramachandran Thiruvengadam, Bapu Koundinya Desiraju, Nitya Wadhwa, Uma Chandra Mouli Natchu, Pratima Mittal, and Harshpal Singh Sachdev
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Percentile ,Pregnancy ,Nutrition and Dietetics ,business.industry ,Psychological intervention ,Medicine (miscellaneous) ,medicine.disease ,Cohort ,medicine ,Gestation ,medicine.symptom ,business ,Parity (mathematics) ,Body mass index ,Weight gain ,Demography - Abstract
BACKGROUND To describe the pattern of gestational weight gain (GWG), derive reference centiles for GWG specific to North Indian population, and to compare the weight gain across different periods of gestation with the INTERGROWTH-21st reference. METHODS A prospective pregnancy (GARBH-Ini) cohort was initiated and followed between May 2015 and June 2019 in a district hospital, Gurguram, North India. GWG centile curves were modelled by Generalized Additive Models for Location, Scale and Shape method (n = 2844) and compared with INTERGROWTH-21st reference. The independent association of GWG with biological and social predictors was assessed using multivariable regression analysis. RESULTS Percentiles (3rd, 10th, 50th, 90th and 97th) for each completed week from 18-40 weeks of gestation were derived from smoothed centile curves. The median GWG across pregnancy during specific antenatal visits was 1.29 at 18, 4.44 at 26, 5.8 at 30 and 9.06 kg at 40 weeks of gestation. Nearly 26% of participants had GWG
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- 2021
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16. VP35.14: Ultrasound‐based assessment of fetal growth in a North Indian population compared with known growth standards: a hospital‐based longitudinal study
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A. Sachan, Shinjini Bhatnagar, Nitya Wadhwa, K. Desiraju, A. Khurana, K. Kaushal, Ramachandran Thiruvengadam, Sumit Misra, and Shailaja Sopory
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North indian population ,Longitudinal study ,medicine.medical_specialty ,Radiological and Ultrasound Technology ,business.industry ,Obstetrics ,Ultrasound ,Obstetrics and Gynecology ,General Medicine ,Hospital based ,Reproductive Medicine ,Fetal growth ,Medicine ,Radiology, Nuclear Medicine and imaging ,business - Published
- 2021
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17. Clinical and experimental evidence suggest omicron SARS-CoV-2 is inherently less pathogenic than delta independent of previous immunity
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Ramachandran Thiruvengadam, Zaigham Abbas Rizvi, Sreevatsan Raghavan, Deepika Rathna Murugesan, Mudita Gosain, Jyotsna Dandotiya, Ayushi Ayushi, Sweety Samal, Anil K Pandey, Nitya Wadhwa, Shinjini Bhatnagar, Amit Awasthi, and Pramod Kumar Garg
- Abstract
Objective -To study clinical disease outcomes in both humans and animal models to understand the pathogenicity of omicron compared to delta variant. Methods- In this cross-sectional observational study, clinical outcomes of adults who tested positive at 2 testing centres in Delhi National Capital Region between January 2022 and March 2022 (Omicron infected; N=2998) were compared to a similar geographical cohort (Delta infected; N=3292). Additionally, disease course and outcomes were studied in SARS-CoV2 infected golden Syrian hamster and K-18 humanized ACE2 transgenic mice. Results- Omicron variant infection was associated with milder clinical course [83% (95% CI: 61, 94) reduced risk of severity compared against delta] adjusting for vaccination, age, sex, prior infection and occupational risk. This correlated with lower disease index and viral load scores when comparing omicron with other variants in animal models. Conclusion- Infections caused by the omicron variant is milder compared to delta independent of previous immunity.
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- 2022
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18. Effectiveness of SARS-CoV-2 vaccines in the post-natural infection world
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Pramod Kumar Garg and Ramachandran Thiruvengadam
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COVID-19 Vaccines ,Infectious Diseases ,SARS-CoV-2 ,Case-Control Studies ,COVID-19 ,Humans - Published
- 2022
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19. CD4-Binding Site Directed Cross-Neutralizing scFv Monoclonals from HIV-1 Subtype C Infected Indian Children
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Sanjeev Kumar, Rajesh Kumar, Lubina Khan, Muzamil Ashraf Makhdoomi, Ramachandran Thiruvengadam, Madhav Mohata, Mudit Agarwal, Rakesh Lodha, Sushil Kumar Kabra, Subrata Sinha, and Kalpana Luthra
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human immunodeficiency virus type-1 ,subtype C ,CD4-binding site ,RSC3 core protein ,neutralizing antibodies ,pediatric cross-neutralizers ,Immunologic diseases. Allergy ,RC581-607 - Abstract
Progression of human immunodeficiency virus type-1 (HIV-1) infection in children is faster than adults. HIV-1 subtype C is responsible for more than 50% of the infections globally and more than 90% infections in India. To date, there is no effective vaccine against HIV-1. Recent animal studies and human Phase I trials showed promising results of the protective effect of anti-HIV-1 broadly neutralizing antibodies (bnAbs). Interaction between CD4 binding site (CD4bs) on the HIV-1 envelope glycoprotein and CD4 receptor on the host immune cells is the primary event leading to HIV-1 infection. The CD4bs is a highly conserved region, comprised of a conformational epitope, and is a potential target of bnAbs such as VRC01 that is presently under human clinical trials. Recombinant scFvs can access masked epitopes due to their small size and have shown the potential to inhibit viral replication and neutralize a broad range of viruses. Pediatric viruses are resistant to many of the existing bnAbs isolated from adults. Therefore, in this study, pooled peripheral blood mononuclear cells from 9 chronically HIV-1 subtype C infected pediatric cross-neutralizers whose plasma antibodies exhibited potent and cross-neutralizing activity were used to construct a human anti-HIV-1 scFv phage library of 9 × 108 individual clones. Plasma mapping using CD4bs-specific probes identified the presence of CD4bs directed antibodies in 4 of these children. By extensive biopanning of the library with CD4bs-specific antigen RSC3 core protein, we identified two cross-neutralizing scFv monoclonals 2B10 and 2E4 demonstrating a neutralizing breadth and GMT of 77%, 17.9 µg/ml and 32%, 51.2 µg/ml, respectively, against a panel of 49 tier 1, 2 and 3 viruses. Both scFvs competed with anti-CD4bs bnAb VRC01 confirming their CD4bs epitope specificity. The 2B10 scFv was effective in neutralizing the 7 subtype C and subtype A pediatric viruses tested. Somatic hypermutations in the VH gene of scFvs (10.1–11.1%) is comparable with that of the adult antibodies. These cross-neutralizing CD4bs-directed scFvs can serve as potential reagents for passive immunotherapy. A combination of cross-neutralizing scFvs of diverse specificities with antiretroviral drugs may be effective in suppressing viremia at an early stage of HIV-1 infection and prevent disease progression.
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- 2017
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20. Association of maternal prenatal copper concentration with gestational duration and preterm birth: a multi-country meta-analysis
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Jane Hirst, Ramachandran Thiruvengadam, Jing Chen, and Nagendra Monangi
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BackgroundCopper (Cu), an essential trace mineral regulating multiple actions of inflammation and oxidative stress, has been implicated in risk for preterm birth (PTB). We aimed to determine the association of maternal plasma/serum Cu concentrations during pregnancy with PTB risk and gestational duration in a large multi-cohort study including diverse populations.MethodsGestational duration data and maternal plasma or serum samples of 10,449 singleton live births were obtained from 18 geographically diverse study cohorts. Maternal plasma or serum Cu concentrations were determined by inductively coupled plasma mass spectrometry (ICP-MS) analysis. The associations of maternal Cu with PTB and gestational duration were analyzed using logistic and linear regressions for each cohort. The estimates were then combined using meta-analysis. Associations between maternal Cu and acute phase reactants (APRs), malaria, and HIV infection were analyzed in 1239 samples from the Malawi cohort.FindingsThe maternal prenatal Cu concentration in our study samples followed a normal distribution with a mean of 1.92 μg/ml and a standard deviation of 0.43 μg/ml, and Cu concentrations increased with gestational age up to 20 weeks. The random effect meta-analysis across the 18 cohorts revealed that 1 μg/ml increase in maternal Cu concentration before the third trimester was associated with a higher risk of PTB with an OR of 1.30 (95% CI: 1.08 to 1.57) and shorter gestational duration of 1.64 days (95% CI: 0.56 to 2.73). The estimated effects were generally consistent across all sites. In the Malawi cohort, higher maternal Cu concentration, concentrations of multiple APRs and infections (malaria and HIV) were correlated and associated with greater risk of PTB and shorter gestational duration.InterpretationOur study supports a robust negative association between maternal mid-gestation Cu concentration and gestational duration and a positive association with risk for preterm birth. Cu concentration was strongly correlated with APRs and infection status suggesting its potential role in inflammation, a pathway implicated in the mechanisms of PTB. Therefore, maternal Cu could be used as a potential marker of the integrated inflammatory pathways during pregnancy and risk for preterm birth.
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- 2022
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21. Genetic variants associated with spontaneous preterm birth in women from India: a prospective cohort study
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Esha Bhattacharjee, Ramachandran Thiruvengadam, null Ayushi, Chitrarpita Das, Nitya Wadhwa, Uma Chandra Mouli Natchu, Pallavi Kshetrapal, Shinjini Bhatnagar, Partha Pratim Majumder, Arindam Maitra, Vineeta Bal, Bhabatosh Das, Bapu Koundinya Desiraju, Sumit Misra, Satyajit Rath, Kanika Sachdeva, Dharmendra Sharma, Amanpreet Singh, Shailaja Sopory, Partha P. Majumder, Tushar K. Maiti, Monika Bahl, Shubra Bansal, Umesh Mehta, Sunita Sharma, Brahmdeep Sindhu, Sugandha Arya, Rekha Bharti, Harish Chellani, Pratima Mittal, Anju Garg, Siddharth Ramji, Ashok Khurana, Reva Tripathi, Yashdeep Gupta, Smriti Hari, Nikhil Tandon, Rakesh Gupta, Dinakar M. Salunke, Balakrish G. Nair, and Gagandeep Kang
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- 2023
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22. A core outcome set for post-COVID-19 condition in adults for use in clinical practice and research: an international Delphi consensus study
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Daniel Munblit, Timothy Nicholson, Athena Akrami, Christian Apfelbacher, Jessica Chen, Wouter De Groote, Janet V Diaz, Sarah L Gorst, Nicola Harman, Alisa Kokorina, Piero Olliaro, Callum Parr, Jacobus Preller, Nicoline Schiess, Jochen Schmitt, Nina Seylanova, Frances Simpson, Allison Tong, Dale M Needham, Paula R Williamson, Alla Guekht, Malcolm 'Calum' G. Semple, John O. Warner, Louise Sigfrid, Janet T. Scott, Audrey DunnGalvin, Jon Genuneit, Danilo Buonsenso, Manoj Sivan, Bob Siegerink, Frederikus A. Klok, Sergey Avdeev, Charitini Stavropoulou, Melina Michelen, Olalekan Lee Aiyegbusi, Melanie Calvert, Sarah E. Hughes, Shamil Haroon, Laura Fregonese, Gail Carson, Samuel Knauss, Margaret O'Hara, John Marshall, Margaret Herridge, Srinivas Murthy, Theo Vos, Sarah Wulf Hanson, Ann Parker, Kelly K. O'Brien, Andrea Lerner, Jennifer R. Chevinsky, Elizabeth R. Unger, Robert W. Eisinger, Catherine L. Hough, Sharon Saydah, Jennifer A. Frontera, Regis Goulart Rosa, Bin Cao, Shinjini Bhatnagar, Ramachandran Thiruvengadam, Archana Seahwag, Anouar Bouraoui, Maria Van Kerkhove, Tarun Dua, Pryanka Relan, Juan Soriano Ortiz, and Committee, PC-COS Project Steering
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Pulmonary and Respiratory Medicine - Abstract
Health consequences that persist beyond the acute infection phase of COVID-19, termed post-COVID-19 condition (also commonly known as long COVID), vary widely and represent a growing global health challenge. Research on post-COVID-19 condition is expanding but, at present, no agreement exists on the health outcomes that should be measured in people living with the condition. To address this gap, we conducted an international consensus study, which included a comprehensive literature review and classification of outcomes for post-COVID-19 condition that informed a two-round online modified Delphi process followed by an online consensus meeting to finalise the core outcome set (COS). 1535 participants from 71 countries were involved, with 1148 individuals participating in both Delphi rounds. Eleven outcomes achieved consensus for inclusion in the final COS: fatigue; pain; post-exertion symptoms; work or occupational and study changes; survival; and functioning, symptoms, and conditions for each of cardiovascular, respiratory, nervous system, cognitive, mental health, and physical outcomes. Recovery was included a priori because it was a relevant outcome that was part of a previously published COS on COVID-19. The next step in this COS development exercise will be to establish the instruments that are most appropriate to measure these core outcomes. This international consensus-based COS should provide a framework for standardised assessment of adults with post-COVID-19 condition, aimed at facilitating clinical care and research worldwide.
