Accelerating Development of TB Treatment

The Preclinical Design and Clinical Translation of Regimens for Tuberculosis (PReDiCTR-TB) Consortium unites top scientists and global stakeholders to prioritize and advance the most promising TB regimens into clinical trials. Our data-driven translational research platform bridges preclinical models with clinical success to identify TB regimens with the greatest potential for clinical success.

How We Work

Lengthy TB treatment poses obstacles to treatment and to research.

The Challenge

Treatment for TB requires multidrug therapy, significantly complicating regimen design due to the sheer number of possible drug combinations (on the order of tens of thousands of potential combinations).

Traditional development is slow, costly, and often fails to meet the needs of vulnerable populations. It has often been hindered and misled by poor preclinical-to-clinical translation. With so many possible combinations, the challenge becomes prioritizing the most promising multidrug regimens to be tested in resource-intensive clinical trials.

“The vision is to accelerate, de-risk, and chose the right strategy”

– Rada Savic, PhD, MBA

Our Approach

The PReDiCTR-TB Consortium unites key scientists and dedicated stakeholders to build a translational research platform to accurately and efficiently identify and advance the most promising TB treatment regimens through the developmental pipeline into clinical trials.

  • Establish a multidisciplinary coalition of scientific leaders to develop and pursue a translational research agenda to evaluate, prioritize and optimize novel drug regimens for clinical trials.
  • Validate, refine and utilize a model-based platform for quantitative predictions of clinical outcomes to evaluate, prioritize, and optimize.
  • Validate, refine, and utilize in vitro methodologies to predict in vivo efficacy of regimens.
Learn More About Our Labs
Predicting safe and effective TB regimens with data integration, synthesis, and modeling
PReDiCTR-TB Consortium Researchers
It's not just moving these regimens forwards into trials but backtranslating them into better preclinical research.

Innovation

We now have the knowledge and tools to apply to the design of novel regimens to streamline TB regimen development, for all. We have all the necessary parts to integrate the experiments, knowledge and data, to carefully design and select the best regimens to advance further. 



Integrated approach for backtranslation of existing regimens. Forward prediction and regimen ranking of novel regimens.

New in vivo tools to de-risk & accelerate regimen development
C3HeB/FeJ mouse model
  • Better represents high-risk patient phenotypes
  • Enables lesion pharmacokinetic-pharmacodynamic (PK-PD) assessment
RS ratio-enabled ultra-short-course mouse model
  • Efficient ranking of regimens to test in the relapsing mouse model
  • May be applicable to C3HeB/FeJ mice
New tools for improving in vitro-in vivo translation
DiaMOND-based predictions
  • Efficiently prioritize regimens for in vivo study
  • Can include PK-informed dose ratios
Caseum-based persister assay
  • Can include lesion PK-informed dose ratios
  • Can be studied in key milieu
View our Recent Publications
Advances in TB regimens should benefit children without delay
Continuous improvement in predictive tools:
cross-cutting activities with data science & modeling
Provide mechanistic insights on key drug interactions, PK-PD, impact of microenvironment

30+

Researchers

20+

Institutions

The Consortium

The PReDiCTR-TB Consortium is a collaboration of 30+ researchers, 20+ institutions, and multiple clinical trial networks working across the TB drug development pipeline.

Scientific Leadership and Collaboration
Including Pediatric Expertise and Guidance
Learn More About Our Consortium
Collaborating with Global Networks

Explore Our Preclinical & Data Sciences Laboratories

Omics
Cornell University Weill Cornell Medicine

Validate, refine & utilize in vitro methodologies to predict in vivo efficacy of regimens

PhyBM
University of Colorado Anschutz Medical Campus

Physiologic Biomarker, synthesizing in vitro, murine & human evidence

DSMG
University of California, San Francisco

Data integration and clinical simulation tools to advance drug therapy

DMPK
Hackensack Meridian Health Center for Discovery and Innovation

Incorporating lesion-centric PK and PD measurements into translational models 

CSU-mouse
Colorado State University

Optimizing translational value of preclinical mouse models

DiaMOND
Tufts University

Systematic in vitro studies of drug combinations

JHU-mouse
Johns Hopkins Medicine

Murine models to inform TB regimen development

Explore the Environments Where Innovation Begins

The Core PReDiCTR-TB Consortium Researchers

Introducing The Consortium Scientists

“We are committed to being of service to the TB research community, to patients living with the disease, and to affected communities globally”
– 
Rada Savic
PhD, MBA

Rada Savic

,

PhD, MBA

Data Science and Modeling Group

Research in the Savic Lab focuses on data integration and the transformative potential of computational tools and artificial intelligence to advance drug development and routine drug therapy in infectious diseases including special populations such as children and pregnant women. Dr. Savic applies innovative, quantitative, and systems pharmacology methods to propose optimized and precision dosing strategies, data-driven risk stratification algorithms, and inspires new clinical simulation tools across the infectious disease landscape.

