IMPAcTB

About

This project houses all the publicly available datasets generated by the Hi-IMPAcTB consortium over the course of its 7+ years.

What is Hi-IMPAcTB?

Hi-IMPAcTB is an ambitious endeavor bringing together a team of international, interdisciplinary researchers to improve our understanding of host-pathogen interactions in the context of tuberculosis (TB). Funded by a multi-center contract from the NIH, the long-term goal of the consortium is to enable principled vaccine design by improving ...

Michael C. Chao, Michael R. Chase, Shoko Wakabayashi, Andrew Vickers, Byron Roman, Forrest Hopkins, Peter H. Culviner, Maximillan G. Marin, Pauline Maiello, Collin R. Dietrich, Zandrea Ambrose, Philana Ling Lin, Qingyun Liu, Sarah M. Fortune

DOI: https://doi.org/10.64898/2026.04.03.714442

Abstract: Whole genome sequencing of Mycobacterium tuberculosis (Mtb) populations from clinical samples has increasingly identified genes undergoing selection within and ...

Andrew W Simonson,1,2 Michael C Chao,3,4 E Grace Bothwell,1,2 Mark A Rodgers,1,2 Luke E Hood,1,2 Forrest Hopkins,3,4 Michael R Chase,3,4 Andrew J Vickers,3,4 Alex A Smith,1,2 Ryan J Kelly,1,2 Cassaundra L Ameel,1,2 Edwin Klein,5 Harris Chishti,1,2 Marshall Malin,1,2 H Jake Borish,1,2 Pauline Maiello,1,2 Charles A Scanga,1,2 Philana Ling Lin,2,6 Sarah M Fortune,3,4,7 JoAnne L Flynn1,2*

Mycobacterium tuberculosis (Mtb) remains endemic in much of the world, resulting in frequent exposures to the ...

Angel Nikolov

Tuberculosis (TB) is the world’s deadliest infection by number of lives claimed. Thus, novel vaccination and therapeutic strategies are urgently needed to limit the spread of TB. Historically, immunologists have made extensive efforts to potentiate cell-mediated immune responses to control Mycobacterium tuberculosis (Mtb). However, emerging data illustrate that the humoral immune system also plays a role in microbial control of Mtb. Antibodies targeted against surface structures ...

Angel Nikolov

Tuberculosis (TB) is the world’s deadliest infection by number of lives claimed. Thus, novel vaccination and therapeutic strategies are urgently needed to limit the spread of TB. Historically, immunologists have made extensive efforts to potentiate cell-mediated immune responses to control Mycobacterium tuberculosis (Mtb). However, emerging data illustrate that the humoral immune system also plays a role in microbial control of Mtb. Antibodies targeted against surface structures ...

Edward B. Irvine, Angel Nikolov, Mehak Z. Khan, Joshua M. Peters, Richard Lu, Jaimie Sixsmith, Aaron Wallace, Esther van Woudenbergh, Sally Shin, Wiktor Karpinski, Jeff C. Hsiao, Arturo Casadevall, Bryan D. Bryson, Lisa Cavacini, Patricia S. Grace, Galit Alter & Sarah M. Fortune

doi: https://doi.org/10.1101/2022.05.01.490220

Mounting evidence indicates that antibodies can contribute towards control of tuberculosis (TB). However, the underlying mechanisms ...

Krista M. Pullen, Ryan Finethy, Seung-Hyun B. Ko, Charlotte J. Reames, Christopher M. Sassetti, Douglas A. Lauffenburger

DOI: https://doi.org/10.1038/s41540-024-00487-6

Abstract:Numerous studies have identified similarities in blood transcriptomic signatures of mouse tuberculosis (TB) models and human disease phenotypes, such as type 1 interferon (IFN) production and innate immune cell activation, yet the pathophysiology observed in murine infection does not ...

Megan D. Maerz, Mohau S. Makatsa, Allison N. Bucsan, Matthew S. Sutton, Emma Bishop, Ziwei Tian, Erik D. Layton, Mario Roederer, Alex K. Shalek, Robert A. Seder, Thomas J. Scriba, Chuangqi Wang, Patricia A. Darrah, and Chetan Seshadri

DOI: https://doi.org/10.1016/j.xcrm.2025.102536

γδ T cells expressing a Vδ1/3+ T cell receptor are enriched at mucosal surfaces, but their role in protection against Mycobacterium tuberculosis (Mtb) is largely unknown. We used ...

Abiola F. Ogunsola, Rocky Lai, Kelly Cavallo, Gillian L. Beamer, and Samuel M. Behar

DOI:

Abstract: Vaccine development for tuberculosis is a global priority. Our studies using Collaborative Cross (CC) mice show that genetic diversity influences the efficacy of BCG, the most widely used TB vaccine. BCG vaccination of CC042 mice reduces their lung bacillary burden and increases their survival following low-dose aerosol Mycobacterium tuberculosis infection ...