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- 2022
23. Salivary proteome signatures in the early and middle stages of human pregnancy with term birth outcome
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Amit Kumar Dey, Bhoj Kumar, Abhishek Kumar Singh, Prakash Ranjan, Ramachandran Thiruvengadam, Bapu Koundinya Desiraju, Pallavi Kshetrapal, Nitya Wadhwa, Shinjini Bhatnagar, Faraz Rashid, Dipankar Malakar, Dinakar M. Salunke, Tushar Kanti Maiti, and GARBH-Ini Study Group
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Proteomics ,0301 basic medicine ,Saliva ,Proteome ,Term Birth ,Proteomic analysis ,lcsh:Medicine ,Gestational Age ,Biology ,Bioinformatics ,Mass Spectrometry ,Article ,Cohort Studies ,Prognostic markers ,03 medical and health sciences ,0302 clinical medicine ,Pregnancy ,Protein Interaction Mapping ,medicine ,Humans ,Protein Interaction Maps ,lcsh:Science ,Fetus ,Multidisciplinary ,lcsh:R ,Pregnancy Outcome ,Reproducibility of Results ,Gestational age ,medicine.disease ,030104 developmental biology ,030220 oncology & carcinogenesis ,Gestation ,Female ,lcsh:Q ,Biomarkers - Abstract
The establishment and maintenance of pregnancy in humans proceed through a continuous change of biochemical and biophysical processes. It requires a constant interaction between the fetus and the maternal system. The present prospective study aims to elucidate changes in salivary proteome from the early to middle stages of term pregnancy, and establishing an expressional trajectory for modulated proteins. To date, a comprehensive characterization of the longitudinal salivary proteome in pregnancy has not been performed and it is our immediate interest. In the discovery phase, maternal saliva (N = 20) at 6–13, 18–21, and 26–29 weeks of gestation was analyzed using level-free proteomics (SWATH-MS) approach. The expression levels of 65 proteins were found to change significantly with gestational age and distributed into two distinct clusters with a unique expression trajectory. The results revealed that altered proteins are involved in maternal immune modulation, metabolism, and host defense mechanism. Further, verification of 12 proteins was employed using targeted mass spectrometry (MRM-MS) in a separate subset of saliva (N = 14). The MRM results of 12 selected proteins confirmed a similar expression pattern as in SWATH-MS analysis. Overall, the results not only demonstrate the longitudinal maternal saliva proteome for the first time but also set the groundwork for comparative analysis between term birth and adverse pregnancy outcomes.
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- 2020
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24. Vaginal Microbiome of Pregnant Indian Women: Insights into the Genome of Dominant Lactobacillus Species
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Tarini Shankar Ghosh, Ramachandran Thiruvengadam, Shinjini Bhatnagar, Bhabatosh Das, Ojasvi Mehta, Ridhima Mitra, Pallavi Kshetrapal, Akansha Kothidar, M Rama Gowtham, G. Balakrish Nair, and Nitya Wadhwa
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Adult ,0301 basic medicine ,030106 microbiology ,India ,Soil Science ,Biology ,Genome ,Young Adult ,03 medical and health sciences ,Microbial ecology ,Pregnancy ,RNA, Ribosomal, 16S ,Lactobacillus ,Lactobacillus iners ,Humans ,Bacterial phyla ,Ecology, Evolution, Behavior and Systematics ,Genetics ,Bacteria ,Ecology ,Microbiota ,High vaginal swab ,biology.organism_classification ,RNA, Bacterial ,030104 developmental biology ,Metagenomics ,Vagina ,Pyrosequencing ,Female ,Genome, Bacterial - Abstract
The trillions of microorganisms residing in the human body display varying degrees of compositional and functional diversities within and between individuals and contribute significantly to host physiology and susceptibility to disease. Microbial species present in the vaginal milieu of reproductive age women showed a large personal component and varies widely in different ethnic groups at the taxonomic, genomic, and functional levels. Lactobacillus iners, L. crispatus, L. gasseri, L. jensenii, and L. johnsonii are most frequently detected bacterial species in the vaginal milieu of reproductive age women. However, we currently lack (i) an understanding of the baseline vaginal microbiota of reproductive age Indian women, (ii) the extent of taxonomic and functional variations of vaginal microbiota between individuals and (iii) the genomic repertoires of the dominant vaginal microbiota associated with the Indian subjects. In our study, we analyzed the metagenome of high vaginal swab (HVS) samples collected from 40 pregnant Indian women enrolled in the GARBH-Ini cohort. Composition and abundance of bacterial species was characterized by pyrosequencing 16S rRNA gene. We identified 3067 OTUs with ≥ 10 reads from four different bacterial phyla. Several species of lactobacilli were clustered into three community state types (CSTs). L. iners, L. crispatus, L. gasseri, and L. jensenii are the most frequently detected Lactobacillus species in the vaginal environment of Indian women. Other than Lactobacillus, several species of Halomonas were also identified in the vaginal environment of most of the women sampled. To gain genomic and functional insights, we isolated several Lactobacillus species from the HVS samples and explored their whole genome sequences by shotgun sequencing. We analyzed the genome of dominant Lactobacillus species, L. iners, L. crispatus, L. gasseri, and L. paragesseri to represent the CSTs and identify functions that may influence the composition of complex vaginal microbial ecology. This study reports for the first time the vaginal microbial ecology of Indian women and genomic insights into L. iners, L. crispatus, L. gasseri, and L. paragesseri commonly found in the genital tract of reproductive age women.
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- 2020
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25. Longitudinal changes in serum immune markers during normal pregnancy in a North‐Indian population
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Khushboo, Kaushal, Ayushi, Nikhil, Sharma, Nitya, Wadhwa, Sumit, Misra, Shinjini, Bhatnagar, Bapu Koundinya, Desiraju, Ramachandran, Thiruvengadam, and Shailaja, Sopory
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Vascular Endothelial Growth Factor Receptor-1 ,Reproductive Medicine ,Pregnancy ,Immunology ,Cytokines ,Humans ,Obstetrics and Gynecology ,Immunology and Allergy ,Female ,Gestational Age ,Biomarkers ,Placenta Growth Factor - Abstract
The objective of this study was to examine levels of cytokines across normal term pregnancy in an Indian population. Additionally we have also explored for possible associations between inflammatory markers and fetal growth parameters.A multiplex panel of 24 analytes was used to examine levels of inflammatory markers in maternal serum at three time points during pregnancy and in cord blood from women with no reported comorbidities who delivered a singleton live baby at term (N = 23), enrolled in the GARBH-Ini pregnancy cohort. Linear mixed models were applied to construct longitudinal cytokine trajectories with gestational age. Pearson correlation was used to calculate intra-visit correlation between cytokines. Principal component analysis (PCA) was performed to examine cytokine combinations prevalent across pregnancy, and their association with fetal growth parameters was determined by multivariable regression.Significant increase in sFLT-1, Flt3L, PLGF, IL-4, and IL-18 and a decrease in VCAM-1 concentrations was seen across pregnancy. The cytokine concentrations in cord blood differed substantially as compared to maternal levels across gestation. Some cytokines were closely correlated with each other in distinct patterns across pregnancy. Gestational age specific combination of cytokines were seen to be associated with different fetal growth parameters.This study for the first time provides reference concentrations for the longitudinal expression of immune markers across pregnancy in an Indian population providing a much needed baseline to compare with pregnancies leading to adverse outcomes. Growth factors showed maximum longitudinal variation with gestational age and strong correlations were identified between various cytokines at all time points across pregnancy.
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- 2022
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26. Long-term Durable Humoral Immune Response to Heterologous Antigenic Exposure Post six months by Natural SARS-CoV-2 Infection and Vaccination
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Ramachandran Thiruvengadam and Mudita Gosain
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ImportanceBoth vaccination and natural infection lead to immunity and may augment mutual immune response against SARS-CoV-2. There is a need for an evidence-driven booster vaccination policy depending on durability of immune response.ObjectiveTo determine the durability of humoral immune response with varying age, vaccine type, duration, and previous natural infection at least six months after complete vaccination with ChAdOx1 nCov-19 or BBV152.DesignCross-sectional observational study conducted between November 2021 and January 2022.SettingParticipants were drawn from a DBT COVID-19 Research Consortium cohort in Delhi National Capital Region, India.ParticipantsWe included 2003 individuals who had completed six months after complete vaccination: (i) vaccination with ChAdOx1 nCoV-19 and aged 18-59 years, (ii) vaccination with ChAdOx1 nCoV-19 and aged ≥60 years (iii) vaccination with BBV152 and aged 18-59 years (iv) vaccination with BBV152 and aged ≥60 years (v) vaccination with either vaccine plus SARS-CoV-2 infection referred as those having hybrid immunity. A group of 94 unvaccinated individuals was also included for comparison.ExposureAge, vaccination type, prior SARS-CoV-2 infection and duration from vaccination/infection.Main Outcome(s) and Measure(s)Humoral immune response determined by anti-RBD IgG concentrations and the presence of anti-nucleocapsid IgG.ResultsThe serum anti-RBD IgG antibodies were detected (cut-off 24 BAU/ml) in 85% participants with a median titer of 163 (IQR 73, 403) BAU/ml. In the hybrid immunity group, 97.6% [295 (IQR 128, 687) BAU/mL] tested positive for anti-RBD IgG compared to 81.3% [139 (IQR 62, 326) BAU/ml] of only vaccinated participants [χ2 test: p Conclusions and RelevanceConsidering the wide seropositivity rates due to natural SARS-CoV-2 infection, recommendation for boosters should take into account past infections in the population.Key pointsQuestionWhat is the extent of waning of humoral immune response in various groups of vaccinated individuals at least six months after complete vaccination with ChAdOx1 nCov-19 or BBV152 with or without prior natural infection?FindingsCross-sectional observational study demonstrates persistence of anti-RBD IgG in 85% of participants even beyond a median of 8 months after complete vaccination. The antibody concentrations were significantly higher in those with hybrid immunity.MeaningHumoral immunity may last longer due to heterologous antigenic exposure following vaccination and natural infection emphasizing the need for contextualizing the booster policy.