"We work with partners across the spectrum from drug discovery to clinical trials networks to inform and advance the development of transformative new regimens to treat and prevent tuberculosis."
– 
Eric Nuermberger
MD

Eric Nuermberger

,

MD

JHU-mouse Preclinical Laboratory

Research in the Nuermberger lab focuses primarily on experimental chemotherapy for tuberculosis. We use proven murine models of active and latent tuberculosis infection to assess the effectiveness of novel antimicrobials. A key goal is to identify new agents to combine with existing drugs to shorten tuberculosis therapy or enable less frequent drug administration. We're also using a flow-controlled in vitro pharmacodynamic system to better understand the pharmacodynamics of drug efficacy and the selection of drug-resistant mutants during exposure to current agents.

“There is an urgent medical need for new, more effective human TB treatments. Our central hypothesis is that to cure disease, drugs must first reach site of infection and once they get there, they must be active against the bacterial phenotypes present.”
– 
Gregory Robertson
PhD

Gregory Robertson

,

PhD

CSU-mouse PL

Dr. Robertson’s research is focused on the field of Mycobacterium tuberculosis host-pathogen interactions with emphasis on the development of novel preclinical tools, use of TB mouse models for drug evaluation, and evaluation of drug activity and resistance in vitro and in vivo. He also leads preclinical animal studies as part of the Consortium for Applied Microbial Metrics including other investigators from the University of California San Francisco, Denver VA Medical Center, and CU Anschutz Medical Campus.

As part of the PReDiCTR-TB Consortium, the CSU-Mouse Preclinical Laboratory (CSU-Mouse PL) focuses on optimizing translational value of preclinical mouse models.

“Tuberculosis drug evaluation has long focused exclusively on measurement of bacterial burden. By introducing molecular measures of pathogen health, we bring new information on drug activity that will drive selection of the best combination regimens to cure TB more rapidly.”
– 
Nicholas Walter
MD, PhD

Nicholas Walter

,

MD, PhD

PhyBM Preclinical Laboratory

Dr Walter’s research focuses on development and practical application of novel pharmacodynamic markers with the goal of accelerating new regimen development.   Dr Walter’s team has developed a portfolio of molecular tools that provide information on the pathogen’s physiologic processes (i.e., “pathogen health”) rather than pathogen burden.

This orthogonal perspective reveals insights distinct from traditional culture-based pharmacodynamics.  The Walter lab applies these tools in conjunction with other PReDiCTR-TB labs to maximize information available for decision-making.

“Over 12 years, we’ve advanced methods to measure lesion-centric PK/PD parameters. Prioritizing drug combinations that target all M. tuberculosis populations can improve the efficiency and lower the cost of TB regimen development.”
– 
Jansy Sarathy
PhD

Jansy Sarathy

,

PhD

DMPK Preclinical Laboratory

Jansy Sarathy is an Assistant Professor at the Hackensack Meridian School of Medicine in Nutley, New Jersey, and an Assistant Member at the Center for Discovery and Innovation. Her research focuses on applying site-of-disease pharmacokinetic-pharmacodynamic (PK-PD) concepts to rationalize TB treatment efficacy. She is particularly interested in addressing nonreplicating persistent populations of M. tuberculosis in hard-to-treat sites of infection.

“Molecular assessment of pathogen cellular processes and adaptability is transforming our understanding of effective drug combinations.”
– 
Martin Voskuil
PhD

Martin Voskuil

,

PhD

PhyBM Preclinical Laboratory

Dr. Voskuil’s research is focused on the ability of aerobic bacterial pathogens to exist in non-replicating states that are distinct from the replicating bacteria most often studied. We hypothesize that these states are central to the pathogens survival during latent infections and their ability to tolerate conventional drug treatment. The physiological state of Mycobacterium tuberculosis during latent infection has been a focus of our research. A primary reason for the continued threat from M. tuberculosis lies in its ability to establish an asymptomatic latent infection, which serves as a reservoir for future infections.

