Rupak Shivakoti, PhD, MSPH

Role: 
Faculty
Assistant Professor, Columbia University Mailman School of Public Health
Rupak Shivakoti, PhD, MSPH, is an Assistant Professor of Epidemiology at Columbia University Mailman School of Public Health, and a member of the faculty at the Johns Hopkins CCGHE. His formal training is in immunology, infectious diseases, and epidemiology.
 
Dr. Shivakoti’s primary research interest focuses on the central role of inflammation in HIV and TB outcomes, both in adult and maternal-infant populations. In addition, he is interested in the relationship of nutrition and gut microbiome with inflammation and health outcomes. He is the PI of NIH-funded projects related to these topics and conducted in diverse international settings, with a strong focus in India. More about Dr. Shivakoti's work can be found in the tabs below.
 
After completing his undergraduate degree in biology from DePauw University, Dr. Shivakoti received a MSPH in international health and a PhD in molecular microbiology and immunology from the Johns Hopkins Bloomberg School of Public Health. His PhD thesis, under the direction of Dr. Diane Griffin, focused on the innate and adaptive immune responses to the measles virus and measles vaccine. He completed his post-doctoral fellowship at JHU CCGHE with Dr. Amita Gupta serving as his mentor.

Gut Microbiota of HIV Infected Pregnant Women

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2018-06-14
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Birth Outcomes in HIV Both antiretroviral-therapy (ART)-naïve and ART-experienced HIV-infected pregnant women have higher incidences of pre-term birth (PTB) compared to HIV-uninfected women. For example, the global prevalence of PTB is around 8%, while the rates in in HIV-infected populations are...

Impact of Diabetes on TB Treatment Outcomes: Nested Study: Lipid Mediators of Inflammation in TB and TB-Diabetes

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2017-10-02
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Studies have shown that individuals with Tuberculosis (TB) and diabetes (TB-DM) have a distinct immune profile compared to individuals with TB alone. Individuals with TB-DM have higher inflammation, a higher bacillary load, increased Th1 immune responses and a defective neutrophil and macrophage...

Validation of Transcriptional Signature to Predict Active TB Disease among Advanced HIV Patients

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2017-08-15
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There have been tremendous advances in the diagnosis of patients with tuberculosis (TB) based on nucleic acid amplification of bacteria in the sputum. The GenXpert MTB/RIF provides results in 2 hours. However, in HIV-infected sputum smear is often negative for AFB and the sensitivity of GenXpert...

RePORT: C-TRIUMPH: Nested Study on Association of Lipid Mediators of Inflammation with TB Treatment Outcomes

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2017-08-03
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Recent studies have shown the significant role that host lipids play in modulating immunity and disease outcomes. Prostaglandins and leukotrienes are lipids that have a pro-inflammatory role in the fight against infectious agents while Specialized Pro-resolving lipid Mediators (SPMs) including...

Role of Specialized Pro-resolving Mediators (SPMs) on Markers of Inflammation in HIV-infected Adults

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2017-08-03
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Dr. Rupak Shivikoti is leading this study. There has been a surge of recent studies focusing on the role of novel lipid mediators of inflammation called specialized pro-resolving mediators (SPMs). They are produced during inflammation as a negative feedback to resolve inflammation. However, the...

Vaginal Microbiota in HIV Infected Pregnant Women

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2017-07-14
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Led by Dr. Rupak Shivakoti, this is a nested cross-sectional study of 30 HIV-infected and 60 non-HIV infected pregnant women. Pregnant women that are part of the parent study (“Impact of Immune Changes of HIV and Stages of Pregnancy on Tuberculosis” referred to as PRACHITI study from here on) will...

ART Study 1: Database: Epidemiology of HIV/AIDS and Associated Comorbidities in a Public Antiretroviral Treatment (ART) Clinic at BJGMC in Pune

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2016-09-19
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Since 2004, the National AIDS Control Program of India has been rolling out free antiretroviral therapy. Byramjee Jeejeebhoy Government Medical College (BJGMC), located in Pune, India, is now the largest HIV clinic in India, with over 26,000 adult and pediatric patients registered since 2005. We...