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- 2022
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27. Effects of prenatal exposure to maternal COVID-19 and perinatal care on neonatal outcome: results from the INTERCOVID Multinational Cohort Study
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Francesca Giuliani, Daniel Oros, Robert B. Gunier, Sonia Deantoni, Stephen Rauch, Roberto Casale, Ricardo Nieto, Enrico Bertino, Albertina Rego, Camilla Menis, Michael G. Gravett, Massimo Candiani, Philippe Deruelle, Perla K. García-May, Mohak Mhatre, Mustapha Ado Usman, Sherief Abd-Elsalam, Saturday Etuk, Raffaele Napolitano, Becky Liu, Federico Prefumo, Valeria Savasi, Marynéa Silva Do Vale, Eric Baafi, Shabina Ariff, Nerea Maiz, Muhammad Baffah Aminu, Jorge Arturo Cardona-Perez, Rachel Craik, Gabriela Tavchioska, Babagana Bako, Caroline Benski, Fatimah Hassan-Hanga, Mónica Savorani, Loïc Sentilhes, Maria Carola Capelli, Ken Takahashi, Carmen Vecchiarelli, Satoru Ikenoue, Ramachandran Thiruvengadam, Constanza P. Soto Conti, Irene Cetin, Vincent Bizor Nachinab, Ernawati Ernawati, Eduardo A. Duro, Alexey Kholin, Jagjit Singh Teji, Sarah Rae Easter, Laurent J. Salomon, Adejumoke Idowu Ayede, Rosa Maria Cerbo, Josephine Agyeman-Duah, Paola Roggero, Brenda Eskenazi, Ana Langer, Zulfiqar A. Bhutta, Stephen H. Kennedy, Aris T. Papageorghiou, and Jose Villar
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breastfeeding ,Infectious Disease Transmission ,morbidity ,Reproductive health and childbirth ,neurologic outcome ,Low Birth Weight and Health of the Newborn ,Cohort Studies ,small for gestational age ,COVID-19 Testing ,newborn ,Pregnancy ,Infant Mortality ,neonatal outcomes ,Vertical ,infections ,Pregnancy Complications, Infectious ,neonatal intensive care unit admission ,Child ,Pediatric ,rooming-in ,Infectious ,respiratory symptoms ,Pregnancy Outcome ,Obstetrics and Gynecology ,cohort ,COVID-19 ,SARS-CoV-2 ,SARS-CoV-2 exposure ,birthweight ,cesarean delivery ,feeding problems ,hospital stay ,intrauterine growth restriction ,mortality ,multicenter study ,neonate ,perinatal practices ,preeclampsia ,pregnancy ,preterm birth ,respiratory support ,risk ratio ,skin-to-skin ,Perinatal Care ,Prenatal Exposure Delayed Effects ,Premature Birth ,Female ,Pediatric Research Initiative ,Paediatrics and Reproductive Medicine ,Clinical Research ,Preterm ,Humans ,Conditions Affecting the Embryonic and Fetal Periods ,Obstetrics & Reproductive Medicine ,Prevention ,Contraception/Reproduction ,Infant, Newborn ,Infant ,Perinatal Period - Conditions Originating in Perinatal Period ,Infectious Disease Transmission, Vertical ,Pregnancy Complications ,Good Health and Well Being - Abstract
Background: The effect of COVID-19 in pregnancy on maternal outcomes and its association with preeclampsia and gestational diabetes mellitus have been reported; however, a detailed understanding of the effects of maternal positivity, delivery mode, and perinatal practices on fetal and neonatal outcomes is urgently needed. Objective: To evaluate the impact of COVID-19 on fetal and neonatal outcomes and the role of mode of delivery, breastfeeding, and early neonatal care practices on the risk of mother-to-child transmission. Study Design: In this cohort study that took place from March 2020 to March 2021, involving 43 institutions in 18 countries, 2 unmatched, consecutive, unexposed women were concomitantly enrolled immediately after each infected woman was identified, at any stage of pregnancy or delivery, and at the same level of care to minimize bias. Women and neonates were followed up until hospital discharge. COVID-19 in pregnancy was determined by laboratory confirmation and/or radiological pulmonary findings or ≥2 predefined COVID-19 symptoms. The outcome measures were indices of neonatal and perinatal morbidity and mortality, neonatal positivity and its correlation with mode of delivery, breastfeeding, and hospital neonatal care practices. Results: A total of 586 neonates born to women with COVID-19 diagnosis and 1535 neonates born to women without COVID-19 diagnosis were enrolled. Women with COVID-19 diagnosis had a higher rate of cesarean delivery (52.8% vs 38.5% for those without COVID-19 diagnosis, P14 days). Among neonates born to mothers with COVID-19 diagnosis, birth via cesarean delivery was a risk factor for testing positive for COVID-19 (odds ratio, 2.4; 95% confidence interval, 1.2–4.7), even when severity of maternal conditions was considered and after multivariable logistic analysis. In the subgroup of neonates born to women with COVID-19 diagnosis, the outcomes worsened when the neonate also tested positive, with higher rates of neonatal intensive care unit admission, fever, gastrointestinal and respiratory symptoms, and death, even after adjusting for prematurity. Breastfeeding by mothers with COVID-19 diagnosis and hospital neonatal care practices, including immediate skin-to-skin contact and rooming-in, were not associated with an increased risk of newborn positivity. Conclusion: In this multinational cohort study, COVID-19 in pregnancy was associated with increased maternal and neonatal complications. Cesarean delivery was significantly associated with newborn COVID-19 diagnosis. Vaginal delivery should be considered the safest mode of delivery if obstetrical and health conditions allow it. Mother-to-child skin-to-skin contact, rooming-in, and direct breastfeeding were not risk factors for newborn COVID-19 diagnosis, thus well-established best practices can be continued among women with COVID-19 diagnosis.
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- 2022
28. A combination of potently neutralizing monoclonal antibodies isolated from an Indian convalescent donor protects against the SARS-CoV-2 delta variant
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Nitin Hingankar, Suprit Deshpande, Payel Das, Zaigham Abbas Rizvi, Alison Burns, Shawn Barman, Fangzhu Zhao, Mohammed Yousuf Ansari, Sohini Mukherjee, Jonathan L. Torres, Souvick Chattopadhyay, Farha Mehdi, Jyoti Sutar, Deepak Kumar Rathore, Kamal Pargai, Janmejay Singh, Sudipta Sonar, Kamini Jakhar, Sankar Bhattacharyya, Shailendra Mani, Savita Singh, Jyotsna Dandotiya, Pallavi Kshetrapal, Ramachandran Thiruvengadam, Gaurav Batra, Guruprasad R Medigeshi, Andrew Ward, Shinjini Bhatnagar, Amit Awasthi, Devin Sok, and Jayanta Bhattacharya
- Abstract
Although efficacious vaccines have significantly reduced the morbidity and mortality due to COVID-19, there remains an unmet medical need for treatment options, which monoclonal antibodies (mAbs) can potentially fill. This unmet need is exacerbated by the emergence and spread of SARS-CoV-2 variants of concern (VOCs) that have shown some resistance to vaccine responses. Here we report the isolation of two highly potently neutralizing mAbs (THSC20.HVTR04 and THSC20.HVTR26) from an Indian convalescent donor, that neutralize SARS-CoV-2 VOCs at picomolar concentrations including the delta variant (B.1.617.2). These two mAbs target non-overlapping epitopes on the receptor-binding domain (RBD) of the spike protein thereby preventing the virus attachment to its host receptor, human angiotensin converting enzyme-2 (hACE2). Furthermore, the mAb cocktail demonstrated protection against the Delta variant at low antibody doses when passively administered in the K18 hACE2 transgenic mice model, highlighting their potential as cocktail for prophylactic and therapeutic applications. Developing the capacity to rapidly discover and develop mAbs effective against highly transmissible pathogens like coronaviruses at a local level, especially in a low- and middle-income country (LMIC) such as India, will enable prompt responses to future pandemics as an important component of global pandemic preparedness.
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- 2021
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29. Inactivated whole-virion vaccine BBV152/Covaxin elicits robust cellular immune memory to SARS-CoV-2 and variants of concern
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Rajesh Vikkurthi, Asgar Ansari, Anupama R. Pai, Someshwar Nath Jha, Shilpa Sachan, Suvechchha Pandit, Bhushan Nikam, Anurag Kalia, Bimal Prasad Jit, Hilal Ahmad Parray, Savita Singh, Pallavi Kshetrapal, Nitya Wadhwa, Tripti Shrivastava, Poonam Coshic, Suresh Kumar, Pragya Sharma, Nandini Sharma, Juhi Taneja, Anil K. Pandey, Ashok Sharma, Ramachandran Thiruvengadam, Alba Grifoni, Daniela Weiskopf, Alessandro Sette, Shinjini Bhatnagar, and Nimesh Gupta
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Microbiology (medical) ,COVID-19 Vaccines ,SARS-CoV-2 ,Immunology ,Virion ,COVID-19 ,Viral Vaccines ,Cell Biology ,CD8-Positive T-Lymphocytes ,Applied Microbiology and Biotechnology ,Microbiology ,Vaccines, Inactivated ,Genetics ,Humans ,Immunologic Memory - Abstract
BBV152 is a whole-virion inactivated vaccine based on the Asp614Gly variant. BBV152 is the first alum-imidazoquinolin-adjuvanted vaccine authorized for use in large populations. Here we characterized the magnitude, quality and persistence of cellular and humoral memory responses up to 6 months post vaccination. We report that the magnitude of vaccine-induced spike and nucleoprotein antibodies was comparable with that produced after infection. Receptor binding domain-specific antibodies declined against variants in the order of Alpha (B.1.1.7; 3-fold), Delta (B.1.617.2; 7-fold) and Beta (B.1.351; 10-fold). However, pseudovirus neutralizing antibodies declined up to 2-fold against the Delta followed by the Beta variant (1.7-fold). Vaccine-induced memory B cells were also affected by the Delta and Beta variants. The SARS-CoV-2-specific multicytokine-expressing CD4
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- 2021
30. Inactivated virus vaccine BBV152/Covaxin elicits robust cellular immune memory to SARS-CoV-2 and variants of concern
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Tripti Shrivastava, Suresh Kumar, S. N. Jha, Anupama R Pai, Alba Grifoni, Daniela Weiskopf, Juhi Taneja, Ashok Sharma, Nandini Sharma, Anil Kumar Pandey, Bimal Prasad Jit, Asgar Hussain Ansari, Anurag Kalia, Shilpa Sachan, Hilal Ahmad Parray, Bhushan Nikam, Pallavi Kshetrapal, Ramachandran Thiruvengadam, Pramod Kumar Garg, Alessandro Sette, Suvechchha Pandit, Poonam Coshic, Nimesh Gupta, Shinjini Bhatnagar, Nitya Wadhwa, Pragya Sharma, Rajesh Vikkurthi, and Savita Singh
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Vaccination ,medicine.anatomical_structure ,Immunization ,biology ,biology.protein ,medicine ,Alpha (ethology) ,Antibody ,Beta (finance) ,Virology ,Virus ,B cell ,Nucleoprotein - Abstract
The characteristics of immune memory established in response to inactivated SARS-CoV-2 vaccines remains unclear. We determined the magnitude, quality and persistence of cellular and humoral memory responses up to 6 months after vaccination with BBV152/Covaxin. Here, we show that the quantity of vaccine-induced spike- and nucleoprotein-antibodies is comparable to that following natural infection and the antibodies are detectable up to 6 months. The RBD-specific antibodies decline in the range of 3 to 10-fold against the SARS-CoV-2 variants in the order of alpha (B.1.1.7) > delta (B.1.617.2) > beta (B.1.351), with no observed impact of gamma (P.1) and kappa (B.1.617.1) variant. We found that the vaccine induces memory B cells, similar to natural infection, which are impacted by virus variants in the same order as antibodies. The vaccine further induced antigen-specific functionally potent multi-cytokine expressing CD4+ T cells in ∼85% of the subjects, targeting spike and nucleoprotein of SARS-CoV-2. Marginal ∼1.3 fold-reduction was observed in vaccine-induced CD4+ T cells against the beta variant, with no significant impact of the alpha and the delta variants. The antigen-specific CD4+ T cells were populated in the central memory compartment and persisted up to 6 months of vaccination. Importantly the vaccine generated Tfh cells that are endowed with B cell help potential, similar to the Tfh cells induced after natural infection. Altogether, these findings establish that the inactivated virus vaccine BBV152 induces robust immune memory to SARS-CoV-2 and variants of concern, which persist for at least 6 months after vaccination. This study provides insight into the attributes of BBV152-elicited immune memory, and has implication for future vaccine development, guidance for use of inactivated virus vaccine, and booster immunization.