“Development of new medicines depends on the integration of many different scientific disciplines. The PReDiCTR-TB consortium does this as well as any other consortium I have participated in.”
– 
Dirk Schnappinger
PhD

Dirk Schnappinger

,

PhD

Omics Preclinical Laboratory

The Schnappinger Lab studies Mycobacterium tuberculosis (Mtb) with the goal to facilitate the development of new medicines for treatment or prevention of Tuberculosis (TB). This work began with developing a regulatory system that allows to turn Mtb genes on and off, both in vitro and during infections. The Schnappinger lab now uses this system (i) to evaluate Mtb gene products as new targets for TB drug development by documenting the impact of their inactivation on growth and persistence of Mtb in vitro and during infections; (ii) to help elucidate the mechanisms by which small-molecules inhibit the growth of Mtb.

“Our hope is that the application of new functional genomic tools will assist in the development of more effective TB therapies.”
– 
Jeremy Rock
PhD

Jeremy Rock

,

PhD

Omics Preclinical Laboratory

Mycobacterium tuberculosis is the leading cause of death due to infectious disease. By investigating the mechanisms that enable this bacterium to cause tuberculosis and evade current antibiotics, the Rock lab, at The Rockefeller University, aims to lay the foundation for new therapeutic strategies to improve control of this epidemic.

Despite the discovery of antibiotics, tuberculosis (TB) remains an enduring global public health threat.

“The PReDiCTR-TB Consortium unites scientists across the TB therapeutic research spectrum — from mechanistic studies and novel animal models to advanced data integration — to accelerate TB drug and regimen development.”
– 
Kelly Dooley
MD, PhD, MPH

Kelly Dooley

,

MD, PhD, MPH

Clinical Lead, PReDiCTR-TB Consortium, and Chair of the Scientific Leadership Group

Trained as an Infectious Diseases specialist and Clinical Pharmacologist, Dr. Dooley’s research focuses on tuberculosis therapeutics with an emphasis on clinical trials of TB and HIV-TB co-treatment. She has served as lead investigator for trials of therapeutics for drug-sensitive and drug-resistant TB, HIV-TB, and pediatric TB meningitis funded by the NIH, the FDA, UNITAID, and industry partners.

“Our goal is to help realize the full therapeutic potential of TB antibiotics through collaborative regimen design.”
– 
Bree Aldridge
PhD

Bree Aldridge

,

PhD

DiaMOND Preclinical Laboratory

Our research focuses on designing optimized therapies for TB using cell biology and engineering approaches. Our lab is a multidisciplinary research team, integrating quantitative measurement with computational modeling and analysis to create intuitive descriptions of complex cell biology. We focus our studies on (1) characterizing single-cell determinants of mycobacterial drug tolerance, (2) understanding how growth heterogeneity is controlled, and (3) engineering combination therapy.

As part of the PReDiCTR-TB Consortium, the DiaMOND Preclinical Laboratory (DiaMOND PL) uses a geometric optimization of traditional drug combination assays, to efficiently measure drug interactions and combination efficacies.

“Collaborative and interdisciplinary research is among the most productive, engaging, and effective way to tackle complex problems. The PReDiCTR-TB consortium exemplifies this approach.”
– 
Sabine Ehrt
PhD

Sabine Ehrt

,

PhD

Omics Preclinical Laboratory

Mycobacterium tuberculosis is responsible for the largest number of deaths worldwide due to a single bacterial infection. The increasing number of multi-drug resistant (MDR) and extensively drug resistant (XDR) M. tuberculosis strains and the lack of an effective vaccine exacerbate the problem. The research in our laboratory focuses on the interaction of M. tuberculosis with macrophages, aims to elucidate the bacterial and host molecular mechanisms required to establish and maintain latent tuberculosis infection and seeks to facilitate the development of new therapies for the treatment and prevention of tuberculosis.

"By studying clinically relevant features of the fundamental physiology of Mycobacterium tuberculosis, we aim to discover novel potential diagnostic and therapeutic targets with the potential to yield shorter, safer cures for TB."
– 
Kyu Rhee
MD, PhD

Kyu Rhee

,

MD, PhD

Omics Preclinical Laboratory

Dr. Rhee currently serves as professor of medicine in the Division of Infectious Diseases, associate professor of microbiology and immunology at Weill Cornell and associate attending physician at NewYork-Presbyterian Hospital/Weill Cornell Medical Center.  His clinical interests are in the areas of tuberculosis and antibiotic pharmacology.  His major research interests are in elucidating the basic physiology of Mycobacterium tuberculosis, the causative agent of TB, and identification of novel drug targets.