TB and Pregnancy Impact of Immune Changes of HIV and Stages of Pregnancy on Tuberculosis: Nested Study on Temporal Dynamics of Gut Microbiota in HIV Infected Pregnant Women

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2016-07-05
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This is a nested prospective longitudinal cohort study of 35 HIV-infected and 35 HIV-noninfected pregnant women who are part of the parent study “Impact of Immune Changes of HIV and Stages of Pregnancy on Tuberculosis." The objectives are to: Determine the association of gestational age with...

TB and Pregnancy Impact of Immune Changes of HIV and Stages of Pregnancy on Tuberculosis

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2014-09-01
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This is a cross sectional observational study known as PRACHITI (PRegnancy And CHanges In TuberculosIs), Purpose: TB is a leading cause of maternal mortality, especially among HIV-infected women. Women are most likely to develop active TB during and immediately after pregnancy. The immunologic...

RePORT: C-TRIUMPH: Cohort for Tuberculosis Research by the Indo-US Medical Partnership

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2013-09-28
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Collaboratively funded by the US NIH, India’s Department of Biotechnology [DBT], and Indian Council of Medical Research, the Cohort for TB Research by the Indo-US Medical Partnership (C-TRIUMPH) is an Indo-US research consortium that is part of RePORT India, a countrywide consortium for TB research...

Impact of Malnutrition on HIV Treatment Failure in Resource-limited Settings

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2010-01-01
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Highly active antiretroviral therapy (HAART) has reduced morbidity and mortality among HIV-infected persons worldwide. However, early treatment failure (i.e. WHO stage 3 or 4 illnesses or death during the first 24 months of HAART) is more than 3-fold higher in resource limited settings (RLS) than...

Inflammation and micronutrient biomarkers predict clinical HIV treatment failure and incident active TB in HIV-infected adults: a case-control study

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2018-09-24
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BMC Medicine
Factors identified through exploratory factor analysis were associated with adverse outcomes in HIV-infected individuals.

Trends in HbA1c levels and implications for diabetes screening in tuberculosis cases undergoing treatment in India

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2018-07-01
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International Journal of Tuberculosis and Lung Disease
SETTING: The optimal timing of screening for diabetes mellitus (DM) among tuberculosis (TB) cases is unclear due to the possibility of stress hyperglycemia. DESIGN: We evaluated adult (18 years) pulmonary TB cases at treatment initiation as well as at 3 months, 6 months and 12 months. DM was...

Effect of baseline micronutrient and inflammation status on CD4 recovery post-cART initiation in the multinational PEARLS trial

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2018-05-29
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Clinical Nutrition
Nutritional deficiency and inflammation may impact CD4+ T cell recovery during combination antiretroviral therapy (cART), particularly in resource-limited settings where malnutrition is prevalent. The aim of this study was to investigate the relationship of micronutrient and inflammation biomarkers to CD4 recovery after cART initiation.

Intestinal barrier dysfunction and microbial translocation in HIV-infected pregnant women is associated with preterm birth

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2018-03-24
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Clinical Infectious Diseases
Our results show select immune markers can identify women at higher risk for PTB in HIV-1-infected populations and suggest modulating gut barrier integrity and microbial translocation may affect PTB.

Prevalence of dysglycemia and clinical presentation of pulmonary tuberculosis in Western India

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2017-12-01
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International Journal of Tuberculosis and Lung Disease
Objectives: To estimate the prevalence and risk factors of pre-diabetes mellitus (DM) and DM, and its associations with the clinical presentation of tuberculosis (TB). Design: Screening for DM was conducted among adults (age  18 years) with confirmed TB between December 2013 and January 2017. We...

Vitamin A and D deficiencies associated with incident tuberculosis in HIV-infected patients initiating antiretroviral therapy in multinational case-cohort study

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2017-07-01
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Journal of Acquired Immune Deficiency Syndromes
Introduction: Numerous micronutrients have immunomodulatory roles that may influence risk of tuberculosis (TB), but the association between baseline micronutrient deficiencies and incident TB after antiretroviral therapy (ART) initiation in HIV-infected individuals is not well characterized...