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- 2021
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31. Effectiveness of ChAdOx1 nCoV-19 vaccine against SARS-CoV-2 infection during the delta (B.1.617.2) variant surge in India: a test-negative, case-control study and a mechanistic study of post-vaccination immune responses
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Aymaan Zaheer, Nimesh Gupta, Sankar Bhattacharya, Rajesh Kumar, Nitya Wadhwa, Deepika Rathna Murugesan, Heena Shaman, Shubbir Ahmed, Rajesh K. Pandey, Sweety Samal, Anil Kumar Pandey, Juhi Taneja, Akshay Binayke, Sudhanshu Vrati, Amit Awasthi, Chandru Subramani, Deepak K. Rathore, Sridhar Sivasubbu, Guruprasad R. Medigeshi, Naseem Ahmad Khan, Anurag Agrawal, Praveen Kumar Malik, Suprit Deshpande, Shailendra Mani, Bapu Koundinya Desiraju, Ramachandran Thiruvengadam, Tripti Shrivastava, Pramod Kumar Garg, Jayanta Bhattacharya, Vinod Scaria, Shinjini Bhatnagar, Tarini Vohra, and Pallavi Kshetrapal
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medicine.medical_specialty ,COVID-19 Vaccines ,business.industry ,SARS-CoV-2 ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,Vaccination ,COVID-19 ,Disease ,Articles ,Titer ,Infectious Diseases ,Immune system ,Case-Control Studies ,ChAdOx1 nCoV-19 ,Internal medicine ,Antibody Formation ,Humoral immunity ,Post vaccination ,Medicine ,Humans ,business ,CD8 - Abstract
Summary Background SARS-CoV-2 variants of concern (VOCs) have threatened COVID-19 vaccine effectiveness. We aimed to assess the effectiveness of the ChAdOx1 nCoV-19 vaccine, predominantly against the delta (B.1.617.2) variant, in addition to the cellular immune response to vaccination. Methods We did a test-negative, case-control study at two medical research centres in Faridabad, India. All individuals who had a positive RT-PCR test for SARS-CoV-2 infection between April 1, 2021, and May 31, 2021, were included as cases and individuals who had a negative RT-PCR test were included as controls after matching with cases on calendar week of RT-PCR test. The primary outcome was effectiveness of complete vaccination with the ChAdOx1 nCoV-19 vaccine against laboratory-confirmed SARS-CoV-2 infection. The secondary outcomes were effectiveness of a single dose against SARS-CoV-2 infection and effectiveness of a single dose and complete vaccination against moderate-to-severe disease among infected individuals. Additionally, we tested in-vitro live-virus neutralisation and T-cell immune responses to the spike protein of the wild-type SARS-CoV-2 and VOCs among healthy (anti-nucleocapsid antibody negative) recipients of the ChAdOx1 nCoV-19 vaccine. Findings Of 2379 cases of confirmed SARS-CoV-2 infection, 85 (3·6%) were fully vaccinated compared with 168 (8·5%) of 1981 controls (adjusted OR [aOR] 0·37 [95% CI 0·28–0·48]), giving a vaccine effectiveness against SARS-CoV-2 infection of 63·1% (95% CI 51·5–72·1). 157 (6·4%) of 2451 of cases and 181 (9·1%) of 1994) controls had received a single dose of the ChAdOx1 nCoV-19 vaccine (aOR 0·54 [95% CI 0·42–0·68]), thus vaccine effectiveness of a single dose against SARS-CoV-2 infection was 46·2% (95% CI 31·6–57·7). One of 84 cases with moderate-to-severe COVID-19 was fully vaccinated compared with 84 of 2295 cases with mild COVID-19 (aOR 0·19 [95% CI 0·01–0·90]), giving a vaccine effectiveness of complete vaccination against moderate-to-severe disease of 81·5% (95% CI 9·9–99·0). The effectiveness of a single dose against moderate-to-severe disease was 79·2% (95% CI 46·1–94·0); four of 87 individuals with moderate-to-severe COVID-19 had received a single dose compared with 153 of 2364 participants with mild disease (aOR 0·20 [95% CI 0·06–0·54]). Among 49 healthy, fully vaccinated individuals, neutralising antibody responses were lower against the alpha (B.1.1.7; geometric mean titre 244·7 [95% CI 151·8–394·4]), beta (B.1.351; 97·6 [61·2–155·8]), kappa (B.1.617.1; 112·8 [72·7–175·0]), and delta (88·4 [61·2–127·8]) variants than against wild-type SARS-CoV-2 (599·4 [376·9–953·2]). However, the antigen-specific CD4 and CD8 T-cell responses were conserved against both the delta variant and wild-type SARS-CoV-2. Interpretation The ChAdOx1 nCoV-19 vaccine remained effective against moderate-to-severe COVID-19, even during a surge that was dominated by the highly transmissible delta variant of SARS-CoV-2. Spike-specific T-cell responses were maintained against the delta variant. Such cellular immune protection might compensate for waning humoral immunity. Funding Department of Biotechnology India, Council of Scientific and Industrial Research India, and Fondation Botnar.
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- 2021
32. Development of second and third-trimester population-specific machine learning pregnancy dating model (Garbhini-GA2) derived from the GARBH-Ini cohort in north India
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Nitya Wadhwa, Ramya Vijayram, Ashley Xavier, Ramachandran Thiruvengadam, Shinjini Bhatnagar, Sumit Misra, Ashok Khurana, Himanshu Sinha, Raghunathan Rengaswamy, Nikhita Damaraju, and Bapu Koundinya Desiraju
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Estimation ,Pregnancy ,Multivariate statistics ,business.industry ,Cohort ,Statistics ,medicine ,Gestational age ,Gold standard (test) ,medicine.disease ,North india ,Third trimester ,business - Abstract
BackgroundThe prevalence of preterm birth (PTB) is high in lower and middle-income countries (LMIC) such as India. In LMIC, since a large proportion seeks antenatal care for the first time beyond 14-weeks of pregnancy, accurate estimation of gestational age (GA) using measures derived from ultrasonography scans in the second and third trimesters is of paramount importance. Different models have been developed globally to estimate GA, and currently, LMIC uses Hadlock’s formula derived from data based on a North American cohort. This study aimed to develop a population-specific model using data from GARBH-Ini, a multidimensional and ongoing pregnancy cohort established in a district hospital in North India for studying PTB.MethodsData obtained by longitudinal ultrasonography across all trimesters of pregnancy was used to develop and validate GA models for second and third trimesters. The first trimester GA estimated by ultrasonography was considered the Gold Standard. The second and third trimester GA model named, Garbhini-GA2 is a multivariate random forest model using five ultrasonographic parameters routinely measured during this period. Garbhini-GA2 model was compared to Hadlock and INTERGROWTH-21st models in the TEST set by estimating root-mean-squared error, bias and PTB rate.FindingsGarbhini-GA2 reduced the GA estimation error by 23-45% compared to the published models. Furthermore, the PTB rate estimated using Garbhini-GA2 was more accurate when compared to published formulae that overestimated the rate by 1·5-2·0 times.InterpretationThe Garbhini-GA2 model developed is the first of its kind developed solely using Indian population data. The higher accuracy of GA estimation by Garbhini-GA2 emphasises the need to apply population-specific GA formulae to improve antenatal care and better PTB rate estimates.FundingCentre for Integrative Biology and Systems Medicine, IIT Madras; Department of Biotechnology, Government of India; Grand Challenges India, BIRAC.Panel: Research in ContextEvidence before this studyThe appropriate delivery of antenatal care and accurate delivery date estimation is heavily dependent on accurate pregnancy dating. Unlike GA estimation using crown-rump length in the first trimester, dating using foetal biometry during the second and third trimesters is prone to inaccuracies. This is a public health concern, particularly in low and middle-income countries like India, where nearly 40% of pregnant women seek their first antenatal care beyond 14 weeks of gestation. The dating formulae used in LMIC were developed using foetal biometry data from the Caucasian population, and these formulae are prone to be erroneous when used in ethnically different populations.Added value of this studyThis study developed a dating model, the Garbhini-GA2 model for second and third trimesters of pregnancy using multiple candidate biometric predictors measured in a North Indian population. When evaluated internally, this model outperformed the currently used dating models by reducing the errors in the estimation of gestational age by 25-40%. Further, Garbhini-GA2 estimated a PTB rate similar to that estimated by the Gold Standard in our population, while the published formulae overestimated the PTB rates.Implications of all the available evidenceOur Garbhini-GA2 model, after due validations in independent cohorts across the Southeast Asian regions, has the potential to be quickly translated for clinical use across the region. A precise dating will benefit obstetricians and neonatologists to plan antenatal and neonatal care more exactly. From an epidemiologist standpoint, using the Garbhini-GA2 dating formulae will improve the precision of the estimates of pregnancy outcomes that heavily depend on gestational age, such as preterm birth, small for gestational age and stillbirth in our population. Additionally, our dating models will improve phenotyping by reducing the risk of misclassification between outcomes for mechanistic and biomarker research.
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- 2021
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33. Pattern of variation in DNA methylation during pregnancy among mothers who delivered preterm in the GARBH-Ini cohort
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Indranil Bagchi, Pallavi Kshetrapal, Uma Chadramouli Nachu, Ramachandran Thiruvengadam, Arindam Maitra, Partha P. Majumder, Nitya Wadhwa, S.K. Ghosh, Shinjini Bhatnagar, GARBH-Ini Team, and Jagyashila Das
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Pregnancy ,CpG site ,DNA methylation ,Circadian clock ,medicine ,Gestation ,dNaM ,Methylation ,Biology ,Bioinformatics ,medicine.disease ,Gene - Abstract
BackgroundDNA methylation (DNAm) may play an important role in birth outcomes.Material and MethodsGenome wide DNAm was analysed in peripheral blood DNA of women at multiple time points during gestation. A novel empirical method was used to identify CpG sites with high temporal variance in methylation associating with preterm birth.ResultsHigh variability at 1296 CpG sites from the promoter regions of 1197 genes significantly associated with PTB. These genes belonged to pathways involved in signalling by platelet derived growth factor, platelet homeostasis, collagen degradation, extracellular matrix and circadian clock.ConclusionsThe findings provide novel information which might help in development of predictive biomarkers of preterm birth outcome.