Upcoming Seminar

Early Career Seminar Series:
Designing Better TB Regimens

Stay tuned for announcements about upcoming seminars in this series.

Let’s Transform 

TB Treatment Together

Interested in collaborating or learning more about our work?

Contact Us

Kyu Rhee

,

MD, PhD

Omics Preclinical Laboratory

Dr. Rhee currently serves as professor of medicine in the Division of Infectious Diseases, associate professor of microbiology and immunology at Weill Cornell and associate attending physician at NewYork-Presbyterian Hospital/Weill Cornell Medical Center.  His clinical interests are in the areas of tuberculosis and antibiotic pharmacology.  His major research interests are in elucidating the basic physiology of Mycobacterium tuberculosis, the causative agent of TB, and identification of novel drug targets. Dr. Rhee received his undergraduate degree from Cornell University and his M.D. and Ph.D. degrees from the University of California, Irvine, followed by clinical training in internal medicine and infectious diseases at Weill Cornell, where he has remained on the faculty since 2005, and also co-directs the Medical Research Residency track in internal medicine.

As part of the PReDiCTR-TB Consortium Omics Preclinical Laboratory (Omics PL), we aim to backtranslate the clinical treatment shortening activity of current 4 month treatments into specific antimicrobial mechanisms of action and targets. We will do so by applying state-of-the-art metabolomic technologies to capture Mtb's biochemical response to drug treatment on a systems-level scale on a bulk population scale. We will also apply newly developed bacterial single cell RNA sequencing technologies to characterize Mtb's transcriptional response to these same treatments on a subpopulation level. Together, we aim to define molecular mechanisms and targets capable of achieving shorter, safer cures for TB.

Sabine Ehrt

,

PhD

Omics Preclinical Laboratory

The research in my laboratory focuses on the pathogenesis of tuberculosis (TB) with the goal to aid the development of new chemotherapies and vaccines. We investigate the molecular mechanisms that enable Mycobacterium tuberculosis to establish and maintain chronic infections and resist host defenses. We apply molecular genetics to identify new points of vulnerability, which could be targeted to kill populations that escape current chemotherapy in people with latent M. tuberculosis infection. We also analyze host immune factors that are required to control M. tuberculosis and try to identify new strategies to generate improved TB vaccines.

As part of the PReDiCTR-TB Consortium, the Omics Preclinical Laboratory (Omics PL) combines genomics with metabolomics and transcriptomics to study drug regimens of varying clinical efficacy to define mechanism-based biomarkers of the clinical efficacy of combination regimens and functional drivers of their efficacy.

Bree Aldridge

,

PhD

DiaMOND Preclinical Laboratory

Our research focuses on designing optimized therapies for TB using cell biology and engineering approaches. Our lab is a multidisciplinary research team, integrating quantitative measurement with computational modeling and analysis to create intuitive descriptions of complex cell biology. We focus our studies on (1) characterizing single-cell determinants of mycobacterial drug tolerance, (2) understanding how growth heterogeneity is controlled, and (3) engineering combination therapy.

As part of the PReDiCTR-TB Consortium, the DiaMOND Preclinical Laboratory (DiaMOND PL) uses a geometric optimization of traditional drug combination assays, to efficiently measure drug interactions and combination efficacies. We aim to use systematic measurement of drug combinations to optimize TB drug regimens and learn how to construct improved combinations. Our methods are broadly applicable to other disease models.