Mohau S. Makatsa, Emma Bishop, Allison N. Bucsan, Matthew Sutton, Chelsea Lehman, Molly Robertson, Krystle K.Q. Yu, Joshua M. Peters, Bryan D. Bryson, Mario Roederer, Robert A. Seder, Patricia A. Darrah, Chetan Seshadri

DOI: https://doi.org/10.1016/j.mucimm.2025.10.011

Abstract: Intravenous (IV) vaccination with Bacillus Calmette–Guerin (BCG) mediates sterilizing immunity against Mycobacterium tuberculosis (Mtb) in rhesus macaques but the cellular mechanisms ...

Andrew W Simonson, Michael C Chao, Luke E Hood, Rachel A Donlan, Forrest Hopkins, Michael R Chase, Andrew J Vickers, Alanna Callendrello, Edwin Klein, H Jacob Borish, Marshall Malin, Pauline Maiello, Charles A Scanga, Philana Ling Lin, Sarah M Fortune, JoAnne L Flynn

DOI: https://doi.org/10.1101/2025.07.08.663727

Immunological memory elicited either through previous or ongoing M. tuberculosis (Mtb) infection provides a critical mechanism by which hosts protect ...

_Andrew W. Simonson, Joseph J. Zeppa, Allison N. Bucsan, Michael C. Chao, Supriya Pokkali, Forrest Hopkins, Michael R. Chase, Andrew J. Vickers, Matthew S. Sutton, Caylin G. Winchell, Amy J. Myers, Cassaundra L. Ameel, Ryan Kelly, Ben Krouse, Luke E. Hood, Jiaxiang Li, Chelsea C. Lehman, Megha Kamath, Jaime Tomko, Mark A. Rodgers, Rachel Donlan, Harris Chishti, H. Jacob Borish, Edwin Klein, Charles A. Scanga, Sarah Fortune, Philana Ling Lin, Pauline Maiello, Mario Roederer, Patricia A. Darrah, ...

Patricia S. Grace, Joshua M. Peters, Jaimie Sixsmith, Richard Lu, Corinne Luedeman, Brooke A. Fenderson, Andrew Vickers, Matthew D. Slein, Edward B. Irvine, Tanya McKitrick, Mo-Hui Wei, Richard D. Cummings, Aaron Wallace, Lisa A. Cavacini, Alok Choudhary, Megan K. Proulx, Christopher Sundling, Gunilla Källenius, Rajko Reljic, Joel D. Ernst, Arturo Casadevall, Camille Locht, Abraham Pinter, Christopher M. Sasseti, Bryan D. Bryson, Sarah M. Fortune, Galit Alter

...

Joshua M. Peters, Hannah P. Gideon, Travis K. Hughes, Cal Gunnarson, Pauline Maiello, Douaa Mugahid, Sarah K. Nyquist, Joshua D. Bromley, Paul C. Blainey, Beth F. Junecko, Molly L. Nelson, Douglas A. Lauffenburger, Philana Ling Lin, JoAnne L. Flynn, Alex K. Shalek, Sarah M. Fortune, Joshua T. Mattila, Bryan D. Bryson

DOI: https://www.biorxiv.org/content/10.1101/2024.05.24.595747v1.full

Additional Datasets:

• More Metadata associated with these NHPs exists ...

Megan K. Proulx, Christine D. Wiggins, Charlotte J. Reames, Claire Wu, Michael C. Kiritsy, Patricia Grace, Clare M. Smith, Cecelia S. Lindestam Arlehamn, Galit Alter, Douglas A. Lauffenburger, Christopher M. Sassetti

Training Data for the Model: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE267774

Abstract: While control of Mycobacterium tuberculosis (Mtb) infection is generally understood to require a Th1-immune response and IFN secretion, infection ...

Joshua M. Peters, Edward B. Irvine, Jacob M. Rosenberg, Marc H. Wadsworth II, Travis K. Hughes, Matthew Sutton, Sarah K. Nyquist, Joshua D. Bromley, Rajib Mondal, Mario Roederer, Robert A. Seder, Patricia A. Darrah, Galit Alter, JoAnne L. Flynn, Alex K. Shalek, Sarah M. Fortune, Bryan D. Bryson

DOI: https://www.science.org/doi/10.1126/sciadv.adq8229

Intradermal Bacillus Calmette-Guérin (BCG) is the most widely administered vaccine, but it does not sufficiently ...

Leela RL Davies, Chuangqi Wang, Pia Steigler, Kathryn A Bowman, Stephanie Fischinger, Mark Hatherill, Michelle Fisher, Staney Kimbung Mbandi, Miguel Rodo, Tom HM Ottenhoff, Hazel M Dockrell, Jayne S Sutherland, Harriet Mayanja-Kizza, W Henry Boom, Gerhard Walzl, Stefan H.E. Kaufmann, Elisa Nemes, Thomas J Scriba, Douglas Lauffenburger, Galit Alter, Sarah M. Fortune.