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- 2021
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34. Preeclampsia and COVID-19: results from the INTERCOVID prospective longitudinal study
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Roberto Casale, Mohak Mhatre, Gabriela Tavchioska, Jorge Arturo Cardona-Perez, Federico Prefumo, Irene Cetin, LaVone E. Simmons, Constanza P. Soto Conti, Vincent Bizor Nachinab, Brenda Eskenazi, Satoru Ikenoue, Saturday J. Etuk, Albertina Rego, Fatimah Hassan-Hanga, Mustapha Ado Usman, Philippe Deruelle, Loïc Sentilhes, Enrico Ferrazzi, Abimbola Bowale, Aris T. Papageorghiou, Valeria Savasi, Ken Takahashi, Stephen Kennedy, Muhammad Aminu, Rosa Maria Cerbo, Francesca Giuliani, Becky Liu, Rachel Craik, Nerea Maiz, Adele Winsey, Carmen Vecchiarelli, Stephen Rauch, Robert B. Gunier, Daniel Oros, R. Napolitano, Ernawati Ernawati, Anne Caroline Benski, Michelle L. Firlit, Marynéa Silva do Vale, Babagana Bako, Ramachandran Thiruvengadam, Sonia Deantoni, Joanna Sichitiu, Zulfiqar A Bhutta, Ghulam Zainab, Milagros Risso, Eric Baafi, Sherief Abd-Elsalam, Paolo Cavoretto, Jim G Thornton, Sarah Rae Easter, Perla K. García-May, José Villar, Alexey Kholin, Mónica Savorani, Ricardo Nieto, Eduardo Alfredo Duro, Institut Català de la Salut, [Papageorghiou AT] Nuffield Department of Women’s & Reproductive Health, University of Oxford, Women’s Centre, John Radcliffe Hospital, Oxford, United Kingdom. Oxford Maternal and Perinatal Health Institute, Green Templeton College, University of Oxford, Oxford, United Kingdom. Department of Obstetrics and Gynaecology, St George’s University Hospitals NHS Foundation Trust, London, United Kingdom. [Deruelle P] Department of Obstetrics and Gynecology, Hôpitaux Universitaires de Strasbourg, Strasbourg, France. [Gunier RB, Rauch S] Center for Environmental Research and Community Health (CERCH), School of Public Health, University of California, Berkeley, CA. [García-May PK] Hospital Regional Lic. Adolfo López Mateos ISSSTE, Mexico City, Mexico. [Mhatre M] Tufts Medical Center, Boston, MA. [Maiz N] Servei d'Obstetrícia, Vall d’Hebron Hospital Universitari, Barcelona, Spain, and Vall d'Hebron Barcelona Hospital Campus
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Gestational hypertension ,aspirin ,cohort ,gestational hypertension ,hypertension ,hypertensive disorders in pregnancy ,infection ,morbidity ,mortality ,obesity ,overweight ,preeclampsia ,pregnancy ,preterm birth ,proteinuria ,relative risk ,renal disease ,risk ratio ,SARS-CoV 2 ,small for gestational age ,enfermedades de los genitales femeninos y complicaciones del embarazo::complicaciones del embarazo::hipertensión inducida en el embarazo::preeclampsia [ENFERMEDADES] ,Reproductive health and childbirth ,Low Birth Weight and Health of the Newborn ,Cardiovascular ,Otros calificadores::Otros calificadores::/complicaciones [Otros calificadores] ,Pre-Eclampsia ,Risk Factors ,Pregnancy ,Infant Mortality ,virosis::infecciones por virus ARN::infecciones por Nidovirales::infecciones por Coronaviridae::infecciones por Coronavirus [ENFERMEDADES] ,Medicine ,Longitudinal Studies ,Prospective Studies ,Original Research ,COVID-19 (Malaltia) - Complicacions ,Pediatric ,Obstetrics ,Pregnancy Outcome ,Obstetrics and Gynecology ,Virus Diseases::RNA Virus Infections::Nidovirales Infections::Coronaviridae Infections::Coronavirus Infections [DISEASES] ,Premature birth ,Preeclàmpsia - Epidemiologia ,Premature Birth ,Female ,Risk assessment ,Adult ,medicine.medical_specialty ,Other subheadings::Other subheadings::Other subheadings::/virology [Other subheadings] ,Lower risk ,Pregnancy-Induced ,Preeclampsia ,Paediatrics and Reproductive Medicine ,Preterm ,Clinical Research ,Humans ,Risk factor ,Obstetrics & Reproductive Medicine ,Otros calificadores::Otros calificadores::Otros calificadores::/virología [Otros calificadores] ,business.industry ,SARS-CoV-2 ,Contraception/Reproduction ,COVID-19 ,Hypertension, Pregnancy-Induced ,Perinatal Period - Conditions Originating in Perinatal Period ,medicine.disease ,Confidence interval ,Pregnancy Complications ,Good Health and Well Being ,Relative risk ,Female Urogenital Diseases and Pregnancy Complications::Pregnancy Complications::Hypertension, Pregnancy-Induced::Pre-Eclampsia [DISEASES] ,business ,Other subheadings::Other subheadings::/complications [Other subheadings] - Abstract
Coronavirus SARS-CoV-2; COVID-19; 2019-nCoV; Hipertensió gestacional; Preeclampsia Coronavirus SARS-CoV-2; COVID-19; 2019-nCoV; Hipertension gestacional; Preeclampsia Coronavirus SARS-CoV-2; COVID-19; 2019-nCoV; Gestational hypertension; Preeclampsia Background It is unclear whether the suggested link between COVID-19 during pregnancy and preeclampsia is an independent association or if these are caused by common risk factors. Objective This study aimed to quantify any independent association between COVID-19 during pregnancy and preeclampsia and to determine the effect of these variables on maternal and neonatal morbidity and mortality. Study Design This was a large, longitudinal, prospective, unmatched diagnosed and not-diagnosed observational study assessing the effect of COVID-19 during pregnancy on mothers and neonates. Two consecutive not-diagnosed women were concomitantly enrolled immediately after each diagnosed woman was identified, at any stage during pregnancy or delivery, and at the same level of care to minimize bias. Women and neonates were followed until hospital discharge using the standardized INTERGROWTH-21 st protocols and electronic data management system. A total of 43 institutions in 18 countries contributed to the study sample. The independent association between the 2 entities was quantified with the risk factors known to be associated with preeclampsia analyzed in each group. The outcomes were compared among women with COVID-19 alone, preeclampsia alone, both conditions, and those without either of the 2 conditions. Results We enrolled 2184 pregnant women; of these, 725 (33.2%) were enrolled in the COVID-19 diagnosed and 1459 (66.8%) in the COVID-19 not-diagnosed groups. Of these women, 123 had preeclampsia of which 59 of 725 (8.1%) were in the COVID-19 diagnosed group and 64 of 1459 (4.4%) were in the not-diagnosed group (risk ratio, 1.86; 95% confidence interval, 1.32–2.61). After adjustment for sociodemographic factors and conditions associated with both COVID-19 and preeclampsia, the risk ratio for preeclampsia remained significant among all women (risk ratio, 1.77; 95% confidence interval, 1.25–2.52) and nulliparous women specifically (risk ratio, 1.89; 95% confidence interval, 1.17–3.05). There was a trend but no statistical significance among parous women (risk ratio, 1.64; 95% confidence interval, 0.99–2.73). The risk ratio for preterm birth for all women diagnosed with COVID-19 and preeclampsia was 4.05 (95% confidence interval, 2.99–5.49) and 6.26 (95% confidence interval, 4.35–9.00) for nulliparous women. Compared with women with neither condition diagnosed, the composite adverse perinatal outcome showed a stepwise increase in the risk ratio for COVID-19 without preeclampsia, preeclampsia without COVID-19, and COVID-19 with preeclampsia (risk ratio, 2.16; 95% confidence interval, 1.63–2.86; risk ratio, 2.53; 95% confidence interval, 1.44–4.45; and risk ratio, 2.84; 95% confidence interval, 1.67–4.82, respectively). Similar findings were found for the composite adverse maternal outcome with risk ratios of 1.76 (95% confidence interval, 1.32–2.35), 2.07 (95% confidence interval, 1.20–3.57), and 2.77 (95% confidence interval, 1.66–4.63). The association between COVID-19 and gestational hypertension and the direction of the effects on preterm birth and adverse perinatal and maternal outcomes, were similar to preeclampsia, but confined to nulliparous women with lower risk ratios. Conclusion COVID-19 during pregnancy is strongly associated with preeclampsia, especially among nulliparous women. This association is independent of any risk factors and preexisting conditions. COVID-19 severity does not seem to be a factor in this association. Both conditions are associated independently of and in an additive fashion with preterm birth, severe perinatal morbidity and mortality, and adverse maternal outcomes. Women with preeclampsia should be considered a particularly vulnerable group with regard to the risks posed by COVID-19. The study was supported by the COVID-19 Research Response Fund from the University of Oxford (Ref 0009083). A.T.P. is supported by the Oxford Partnership Comprehensive Biomedical Research Centre with funding from the National Institute for Health Research (NIHR) Biomedical Research Centre funding scheme. The funding organization had no involvement in the design and conduct of the study; collection, management, analysis, and interpretation of the data; preparation, review, or approval of the manuscript, and decision to submit the manuscript for publication.
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- 2021
35. SARS-CoV-2 delta variant: a persistent threat to the effectiveness of vaccines
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Ramachandran Thiruvengadam, Akshay Binayke, and Amit Awasthi
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Adult ,Delta ,COVID-19 Vaccines ,SARS-CoV-2 ,business.industry ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,Comment ,Vaccination ,Virion ,COVID-19 ,India ,Middle Aged ,Virology ,Infectious Diseases ,Vaccines, Inactivated ,COVID-19 Nucleic Acid Testing ,Case-Control Studies ,Humans ,Medicine ,business - Abstract
BBV152 is a whole-virion inactivated SARS-CoV-2 vaccine that has been deployed in India. The results of the phase 3 trial have shown clinical efficacy of BBV152. We aimed to evaluate the effectiveness of BBV152 against symptomatic RT-PCR-confirmed SARS-CoV-2 infection.We conducted a test-negative, case-control study among employees of the All India Institute of Medical Sciences (a tertiary care hospital in New Delhi, India), who had symptoms suggestive of COVID-19 and had an RT-PCR test for SARS-CoV-2 during the peak of the second wave of the COVID-19 pandemic in India between April 15 and May 15, 2021. Cases (test-positives) and controls (test-negatives) were matched (1:1) on the basis of age and gender. The odds of vaccination with BBV152 were compared between cases and controls and adjusted for level of occupational exposure (to COVID-19), previous SARS-CoV-2 infection, and calendar time, using conditional logistic regression. The primary outcome was effectiveness of two doses of BBV152 (with the second dose received at least 14 days before testing) in reducing the odds of symptomatic RT-PCR-confirmed SARS-CoV-2 infection, expressed as (1 - odds ratio) × 100%.Between April 15 and May 15, 2021, 3732 individuals had an RT-PCR test. Of these, 2714 symptomatic employees had data on vaccination status, and 1068 matched case-control pairs were available for analysis. The adjusted effectiveness of BBV152 against symptomatic COVID-19 after two doses administered at least 14 days before testing was 50% (95% CI 33-62; p0·0001). The adjusted effectiveness of two doses administered at least 28 days before testing was 46% (95% CI 22-62) and administered at least 42 days before testing was 57% (21-76). After excluding participants with previous SARS-CoV-2 infections, the adjusted effectiveness of two doses administered at least 14 days before testing was 47% (95% CI 29-61).This study shows the effectiveness of two doses of BBV152 against symptomatic COVID-19 in the context of a huge surge in cases, presumably dominated by the potentially immune-evasive delta (B.1.617.2) variant of SARS-CoV-2. Our findings support the ongoing roll-out of this vaccine to help control the spread of SARS-CoV-2, while continuing the emphasis on adherence to non-pharmacological measures.None.For the Hindi translation of the abstract see Supplementary Materials section.