Martin Voskuil

,

PhD

PhyBM Preclinical Laboratory

Dr. Voskuil’s research is focused on the ability of aerobic bacterial pathogens to exist in non-replicating states that are distinct from the replicating bacteria most often studied. We hypothesize that these states are central to the pathogens survival during latent infections and their ability to tolerate conventional drug treatment. The physiological state of Mycobacterium tuberculosis during latent infection has been a focus of our research. A primary reason for the continued threat from M. tuberculosis lies in its ability to establish an asymptomatic latent infection, which serves as a reservoir for future infections. One-third of the world's population is latently infected with tuberculosis and current treatment of latent infections is inefficient. Little is known about the nature of the latent state including the physiological and metabolic state of the bacilli. In vitro studies demonstrate M. tuberculosis, an obligate aerobe, has the ability to undergo a distinct physiologic adaptation to a non-respiring state in response to low O2 levels and or the presence of the respiratory stresses, nitric oxide (NO) and carbon monoxide (CO). The respiratory stress-induced state is marked by bacteriostasis, in addition to metabolic, chromosomal, and structural changes in the bacteria. These stresses instigate a rapid and dramatic induction of a set of 48 genes (DosR regulon) in M. tuberculosis. These genes are coordinately regulated and encode functions that are essential for survival in the absence of aerobic respiration. NO, CO and O2 levels modulate the induction of the DosR regulon and concurrently control bacterial respiration and growth. It appears that control of respiration by NO and CO production and O2 deprivation via granuloma formation are potent components of immune control of M. tuberculosis. However, the bacilli have evolved mechanisms to survive and persist during the growth arresting state produced by active immune pressure. Research in my laboratory utilizes genetic, microarray, metabolomic, biochemical, and animal studies to investigate the mechanisms employed by M. tuberculosis to survive during latent infection, with a particular focus on the role of the DosR regulon and the central metabolic processes essential in the absence of aerobic respiration.

As part of the PReDiCTR-TB Consortium, PhyBM Preclinical Laboratory (PhyBM PL) the Voskuil Lab will perform in vitro RS ratio analysis and high throughput RS assays of drugs and drug combinations and process preclinical samples for RS ratio and SEARCH-TB molecular analysis provided by PReDiCTR PLs and associated laboratories. In vitro drug assessment based on impact on pathogen adaptability is portable to murine models and will accelerate identification of drug combinations with optimal treatment shortening properties and ability to overcome drug resistance.

Nicholas Walter

,

MD, PhD

PhyBM Preclinical Laboratory

Dr Walter’s research focuses on development and practical application of novel pharmacodynamic markers with the goal of accelerating new regimen development.   Dr Walter’s team has developed a portfolio of molecular tools that provide information on the pathogen’s physiologic processes (i.e., “pathogen health”) rather than pathogen burden.

This orthogonal perspective reveals insights distinct from traditional culture-based pharmacodynamics.  The Walter lab applies these tools in conjunction with other PReDiCTR-TB labs to maximize information available for decision-making.

Gregory Robertson

,

PhD

CSU-mouse PL

Dr. Robertson’s research is focused on the field of Mycobacterium tuberculosis host-pathogen interactions with emphasis on the development of novel preclinical tools, use of TB mouse models for drug evaluation, and evaluation of drug activity and resistance in vitro and in vivo. He also leads preclinical animal studies as part of the Consortium for Applied Microbial Metrics including other investigators from the University of California San Francisco, Denver VA Medical Center, and CU Anschutz Medical Campus.

As part of the PReDiCTR-TB Consortium, the CSU-Mouse Preclinical Laboratory (CSU-Mouse PL) focuses on optimizing translational value of preclinical mouse models. Providing knowledge and expertise in preclinical drug assessments in mice: Heterogeneity of disease and shorter, low resource predictive models – complementary to the JHU-Mouse PL.

  • Member and Animal model lead for the B&MGF TB Drug Accelerator program
  • Founding member and Animal Lead for the Consortium for Applied Microbial Metrics (PhyBM PL)
  • Co-I/Animal model consultant for the NIH in vivo IDIQ contract at  CSU
  • Co-developer of the RS ratio and SEARCH-TB PD markers (PhyBM PL, DSMG)
  • Co-developer of the Ultra Short Source Model (PhyBM, DiaMOND PLG, DSMG)

Jansy Sarathy

,

PhD

DMPK Preclinical Laboratory

Dr. Sarathy’s research focuses on applying site-of-disease pharmacokinetic-pharmacodynamic (PK-PD) concepts to provide a pharmacological rationale for tuberculosis treatment efficacy. Mycobacterium tuberculosis (MTB) is a highly successful pathogen because it is well adapted to surviving in diverse host microniches with variable vasculature and distinct environmental conditions. Its ability to go into a nonreplicating drug persistent (NRP) state in response to stresses encountered within the host is a major impediment to curing the disease. The necrotic core of tuberculous lesions and cavities, commonly referred to as caseum, are reservoirs of extracellular bacteria that are recalcitrant to antibiotic treatment. Furthermore, suboptimal drug distribution in the non-vascularized caseous compartment results in pockets of subinhibitory drug concentrations and increased chances of emergence of resistant mutants. Effective eradication of this subpopulation using multidrug regimens promises to shorten the duration of tuberculosis chemotherapy and prevent disease relapse.