Link to Paper: https://doi.org/10.1038/s41564-024-01678-x

Abstract: Antibody features vary ...

Joshua D. Bromley, Sharie Keanne C. Ganchua, Sarah K. Nyquist, Pauline Maiello, Michael Chao, H. Jacob Borish, Mark Rodgers, Jaime Tomko, Kara Kracinovsky, Douaa Mugahid, Son Nguyen, Dennis Wang, Jacob M. Rosenberg, Edwin C. Klein, Hannah P. Gideon, Roisin Floyd-O’Sullivan, Bonnie Berger, Charles A Scanga, Philana Ling Lin, Sarah M. Fortune, Alex K. Shalek, JoAnne L. Flynn

Link to Paper: https://www.cell.com/immunity/fulltext/S1074-7613(24)00375-3

Immunological ...

Shu Wang, Amy J Myers, Edward B Irvine, Chuangqi Wang, Pauline Maiello, Mark A Rodgers, Jaime Tomko, Kara Kracinovsky, H. Jacob Borish, Michael C Chao, Douaa Mugahid, Patricia A. Darrah, Robert A. Seder, Mario Roederer, Charles A Scanga, Philana Ling Lin, Galit Alter, Sarah M Fortune, JoAnne L Flynn, Douglas A Lauffenburger

Paper Link: https://doi.org/10.1101/2024.04.13.589359

Link to Model Validation Datasets: https://fairdomhub.org/studies/1198

Abstract: ...

Meng Sun*, Jolie M. Phan*, Nathan S. Kieswetter, Krystle K.Q. Yu, Malisa T. Smith, Huang Huang, Sanjana Gupta, Gerlinde Obermoser, Holden Terry Maecker, Akshaya Krishnan, Neha Gupta, Mary Rieck, Peter Acs, Mustafa Ghanizada, Shin-Heng Chiou, Purvesh Khatri, W. Henry Boom, Thomas R. Hawn, Catherine M. Stein, Harriet Mayanja-Kizza, Mark M. Davis*, Chetan Seshadri*

Abstract: A subset of individuals with a high probability of exposure to M. tuberculosis (M.tb) ...

This assay captures administrative and clinical metadata associated with patient study visits, serving as a structured data collection framework rather than a biological measurement assay. It records visit-level contextual information such as visit dates, timepoints, subject identifiers, clinical site details, and protocol-relevant annotations that are essential for linking experimental samples and assay results to their proper clinical context. This metadata layer ensures traceability and data ...

This assay captures administrative and clinical metadata associated with patient study visits, serving as a structured data collection framework rather than a biological measurement assay. It records visit-level contextual information such as visit dates, timepoints, subject identifiers, clinical site details, and protocol-relevant annotations that are essential for linking experimental samples and assay results to their proper clinical context. This metadata layer ensures traceability and data ...

This assay captures metadata associated with tissue collection procedures, documenting critical provenance and contextual information for biological specimens obtained from study subjects. It records standardized parameters such as tissue type, anatomical source, collection method, preservation conditions, and relevant donor or sample identifiers to ensure traceability and reproducibility across downstream experimental workflows. This metadata serves as a foundational record linking collected ...

Flow cytometry is a laser-based, high-throughput single-cell analysis technique used to simultaneously measure multiple physical and fluorescent characteristics of cells or particles in suspension. This assay quantifies cell populations based on parameters such as cell size (forward scatter), granularity (side scatter), and fluorescence intensity of labeled surface or intracellular markers, enabling immunophenotyping, cell cycle analysis, viability assessment, and functional studies. Samples are ...

Flow cytometry is employed to quantitatively measure cell surface and/or intracellular markers, enabling characterization of cell populations based on fluorescence intensity and light scatter properties. This assay utilizes a flow cytometer to analyze individual cells in suspension, providing multi-parametric data on cell phenotype, viability, activation state, or other biological attributes as defined by the experimental panel. Samples are processed, stained with fluorescently labeled antibodies ...

This assay captures administrative and clinical metadata associated with patient study visits, serving as a structured data collection framework rather than a biological measurement assay. It records visit-level contextual information such as visit dates, timepoints, subject identifiers, clinical site details, and protocol-relevant annotations that are essential for linking experimental samples and assay results to their proper clinical context. This metadata layer ensures traceability and data ...

This assay captures metadata associated with tissue collection procedures, documenting critical provenance and contextual information for biological specimens obtained from study subjects. It records standardized parameters such as tissue type, anatomical source, collection method, preservation conditions, and relevant donor or sample identifiers to ensure traceability and reproducibility across downstream experimental workflows. This metadata serves as a foundational record linking collected ...

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing

Batch sample publishing