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- 2022
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36. Longitudinal Serology of SARS-CoV-2-Infected Individuals in India: A Prospective Cohort Study
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Susmita Chaudhuri, Anil Kumar Pandey, Brahmdeep Sindhu, Farha Mehdi, Tripti Shrivastava, Nidhi Anand, Uma Chandra Mouli Natchu, Gaurav Batra, Nandini Sharma, Sonal Saxena, Dharmendra Sharma, Ramachandran Thiruvengadam, Gagandeep Kang, Mudita Wahi, Shailaja Sopory, Shinjini Bhatnagar, Pallavi Kshetrapal, Arjun Dang, Vandita Bhartia, Nitya Wadhwa, Pragya Sharma, Juhi Taneja, Bapu Koundinya Desiraju, Deepa Sindhu, Souvick Chattopadhyay, and Savita Singh
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Adult ,Male ,medicine.medical_specialty ,Adolescent ,media_common.quotation_subject ,Population ,India ,Antibodies, Viral ,Asymptomatic ,Immunoglobulin G ,Serology ,Cohort Studies ,Young Adult ,Risk Factors ,Virology ,Internal medicine ,Epidemiology ,medicine ,Humans ,Prospective Studies ,Seroconversion ,Child ,education ,Prospective cohort study ,media_common ,education.field_of_study ,biology ,SARS-CoV-2 ,business.industry ,Convalescence ,COVID-19 ,Infant ,Articles ,Middle Aged ,Infectious Diseases ,Child, Preschool ,biology.protein ,Female ,Parasitology ,medicine.symptom ,business - Abstract
Clinical and epidemiological characteristics of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) are now widely available, but there are few data regarding longitudinal serology in large cohorts, particularly those from low-income and middle-income countries. We established an ongoing prospective cohort of 3,840 SARS-CoV-2-positive individuals according to RT-PCR in the Delhi-National Capital Region of India to document clinical and immunological characteristics during illness and convalescence. The immunoglobulin G (IgG) responses to the receptor binding domain (RBD) and nucleocapsid were assessed at 0 to 7 days, 10 to 28 days, and 6 to 10 weeks after infection. The clinical predictors of seroconversion were identified by multivariable regression analysis. The seroconversion rates during the postinfection windows of 0 to 7 days, 10 to 28 days, and 6 to 10 weeks were 46%, 84.7%, and 85.3%, respectively (N = 743). The proportion with a serological response increased with the severity of coronavirus disease 2019 (COVID-19). All participants with severe disease, 89.6% with mild to moderate infection, and 77.3% of asymptomatic participants had IgG antibodies to the RBD antigen. The threshold values for the nasopharyngeal viral RNA RT-PCR of a subset of asymptomatic and symptomatic seroconverters were comparable (P = 0.48) to those of nonseroconverters (P = 0.16) (N = 169). This is the first report of longitudinal humoral immune responses to SARS-CoV-2 over a period of 10 weeks in South Asia. The low seropositivity of asymptomatic participants and differences between assays highlight the importance of contextualizing the understanding of population serosurveys.
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- 2021
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37. Gestational weight gain trajectories in GARBH-Ini pregnancy cohort in North India and a comparative analysis with global references
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Ramachandran, Thiruvengadam, Bapu Koundinya, Desiraju, Uma Chandra Mouli, Natchu, Nitya, Wadhwa, Kanika, Sachdeva, Sumit, Misra, Neera, Parmar, Mukesh, Juyal, Pratima, Mittal, Rekha, Bharti, Reva, Tripathi, Siddarth, Ramji, Harshpal Singh, Sachdev, and Shinjini, Bhatnagar
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Cohort Studies ,Pregnancy ,Pregnancy Outcome ,Humans ,Body-Weight Trajectory ,Female ,Prospective Studies ,Gestational Weight Gain ,Body Mass Index - Abstract
To describe the pattern of gestational weight gain (GWG), derive reference centiles for GWG specific to North Indian population, and to compare the weight gain across different periods of gestation with the INTERGROWTH-21st reference.A prospective pregnancy (GARBH-Ini) cohort was initiated and followed between May 2015 and June 2019 in a district hospital, Gurguram, North India. GWG centile curves were modelled by Generalized Additive Models for Location, Scale and Shape method (n = 2844) and compared with INTERGROWTH-21st reference. The independent association of GWG with biological and social predictors was assessed using multivariable regression analysis.Percentiles (3rd, 10th, 50th, 90th and 97th) for each completed week from 18-40 weeks of gestation were derived from smoothed centile curves. The median GWG across pregnancy during specific antenatal visits was 1.29 at 18, 4.44 at 26, 5.8 at 30 and 9.06 kg at 40 weeks of gestation. Nearly 26% of participants had GWG 10th centile at 18-20 weeks as per INTERGROWTH-21st reference and this increased to 45% at delivery. Significant predictors of GWG included maternal age, height, first trimester body mass index, parity, type of family, and use of clean fuel for cooking.These GWG percentiles will serve as a useful reference, particularly during the WHO recommended antenatal visit schedule for optimum pregnancy outcomes, for clinicians and researchers. Multiple independent biological and social predictors of GWG suggest that single interventions are unlikely to bridge the gap between general Indian population and international references.
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- 2021
38. Maternal and Neonatal Morbidity and Mortality Among Pregnant Women With and Without COVID-19 Infection: The INTERCOVID Multinational Cohort Study
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Stephen Rauch, Paolo Cavoretto, Sherief Abd-Elsalam, Philippe Deruelle, Valeria Savasi, Nerea Maiz, Satoru Ikenoue, Irene Cetin, Mohak Mhatre, Muhammad Aminu, Becky Liu, Constanza P. Soto Conti, Robert B. Gunier, Saturday J. Etuk, Eduardo Alfredo Duro, Loïc Sentilhes, Ricardo Nieto, Jagjit S Teji, Federico Prefumo, Yetunde O. John-Akinola, Carola Capelli, Shabina Ariff, Daniel Oros, Ana Langer, Aris T. Papageorghiou, Enrico Ferrazi, Joanna Sichitiu, Vincent Bizor Nachinab, Ernawati Ernawati, Zulfiqar A Bhutta, Roberto Casale, Babagana Bako, Jorge Arturo Cardona-Perez, Sarah Rae Easter, Carmen Vecciarelli, Hellas Cena, Ramachandran Thiruvengadam, Michael G. Gravett, Perla K. García-May, Marynéa Silva do Vale, Mónica Savorani, José Villar, Manuela Oberto, Alexey Kholin, Laura Salazar, Stephen Kennedy, Mustapha Ado Usman, Paola Roggero, Hadiza S Galadanci, and Adejumoke I. Ayede
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medicine.medical_specialty ,Overweight ,Global Health ,Preeclampsia ,law.invention ,COVID-19 Testing ,law ,Pregnancy ,medicine ,Humans ,Pregnancy Complications, Infectious ,Eclampsia ,business.industry ,Obstetrics ,SARS-CoV-2 ,Infant, Newborn ,Obstetrics and Gynecology ,COVID-19 ,Correction ,General Medicine ,medicine.disease ,Intensive care unit ,Survival Rate ,Premature birth ,Relative risk ,Pediatrics, Perinatology and Child Health ,Female ,medicine.symptom ,Morbidity ,business ,Cohort study ,Follow-Up Studies - Abstract
Importance Detailed information about the association of COVID-19 with outcomes in pregnant individuals compared with not-infected pregnant individuals is much needed. Objective To evaluate the risks associated with COVID-19 in pregnancy on maternal and neonatal outcomes compared with not-infected, concomitant pregnant individuals. Design, Setting, and Participants In this cohort study that took place from March to October 2020, involving 43 institutions in 18 countries, 2 unmatched, consecutive, not-infected women were concomitantly enrolled immediately after each infected woman was identified, at any stage of pregnancy or delivery, and at the same level of care to minimize bias. Women and neonates were followed up until hospital discharge. Exposures COVID-19 in pregnancy determined by laboratory confirmation of COVID-19 and/or radiological pulmonary findings or 2 or more predefined COVID-19 symptoms. Main Outcomes and Measures The primary outcome measures were indices of (maternal and severe neonatal/perinatal) morbidity and mortality; the individual components of these indices were secondary outcomes. Models for these outcomes were adjusted for country, month entering study, maternal age, and history of morbidity. Results A total of 706 pregnant women with COVID-19 diagnosis and 1424 pregnant women without COVID-19 diagnosis were enrolled, all with broadly similar demographic characteristics (mean [SD] age, 30.2 [6.1] years). Overweight early in pregnancy occurred in 323 women (48.6%) with COVID-19 diagnosis and 554 women (40.2%) without. Women with COVID-19 diagnosis were at higher risk for preeclampsia/eclampsia (relative risk [RR], 1.76; 95% CI, 1.27-2.43), severe infections (RR, 3.38; 95% CI, 1.63-7.01), intensive care unit admission (RR, 5.04; 95% CI, 3.13-8.10), maternal mortality (RR, 22.3; 95% CI, 2.88-172), preterm birth (RR, 1.59; 95% CI, 1.30-1.94), medically indicated preterm birth (RR, 1.97; 95% CI, 1.56-2.51), severe neonatal morbidity index (RR, 2.66; 95% CI, 1.69-4.18), and severe perinatal morbidity and mortality index (RR, 2.14; 95% CI, 1.66-2.75). Fever and shortness of breath for any duration was associated with increased risk of severe maternal complications (RR, 2.56; 95% CI, 1.92-3.40) and neonatal complications (RR, 4.97; 95% CI, 2.11-11.69). Asymptomatic women with COVID-19 diagnosis remained at higher risk only for maternal morbidity (RR, 1.24; 95% CI, 1.00-1.54) and preeclampsia (RR, 1.63; 95% CI, 1.01-2.63). Among women who tested positive (98.1% by real-time polymerase chain reaction), 54 (13%) of their neonates tested positive. Cesarean delivery (RR, 2.15; 95% CI, 1.18-3.91) but not breastfeeding (RR, 1.10; 95% CI, 0.66-1.85) was associated with increased risk for neonatal test positivity. Conclusions and Relevance In this multinational cohort study, COVID-19 in pregnancy was associated with consistent and substantial increases in severe maternal morbidity and mortality and neonatal complications when pregnant women with and without COVID-19 diagnosis were compared. The findings should alert pregnant individuals and clinicians to implement strictly all the recommended COVID-19 preventive measures.