As part of the PReDiCTR-TB Consortium, the Drug Metabolism and PharmacoKinetics Preclinical Laboratory (DMPK PL) brings a fully integrated mass spectrometry bioanalytical platform and biosafety level 3 facilities at CDI to study drug metabolism and pharmacokinetics properties of existing TB drugs and compounds in preclinical development. This work is enabled by lesion-centric PK studies in several animal models of TB infection. The coupling of laser capture microdissection (LCM) to liquid chromatography –tandem mass spectrometry (LC-MS/MS) analysis supports the detailed spatial and temporal resolution of drug distribution in TB granulomas.

Eric Nuermberger

,

MD

JHU-mouse Preclinical Laboratory

Research in the Nuermberger lab focuses primarily on experimental chemotherapy for tuberculosis. We use proven murine models of active and latent tuberculosis infection to assess the effectiveness of novel antimicrobials. A key goal is to identify new agents to combine with existing drugs to shorten tuberculosis therapy or enable less frequent drug administration. We're also using a flow-controlled in vitro pharmacodynamic system to better understand the pharmacodynamics of drug efficacy and the selection of drug-resistant mutants during exposure to current agents.

As part of the PReDiCTR-TB Consortium, the JHU-Mouse Preclinical Lab (JHU-Mouse) in the Nuermberger Lab focuses primarily on experimental chemotherapy for tuberculosis. We use proven murine models of active and latent tuberculosis infection to assess the pharmacokinetics and pharmacodynamics of novel antimicrobials and the efficacy of combination drug regimens. Key goals are to identify novel combinations of new or existing drugs and optimize the contribution of each component to create new regimens capable of shortening or otherwise simplifying tuberculosis therapy and restricting the emergence of resistance.

Kelly Dooley

,

MD, PhD, MPH

Scientific Leadership and Clinical Lead

Trained as an Infectious Diseases specialist and Clinical Pharmacologist, Dr. Dooley’s research focuses on tuberculosis therapeutics with an emphasis on clinical trials of TB and HIV-TB co-treatment. She has served as lead investigator for trials of therapeutics for drug-sensitive and drug-resistant TB, HIV-TB, and pediatric TB meningitis funded by the NIH, the FDA, UNITAID, and industry partners. She is on the TB scientific committees of the Advancing Clinical Therapeutics Globally (ACTG) and International Maternal Pediatric Adolescent AIDS Clinical Trials (IMPAACT) networks and is the Chair of the Core Science Group (CSG) of the US CDC’s Tuberculosis Trials Consortium (TBTC).  She serves regularly on panels or guidelines committees for the World Health Organization.

As the Clinical Lead within the PReDiCTR-TB Consortium, Dr. Dooley’s serves as the liaison between the Preclinical Laboratory Group (PLG) and Data Science and Modeling Group (DSMG) scientists and the global network of TB trialists the consortium is aiming to serve. She serves as Chair of the Scientific Leadership Group (SLG), and her duties include member selection, coordination of sessions, and development of the next generation of researchers through the consortium’s Early Career Interest Group (ECIG).  The SLG is comprised of leaders in TB therapeutics research globally. They represent the networks, organizations, and companies most active in trials of novel TB therapeutics. The Pediatric Focus Committee (PFC) is a sub-group of the SLG with specific expertise in TB disease and its treatment in children. PFC members have broad experience in clinical trial design, pharmacometrics, biomarkers, pathophysiology, and immunology related to pediatric TB.

Jeremy Rock

,

PhD

Omics Preclinical Laboratory

Mycobacterium tuberculosis is the leading cause of death due to infectious disease. By investigating the mechanisms that enable this bacterium to cause tuberculosis and evade current antibiotics, the Rock lab, at The Rockefeller University, aims to lay the foundation for new therapeutic strategies to improve control of this epidemic.

Despite the discovery of antibiotics, tuberculosis (TB) remains an enduring global public health threat. New drugs, drug regimens, and innovative approaches to limit drug resistance are desperately needed—and to facilitate their development, the Rock lab seeks to provide a more complete understanding of the genetic and biochemical basis of Mycobacterium tuberculosis (Mtb) pathogenesis.