Continued elevation of interleukin-18 and interferon-γ after initiation of antiretroviral therapy and clinical failure in a diverse multicountry human immunodeficiency virus cohort

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2016-07-27
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Open Forum Infectious Diseases
Background: We assessed immune activation after antiretroviral therapy (ART) initiation to understand clinical failure in diverse settings. Methods: We performed a case-control study in ACTG Prospective Evaluation of Antiretrovirals in Resource-Limited Settings (PEARLS). Cases were defined as...

Persistently elevated C-reactive protein level in the first year of antiretroviral therapy, despite virologic suppression, is associated with HIV disease progression in resource-constrained settings

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2016-04-01
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The Journal of Infectious Diseases
A case-cohort analysis of human immunodeficiency virus (HIV)-infected individuals receiving antiretroviral therapy (ART) was performed within a multicountry randomized trial (PEARLS) to assess the prevalence of persistently elevated C-reactive protein (CRP) levels, based on serial measurements of...

Prevalence and risk factors of micronutrient deficiencies pre- and post-antiretroviral therapy (ART) among a diverse multicountry cohort of HIV-infected adults

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2016-02-10
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Clinical Nutrition
Background & Aims: HIV-infected adults have increased risk of several individual micronutrient deficiencies. However, the prevalence and risk factors of concurrent and multiple micronutrient deficiencies and whether micronutrient concentrations change after antiretroviral therapy (ART)...

Soluble CD14: An independent biomarker for risk of HIV mother-to-child transmission in setting of pre- and post-exposure antiretroviral prophylaxis

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2015-10-06
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The Journal of Infectious Diseases
Elevated soluble CD14 (sCD14) concentrations, a marker of monocyte activation, predicts adverse outcomes in human immunodeficiency virus (HIV)-infected adults. To examine the association of sCD14 concentrations with the risk of mother-to-child transmission (MTCT) of HIV, we nested a case-control...

Concurrent anemia and elevated CRP predicts HIV clinical treatment failure, including TB, post-antiretroviral therapy initiation

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2015-07-01
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Clinical Infectious Diseases
Background: Anemia is a known risk factor for clinical failure following antiretroviral therapy (ART). Notably, anemia and inflammation are interrelated, and recent studies have associated elevated C-reactive protein (CRP), an inflammation marker, with adverse human immunodeficiency virus (HIV)...

Pre-antiretroviral therapy selenium status predicts WHO stages 3, 4 or death but not virologic failure post-antiretroviral therapy

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2014-11-13
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Nutrients
A case-cohort study, within a multi-country trial of antiretroviral therapy (ART) efficacy (Prospective Evaluation of Antiretrovirals in Resource Limited Settings (PEARLS)), was conducted to determine if pre-ART serum selenium deficiency is independently associated with human immunodeficiency virus...

Association between Dietary Intake and the Composition of the Vaginal Microbiota

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2018-06-20
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Shivakoti R , Tuddenham S, Caulfield LE, Robinson C, Rave J, Ghanem K, Brotman R. Association between dietary intake and the composition of the vaginal microbiota. Society for Epidemiologic Research 51st Annual Meeting. Baltimore, MD. June 19-22, 2018.

Association between Dietary Intake and the Composition of the Vaginal Microbiota

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2018-06-09
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Shivakoti R , Tuddenham S, Caulfield LE, Robinson C, Rave J, Ghanem K, Brotman R. Association between Dietary Intake and the Composition of the Vaginal Microbiota. Oral presentation at Nutrition 2018 Conference. American Society for Nutrition. Boston, MA. June 9, 2018.

Inflammation in HIV-Infected Pregnant Women is Associated with Pre-term Birth

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2018-03-07
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Shivakoti R , Gupte N, Kumar NP, Kulkarni V, Balasubramanian U, Bhosale R, Sambarey P, Kinikar A, Bharadwaj R, Patil S, Inamdar S, Suryavanshi N, Babu S, Bollinger R, Gupta A. Inflammation in HIV-Infected Pregnant Women is Associated with Pre-term Birth. CROI 2018. Boston, MA. 2018

Trends in Glycated Hemoglobin Levels and Implications for Diabetes Screening among Pulmonary Tuberculosis Cases Undergoing Treatment in India

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2017-09-13
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Gupte AN , Mave V, Meshram S, Lokhande R, Kadam D, Dharmshale S, Bharadwaj R, Kagal A, Pradhan N, Deshmukh S, Atre S, Sahasrabudhe T, Barthwal M, Meshram S, Kakrani A, Kulkarni V, Raskar S, Suryavanshi S, Shivakoti R, Chon S, Selvin E, Gupte N, Gupta A, Golub JE. Trends in Glycated Hemoglobin...