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- 2021
39. Longitudinal serology in SARS-CoV-2 infected individuals in India – a prospective cohort study
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Sonal Saxena, Shailaja Sopory, Deepa Sindhu, Pallavi Kshetrapal, Savita Singh, Nandini Sharma, Pragya Sharma, Souvick Chattopadhyay, Farha Mehdi, Susmita Chaudhuri, Asim Das, Brahmdeep Sindhu, Anil Kumar Pandey, Nidhi Anand, Uma Chandra Mouli Natchu, Gaurav Batra, Gagandeep Kang, Dharmendra Sharma, Vandita Bhartia, Nitya Wadhwa, Shinjini Bhatnagar, Mudita Gosain, Ramachandran Thiruvengadam, Bapu Koundinya Desiraju, and Navin Dang
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medicine.medical_specialty ,education.field_of_study ,business.industry ,Convalescence ,media_common.quotation_subject ,Population ,Asymptomatic ,Serology ,Internal medicine ,Epidemiology ,medicine ,Seroprevalence ,medicine.symptom ,Seroconversion ,Prospective cohort study ,education ,business ,media_common - Abstract
Clinical and epidemiological characteristics of SARS-CoV-2 infection are now widely available, but there are few data on longitudinal serology in large cohorts, particularly from low-and middle-income countries. We established an ongoing prospective cohort of 3840 SARS-CoV-2 RT-PCR positive individuals in the Delhi-National Capital Region of India, to document clinical and immunological characteristics during illness and convalescence. The IgG responses to the receptor binding domain (RBD) and nucleocapsid were assessed at 0-7, 10-28 days and 6-10 weeks after infection. The clinical predictors of seroconversion were identified by multivariable regression analysis. The seroconversion rates in the post-infection windows of 0–7 days, 10–28 days and 6–10 weeks were 46%, 84.7% and 85.3% respectively (n=782). The proportion with a serological response increased with severity of COVID-19 disease. All participants with severe disease, 89.6% with mild to moderate infection and 77.3% of asymptomatic participants had IgG antibodies to the RBD antigen. The threshold values in the nasopharyngeal viral RNA RT-PCR in a subset of asymptomatic and symptomatic seroconverters were comparable (p value: 0.48), with similar results among non-seroconverters (p value: 0.16) (n=169). This is the first report of longitudinal humoral immune responses to SARS-CoV-2 infection over a period of ten weeks from South Asia. The low seropositivity in asymptomatic participants and differences between assays highlight the importance of contextualizing the understanding of population serosurveys.SummaryWe measured anti-SARS-CoV-2 RBD and NC protein IgG in a multi-hospital-based prospective cohort from northern India up to ten weeks post-infection. The lower seroconversion rate among asymptomatic RT-PCR positive participants has public health significance particularly for interpreting community seroprevalence estimates.
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- 2021
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40. Dynamic Alteration in the Vaginal Secretory Proteome across the Early and Mid-Trimesters of Pregnancy
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Amit Kumar Dey, Dipankar Malakar, Dinakar M. Salunke, Pallavi Kshetrapal, Bapu Koundinya Desiraju, Abhishek K. Singh, Ramachandran Thiruvengadam, S. Saha, Tushar Kanti Maiti, Faraz Rashid, Bhoj Kumar, Nitya Wadhwa, and Shinjini Bhatnagar
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0301 basic medicine ,Proteome ,Physiology ,Cervix Uteri ,Female reproductive system ,Biochemistry ,03 medical and health sciences ,Pregnancy ,medicine ,Humans ,Longitudinal Studies ,Cervix ,Fetus ,030102 biochemistry & molecular biology ,business.industry ,Gestational age ,General Chemistry ,medicine.disease ,Body Fluids ,030104 developmental biology ,medicine.anatomical_structure ,Vagina ,Gestation ,Female ,business - Abstract
Pregnancy is characterized by intense physiological and structural alterations in the vagina, cervix, and overlying fetal membranes. High vaginal fluid (HVF) is a proximal fluid that covers the lower part of the female reproductive system and the severity of vaginal pathology often adversely affects pregnancy outcomes. To identify the correlation of vaginal fluid proteome dynamics and physiological changes during the progression of pregnancy, a longitudinal study was performed on 20 pregnant women who delivered a baby in >37 weeks without any complications. SWATH-MS-based label-free quantitative proteomics was performed to profile the HVF proteome at three time points defined as V1 (7-12 weeks), V2 (18-20 weeks), and V3 (26-28 weeks). Linear mixed-effect models were used to estimate protein abundance as a function of the period of gestational age. In this study, we identified 1015 HVF proteins and 61 of them were significantly altered until late second trimester. Our result demonstrates that the HVF proteins reveal gestational age-specific expression patterns and the function of these proteins is associated with tissue remodeling, organ development, and microbial defense. Our study provides an opportunity to monitor the underlying physiology of pregnancy that may be further probed for the biomarker identification in pregnancy-related adverse outcomes. Data are available via ProteomeXchange with identifiers PXD014846 and PXD021811.
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- 2021
41. Cellular Immune Responses are Preserved and May Contribute to Chadox1 ChAdOx1 nCoV-19 Vaccine Effectiveness Against Infection Due to SARS-CoV-2 B·1·617·2 Delta Variant Despite Reduced Virus Neutralisation
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Chandru Subramani, Pramod Kumar Garg, Aymaan Zaheer, Deepika Rathna Murugesan, Heena Shaman, Rajesh Kumar, Nimesh Gupta, Praveen Kumar Malik, Vinod Scaria, Sridhar Sivasubbu, Shailendra Mani, Sudhanshu Vrati, Sankar Bhattacharya, Ramachandran Thiruvengadam, Juhi Taneja, Shinjini Bhatnagar, Akshay Binayke, Pallavi Kshetrapal, Amit Awasthi, Tarini Vohra, Anurag Agrawal, Sweety Samal, Shubbir Ahmed, Deepak K. Rathore, Rajesh Pandey, Bapu Koundinya Desiraju, Jayanta Bhattacharya, Tripti Srivatsava, Nitya Wadhwa, Naseem Ahmed Khan, Suprit Deshpande, Anil Kumar Pandey, and Guruprasad R. Medigeshi
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biology ,business.industry ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,medicine.disease_cause ,Virology ,Neutralization ,Virus ,Vaccination ,Immune system ,Antigen ,biology.protein ,medicine ,Antibody ,business ,Coronavirus - Abstract
Background: The emergence of SARS-CoV-2 variants of concern (VoC) has threatened the effectiveness of vaccination due to decreased neutralisation ability of the vaccine generated antibodies. Our objective was to assess ChAdOx1 nCoV-19 vaccine effectiveness during the massive surge from 1st April to 31stMay 2021 predominantly due to the more infectious B·1·617·2 (Delta) in India. Methods: We conducted a test-negative case-control study to assess the effectiveness of ChAdOx1 nCoV-19 vaccine. Cases were RT-PCR positive for SARS-CoV-2 infection. In addition, we tested live virus neutralisation and cellular immune responses against VoC among healthy recipients of ChAdOx1 nCoV-19 vaccine. The outcomes were effectiveness of ChAdOx1 nCoV-19 against infection and severe coronavirus disease-19, virus neutralisation effectivity and T-cell responses against the VoC among healthy vaccine recipients. Findings: Of the 2766 cases of confirmed SARS-CoV-2 infection, 3·1% were fully vaccinated compared with 7·1% of the 2377 controls giving an adjusted OR of 0·37 (95%CI 0·28, 0·48); this translated to 63·1% (95%CI 51·5, 72·1) vaccine effectiveness against SARS-CoV-2 B·1·617·2 variant, seen in 90% of the infected population as confirmed by whole-genome virus sequencing. Full vaccination prevented moderate-severe COVID-19 in 81·5% (95%CI: 9·9, 99·0). The effectiveness of single-dose vaccine was 46·2% (95%CI: 31·6, 57·7) against infection but 79·2% (95%CI: 46·1, 94·0) in preventing moderate-severe Covid-19. Among healthy vaccinated persons, plasma live virus neutralisation was 2·5-6·8 fold lower against B·1·1·7, B·1·351, B·1·617·1 and B·1·617·2 being lowest against B·1·617·2. However, T-cell responses were preserved against the recombinant mutant receptor binding domain antigens suggesting cell-mediated immune protection. Interpretation: Despite significantly reduced virus neutralisation, the effectiveness of ChAdOx1 nCoV-19 vaccine was 63% against B·1·617·2 infection and 81·5% in preventing severe disease. Spike specific T cells responses against virus variants were maintained and might contribute to immune protection following vaccination. Funding Information: Department of Biotechnology, Government of India; Council for Scientific and Industrial Research, India; Fondation Botnar. Declaration of Interests: None to declare. Ethics Approval Statement: The studies were approved by the Institute Ethics Committees of the partnering institutions.
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- 2021
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42. Development of a Fast SARS-CoV-2 IgG ELISA, Based on Receptor-Binding Domain, and Its Comparative Evaluation Using Temporally Segregated Samples From RT-PCR Positive Individuals
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Sarla Yadav, Souvick Chattopadhyay, Shailaja Sopory, Urpo Lamminmäki, Shinjini Bhatnagar, Gaurav Batra, Vandita Bhartia, Mudita Gosain, Sandeep Goswami, Rakesh Lodha, Pallavi Kshetrapal, Manjit Kumar, Sangita Kumari Sinha, Nitya Wadhwa, Tripti Shrivastava, Ramachandran Thiruvengadam, Pragya Sharma, Anil Kumar Pandey, Farha Mehdi, Uma Chandra Mouli Natchu, Asim Das, Nikhil Verma, Nandini Sharma, and Bapu Koundinya Desiraju
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Microbiology (medical) ,SARS-CoV-2 IgG antibodies ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,lcsh:QR1-502 ,Microbiology ,Virus ,lcsh:Microbiology ,Comparative evaluation ,RBD ,03 medical and health sciences ,0302 clinical medicine ,Antigen ,diagnostics ,Medicine ,030212 general & internal medicine ,Igg elisa ,030304 developmental biology ,Original Research ,0303 health sciences ,receptor binding domain ,biology ,business.industry ,SARS-CoV-2 ,Autoantibody ,COVID-19 ,Virology ,Real-time polymerase chain reaction ,biology.protein ,ELISA ,Antibody ,business - Abstract
SARS-CoV-2 antibody detection assays are crucial for gathering seroepidemiological information and monitoring the sustainability of antibody response against the virus. The SARS-CoV-2 Spike protein’s receptor-binding domain (RBD) is a very specific target for anti-SARS-CoV-2 antibodies detection. Moreover, many neutralizing antibodies are mapped to this domain, linking antibody response to RBD with neutralizing potential. Detection of IgG antibodies, rather than IgM or total antibodies, against RBD is likely to play a larger role in understanding antibody-mediated protection and vaccine response. Here we describe a rapid and stable RBD-based IgG ELISA test obtained through extensive optimization of the assay components and conditions. The test showed a specificity of 99.79% (95% CI: 98.82–99.99%) in a panel of pre-pandemic samples (n = 470) from different groups, i.e., pregnancy, fever, HCV, HBV, and autoantibodies positive. Test sensitivity was evaluated using sera from SARS-CoV-2 RT-PCR positive individuals (n = 312) and found to be 53.33% (95% CI: 37.87–68.34%), 80.47% (95% CI: 72.53–86.94%), and 88.24% (95% CI: 82.05–92.88%) in panel 1 (days 0–13), panel 2 (days 14–20) and panel 3 (days 21–27), respectively. Higher sensitivity was achieved in symptomatic individuals and reached 92.14% (95% CI: 86.38–96.01%) for panel 3. Our test, with a shorter runtime, showed higher sensitivity than parallelly tested commercial ELISAs for SARS-CoV-2-IgG, i.e., Euroimmun and Zydus, even when equivocal results in the commercial ELISAs were considered positive. None of the tests, which are using different antigens, could detect anti-SARS-CoV-2 IgGs in 10.5% RT-PCR positive individuals by the fourth week, suggesting the lack of IgG response.