Genetic studies of this bacterium have thus far been hampered by the difficulties associated with conventional genetic tools. To fill this methodological gap, Rock and colleagues developed a CRISPR interference (CRISPRi) gene knockdown method for Mtb. This transformative tool is enabling the systematic interrogation of gene function in Mtb using high-throughput approaches to previously intractable problems in the field. The Rock lab uses this and other methods to study the mechanisms that enable chronic infection, antibiotic tolerance and resistance, and large-scale genetic and chemical interactions.

TB is a chronic, progressive disease. In most cases, the host immune system is capable of restraining but not eliminating Mtb, leading to lifelong infection. The mechanisms that enable the pathogen to persist in the face of a robust adaptive immune response, sometimes for decades, are poorly understood. The Rock lab is using new approaches to define the genetic basis for persistent Mtb infection.

Mtb infection can be treated with antibiotics. However, effective TB treatment requires a combination of four drugs taken for a minimum of six months. This lengthy treatment, thought to be necessitated by the presence of antibiotic-tolerant bacilli that arise during infection, is one of the most important roadblocks to effective TB control. Moreover, antibiotic tolerance can ultimately facilitate the evolution of antibiotic resistance, thereby fueling the growing problem of drug-resistant TB. The Rock lab is currently investigating the molecular mechanisms of antibiotic tolerance, as well as the mechanisms by which the bacterium can ultimately evolve antibiotic resistance.

Finally, the lab is interested in using genome-scale genetic and chemical interaction mapping to improve Mtb chemotherapy. The current four-drug combination to treat TB was developed in the 1960s. Rock seeks to better understand how anti-TB drugs (and combinations) work with the long-term goal of identifying ways to improve therapies by reducing treatment time and limiting the emergence of drug resistance.

As part of the PReDiCTR-TB Consortium, the Omics Preclinical Laboratory (Omics PL) will define in vitro biomarkers of combination regimen efficacy, as well as the functional drivers underlying that efficacy.

Dirk Schnappinger

,

PhD

Omics Preclinical Laboratory

The Schnappinger Lab studies Mycobacterium tuberculosis with the goal to facilitate the development of new drugs and vaccines to treat or prevent Tuberculosis. This work began with developing a regulatory system that allows to turn Mtb genes on and off, both in vitro and during infections. The Schnappinger lab now use this system (i) to evaluate Mtb gene products as new targets for TB drug development by documenting the impact of their genetic inactivation on growth and persistence of Mtb in vitro and in mice; (ii) to help elucidate the mechanisms by which small-molecules inhibit the growth of Mtb; (iii) to construct mutants for target-directed whole-cells screens; and (iv) to measure vulnerability of Mtb to the partial, CRISPRi-mediated inactivation of individual genes.

As part of the PReDiCTR-TB Consortium, the Omics Preclinical Laboratory (Omics PL) faciliates the development of new medicines for treatment or prevention of TB. They assess M. tuberculosis gene products as potential new drug targets by characterizing how their inactivation affects bacterial growth and persistence in vitro and during infection, and by helping to elucidate the mechanisms through which small molecules inhibit M. tuberculosis growth.

Rada Savic

,

PhD, MBA

Data Science and Modeling Group

Research in the Savic Lab focuses on data integration and the transformative potential of computational tools and artificial intelligence to advance drug development and routine drug therapy in infectious diseases including special populations such as children and pregnant women. Dr. Savic applies innovative, quantitative, and systems pharmacology methods to propose optimized and precision dosing strategies, data-driven risk stratification algorithms, and inspires new clinical simulation tools across the infectious disease landscape. Dr. Savic has unique expertise in data, modeling, and knowledge integration that positions her at the center of many development projects where she collaborates with teams across all drug discovery and development stages.

As part of the PReDiCTR-TB Consortium, the Data Science and Modeling Group (DSMG) will integrate, analyze, and translate experimental and clinical data to optimize TB drug and regimen development. It will support cross-network prioritization of regimens and help implement standardized data management workflows to ensure secure collection, storage, access, and exchange of data. Preliminary PLG data will be analyzed by the DSMG to generate model-informed recommendations for iterative preclinical studies. Using advanced statistical and mathematical modeling, the DSMG will integrate data across platforms to predict the performance of novel regimens in adults and children and guide key decisions on regimen selection and progression to clinical development.