Inflammation Biomarkers Predict Clinical Treatment Failure in HIV-infected Adults

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2017-02-14
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Shivakoti R , Gupte N, Pillay S, Riviere C, Cardoso SW, Balagopal A, Semba R, Campbell T, Gupta A. Inflammation Biomarkers Predict Clinical Treatment Failure in HIV-infected Adults. CROI 2017. Seattle, Washington. 2017.

Impact of Immune Changes of Pregnancy and HIV Infection on Tuberculosis

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2017-02-03
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Mathad J, Alexander M , Bhosale R, Naik S, Shivakoti R, Mave V, Suryavanshi N, Gupte N, Kulkarni V, Pradan N, Patil N, Gupta A. Impact of Immune Changes of Pregnancy and HIV Infection on Tuberculosis. 6th Annual Regional Prospective Observational Research for Tuberculosis (RePORT) India Joint...

Inflammation in HIV-infected Pregnant Women: Relationship with Diet, Gut Microbiome, and Preterm Birth

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2016-06-10
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Shivakoti, R. Inflammation in HIV-infected Pregnant Women: Relationship with Diet, Gut Microbiome, and Preterm Birth. JHU Center for AIDS Research Annual Meeting. Baltimore, MD.

Prevalence and Risk Factors of Multiple Micronutrient Deficiencies Pre- and Post-ART

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2015-02-24
Shivakoti R, Christian P, Gupte N, Kanyama C, Berendes S, Lama JR, Semba RD, Campbell TB, Gupta A for the NWCS 319 and PEARLS Study Team. Prevalence and Risk Factors of Multiple Micronutrient Deficiencies Pre- and Post-ART. Conference on Retroviruses and Opportunistic Infections 2015. Seattle, WA...

Shivani Mehta

Baltimore, Maryland
Shivani Mehta is a BS/BA candidate (2018) in public health at the Johns Hopkins Krieger School of Arts and Sciences, who is working with Drs. Rupak Shivakoti and Mallika Alexander on Maternal Inflammation, Diet and Gut Microbiome in HIV: Impact on Infant Outcomes. Ms. Mehta spent June and July 2016 at BJGMC in Pune, India, working under Dr. Alexander. Awards 2016 Global Health Established Field Placement Grant 2016 Johns Hopkins Provost Undergradulate Research Award for 2016-17 From Ms. Mehta's Field Report: This week, as the patients come in, I have been sitting with the counselors and...

Prarthana Vasudevan

Baltimore, Maryland
Prar Vasudevan is an international health graduate student at the Johns Hopkins School of Public Health. In Autumn 2015, she conducted a field placement in Pune, India, at BJGMC under Dr. Vidya Mave, where she worked on the study titled Maternal Inflammation, Diet and Gut Microbiome in HIV: Impact on Infant Outcomes. She is a 2015 recipient of the Global Health Established Field Placement Grant. From Prar Vasudevan's Field Report: At BJMC, I had the opportunity to make rounds in the hospital’s ART Clinic, Labor & Delivery wards, and children’s wards. I was immediately struck by the fact...

Up Close: Rupak Shivakoti

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2016-04-01
Improving Health of HIV-infected Mothers and their Infants in India Rupak Shivakoti’s work takes guts—no joke. “Our team is looking at whether inflammation, diet, and the gut microbiome of pregnant women are predictors of preterm delivery, low birth weight, and small-for-gestational age in India,”...

Advancing Global TB Research through RePORT

Post Date: 
2016-02-29
Regional Prospective Observational Research for Tuberculosis (RePORT) International is a large, international tuberculosis research effort being undertaken by 4 regional consortia: RePORT Brazil, RePORT South Africa, RePORT Indonesia, and RePORT India. While each region collects and maintains its...