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- 2021
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43. Additional file 1 of Comparison of first trimester dating methods for gestational age estimation and their implication on preterm birth classification in a North Indian cohort
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Ramya Vijayram, Nikhita Damaraju, Xavier, Ashley, Bapu Koundinya Desiraju, Ramachandran Thiruvengadam, Misra, Sumit, Chopra, Shilpa, Khurana, Ashok, Nitya Wadhwa, Raghunathan Rengaswamy, Himanshu Sinha, and Shinjini Bhatnagar
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InformationSystems_INFORMATIONSTORAGEANDRETRIEVAL ,ComputingMethodologies_DOCUMENTANDTEXTPROCESSING ,ComputingMilieux_COMPUTERSANDEDUCATION ,Data_FILES ,ComputerApplications_COMPUTERSINOTHERSYSTEMS - Abstract
Additional file 1. Supplementary information.
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- 2021
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44. Effectiveness of ChAdOx1 nCoV-19 vaccine during the delta (B.1.617.2) variant surge in India – Authors' reply
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Ramachandran Thiruvengadam, Amit Awasthi, Shinjini Bhatnagar, and Pramod Kumar Garg
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Infectious Diseases ,ChAdOx1 nCoV-19 ,Humans ,India - Published
- 2022
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45. Comparative Evaluation of SARS-CoV-2 IgG Assays in India
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Mukesh Sharma, Chandresh Sharma, Ramachandran Thiruvengadam, Suresh Kumar N, and Mudita Gosain
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biology ,Plasma samples ,business.industry ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,Spike Protein ,Asymptomatic ,Virology ,Virus ,Comparative evaluation ,biology.protein ,Medicine ,Antibody ,medicine.symptom ,business - Abstract
IgG immunoassays have been developed and used widely for clinical samples and serosurveys for SARS-CoV-2. We compared the performance of three immunoassays, an in-house RBD assay, and two commercial assays, the Diasorin LIAISON SARS-CoV-2 IgG CLIA which detects antibodies against S1/S2 domains of the Spike protein and the Zydus Kavach assay based on inactivated virus using a well-characterized sera-panel. 379 sera/plasma samples from RT-PCR positive individuals >20 days of illness in symptomatic or RT-PCR positivity in asymptomatic individuals and 184 pre-pandemic samples were used. The sensitivity of the assays were 84.7, 82.6 and 75.7 respectively for RBD, LIAISON and Kavach. Kavach and the in-house RBD ELISA showed a specificity of 99.5% and 100%, respectively. The RBD and LIAISON (S1/S2) assays showed high agreement (94.7%;95%CI:92.0,96.6) and were able to correctly identify more positives than Kavach. All three assays are suitable for serosurveillance studies, but in low prevalence sites, estimation of exposure may require adjustment based on our findings.
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- 2020
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46. A Luminex based serological assay for detecting IgM and IgG antibody response in SARS-CoV2 patients
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Uma Chandra Mouli Natchu, Pallavi Kshetrapal, Shailaja Sopory, Bapu Koundinya Desiraju, Vandita Bhartia, Tripti Shrivastava, Nitya Wadhwa, Shailendra Mani, Niraj Kumar, Ashok Kumar, Ramandeep Singh, Ramachandran Thiruvengadam, Sandeep Goswami, Sankar Bhattacharyya, Nagender Rameshwaram, and Sweety Samal
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Antibody response ,Multiplexed immunoassay ,Coronavirus disease 2019 (COVID-19) ,Specific detection ,business.industry ,Pcr test ,Nucleic acid ,Serological assay ,Medicine ,business ,Serum samples ,Virology - Abstract
Nucleic acid real-time PCR test has become the main diagnostic tool for SARS‐CoV‐2 infection, and there are also drawbacks to these real-time PCR test kits. Additionally, it has reported high false-negative rates. A reliable and rapid test method is urgently required to briskly detect antibody response in a large number of infected patients and ensure prompt care for patients. Therefore, we report here a Luminex bead based multiplexed immunoassay to serologically diagnose the SARS-CoV2 infection and detect IgM and IgG response in COVID-19 patients. The technology can provide sensitive and specific detection using a low amount of serum samples in high-throughput screening platforms.
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- 2020
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47. Comparison of first trimester dating methods for gestational age estimation and their implication on preterm birth classification in a North Indian cohort
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Ramya Vijayram, Nikhita Damaraju, Ashley Xavier, Bapu Koundinya Desiraju, Ramachandran Thiruvengadam, Sumit Misra, Shilpa Chopra, Ashok Khurana, Nitya Wadhwa, GARBH-Ini Study Group, Raghunathan Rengaswamy, Himanshu Sinha, and Shinjini Bhatnagar
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Adult ,Crown-rump length ,India ,Last menstrual period ,GARBH-Ini ,Ultrasonography, Prenatal ,03 medical and health sciences ,Young Adult ,0302 clinical medicine ,Pregnancy ,Machine learning ,Statistics ,Covariate ,medicine ,Humans ,Garbhini-GA1 ,030212 general & internal medicine ,Prospective Studies ,Mathematics ,Estimation ,030219 obstetrics & reproductive medicine ,business.industry ,Research ,Infant, Newborn ,Obstetrics and Gynecology ,Gestational age ,Preterm birth ,Gynecology and obstetrics ,medicine.disease ,CRL ,Pregnancy Trimester, First ,First trimester ,Cohort ,RG1-991 ,Premature Birth ,Female ,Ultrasonography ,business - Abstract
BackgroundDifferent formulae have been developed globally to estimate gestational age (GA) by ultrasonography in the first trimester of pregnancy. In this study, we develop an Indian population-specific dating formula and compare its performance with published formulae. Finally, we evaluate the implications of the choice of dating method on preterm birth (PTB) rate. This study’s data was from GARBH-Ini, an ongoing pregnancy cohort of North Indian women to study PTB.MethodsComparisons between ultrasonography-Hadlock and last menstrual period (LMP) based dating methods were made by studying the distribution of their differences by Bland-Altman analysis. Using data-driven approaches, we removed data outliers more efficiently than by applying clinical parameters. We applied advanced machine learning algorithms to identify relevant features for GA estimation and developed an Indian population-specific formula (Garbhini-GA1) for the first trimester. PTB rates of Garbhini-GA1 and other formulae were compared by estimating sensitivity and accuracy.ResultsPerformance of Garbhini-GA1 formula, a non-linear function of crown-rump length (CRL), was equivalent to published formulae for estimation of first trimester GA (LoA, - 0.46,0.96 weeks). We found that CRL was the most crucial parameter in estimating GA and no other clinical or socioeconomic covariates contributed to GA estimation. The estimated PTB rate across all the formulae including LMP ranged 11.27 – 16.50% with Garbhini-GA1 estimating the least rate with highest sensitivity and accuracy. While the LMP-based method overestimated GA by three days compared to USG-Hadlock formula; at an individual level, these methods had less than 50% agreement in the classification of PTB.ConclusionsAn accurate estimation of GA is crucial for the management of PTB. Garbhini-GA1, the first such formula developed in an Indian setting, estimates PTB rates with higher accuracy, especially when compared to commonly used Hadlock formula. Our results reinforce the need to develop population-specific gestational age formulae.
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- 2020
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48. Referee report. For: Adverse birth outcomes and their clinical phenotypes in an urban Zambian cohort [version 2; peer review: 2 approved]
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Shinjini Bhatnagar and Ramachandran Thiruvengadam
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- 2020
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49. Non-neutralizing SARS CoV-2 directed polyclonal antibodies demonstrate cross-reactivity with the HA glycans of influenza virus
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Kamini Jakhar, Reshma Perween, Adarsh Kumar Chiranjivi, Rajesh Kumar, Hilal Ahmad Parray, Ritika Khatri, Naveen S Yadav, Sweety Samal, Shubbir Ahmed, Pallavi Kshetrapal, Shailendra Mani, Kalpana Luthra, Supratik Das, Sudipta Sonar, S. K. Singh, Ramachandran Thiruvengadam, Shinjini Bhatnagar, Tripti Shrivastava, Praveenkumar Murugavelu, Chandresh Sharma, Vanshika Singh, Sankar Bhattacharyya, Preeti Vishwakarma, Anil Kumar Panchal, and Savita Singh
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Glycosylation ,Influenza vaccine ,viruses ,Immunology ,Cell Culture Techniques ,Hemagglutinin (influenza) ,Hemagglutinin Glycoproteins, Influenza Virus ,Cross Reactions ,medicine.disease_cause ,Neutralizing antibodies ,Cross-reactivity ,Epitope ,Article ,Madin Darby Canine Kidney Cells ,Antigen-Antibody Reactions ,Epitopes ,Mice ,Dogs ,Antigen ,Chlorocebus aethiops ,medicine ,Animals ,Humans ,Immunology and Allergy ,Vero Cells ,Pharmacology ,Antibody-dependent cell-mediated cytotoxicity ,Membrane Glycoproteins ,biology ,SARS-CoV-2 ,Glycan dependent ,COVID-19 ,Antibodies, Neutralizing ,Virology ,Influenza ,Mice, Inbred C57BL ,Epitope mapping ,Influenza Vaccines ,Spike Glycoprotein, Coronavirus ,SARS-CoV2 ,biology.protein ,HIV-1 ,Binding Sites, Antibody ,Antibody ,Epitope Mapping - Abstract
The spike protein of the SARS-CoV-2 virus is the foremost target for the designing of vaccines and therapeutic antibodies and also acts as a crucial antigen in the assessment of COVID-19 immune responses. The enveloped viruses; such as SARS-CoV-2, Human Immunodeficiency Virus-1 (HIV-1) and influenza, often hijack host-cell glycosylation pathways and influence pathobiology and immune selection. These glycan motifs can lead to either immune evasion or viral neutralization by the production of cross-reactive antibodies that can lead to antibody-dependent enhancement (ADE) of infection. Potential cross-protection from influenza vaccine has also been reported in COVID-19 infected individuals in several epidemiological studies recently; however, the scientific basis for these observations remains elusive. Herein, we show that the anti-SARS-CoV2 antibodies cross-reacts with the Hemagglutinin (HA) protein. This phenomenon is common to both the sera from convalescent SARS-CoV-2 donors and spike immunized mice, although these antibodies were unable to cross-neutralize, suggesting the presence of a non-neutralizing antibody response. Epitope mapping suggests that the cross-reactive antibodies are targeted towards glycan epitopes of the SARS-CoV-2 spike and HA. Overall, our findings address the cross-reactive responses, although non-neutralizing, elicited against RNA viruses and warrant further studies to investigate whether such non-neutralizing antibody responses can contribute to effector functions such as antibody-dependent cellular cytotoxicity (ADCC) or ADE.
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- 2021
50. VP34.14: Machine learning algorithms in ultrasound: quality assurance metrics for annotations used in training
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J.A. Noble, Aris T. Papageorghiou, Shinjini Bhatnagar, S. Tomar, K. Desiraju, Ramachandran Thiruvengadam, Qingchao Chen, S. Dhariwal, D. Mishra, A. Self, and V. Chandramohan
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Radiological and Ultrasound Technology ,business.industry ,Ultrasound ,Training (meteorology) ,Obstetrics and Gynecology ,General Medicine ,Machine learning ,computer.software_genre ,Reproductive Medicine ,Medicine ,Radiology, Nuclear Medicine and imaging ,Artificial intelligence ,business ,computer ,Quality assurance - Published
- 2020
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