Biblio

Thompson EG, Shankar S, Gideon HP, Braun J, Valvo J, Skinner J, Aderem A, Flynn JAL, Lin PLing, Zak DE.  2018.  Blood RNA signatures prospectively discriminate controllers from progressors early after low-dose M. tuberculosis infection of cynomolgus macaques. :jiy006-jiy006.

Hansen SG, Zak DE, Xu G, Ford JC, Marshall EE, Malouli D, Gilbride RM, Hughes CM, Ventura AB, Ainslie E et al..  2018.  Prevention of tuberculosis in rhesus macaques by a cytomegalovirus-based vaccine.. Nat Med. 24(2):130-143.

Moguche AO, Musvosvi M, Penn-Nicholson A, Plumlee CR, Mearns H, Geldenhuys H, Smit E, Abrahams D, Rozot V, Dintwe O et al..  2017.  Antigen Availability Shapes T Cell Differentiation and Function during Tuberculosis.. Cell Host Microbe. 21(6):695-706.e5.

Boot M, van Winden VJC, Sparrius M, van de Weerd R, Speer A, Ummels R, Rustad T, Sherman DR, Bitter W.  2017.  Cell envelope stress in mycobacteria is regulated by the novel signal transduction ATPase IniR in response to trehalose.. PLoS Genet. 13(12):e1007131.

Nicod C, Banaei-Esfahani A, Collins BC.  2017.  Elucidation of host-pathogen protein-protein interactions to uncover mechanisms of host cell rewiring.. Curr Opin Microbiol. 39:7-15.

Thompson EG, Du Y, Malherbe ST, Shankar S, Braun J, Valvo J, Ronacher K, Tromp G, Tabb DL, Alland D et al..  2017.  Host blood RNA signatures predict the outcome of tuberculosis treatment.. Tuberculosis (Edinb). 107:48-58.

Scriba TJ, Penn-Nicholson A, Shankar S, Hraha T, Thompson EG, Sterling D, Nemes E, Darboe F, Suliman S, Amon LM et al..  2017.  Sequential inflammatory processes define human progression from M. tuberculosis infection to tuberculosis disease.. PLoS Pathog. 13(11):e1006687.

Woodworth JS, Cohen SB, Moguche AO, Plumlee CR, Agger EM, Urdahl KB, Andersen P.  2017.  Subunit vaccine H56/CAF01 induces a population of circulating CD4 T cells that traffic into the Mycobacterium tuberculosis-infected lung.. Mucosal Immunol. 10(2):555-564.

Banaei-Esfahani A, Nicod C, Aebersold R, Collins BC.  2017.  Systems proteomics approaches to study bacterial pathogens: application to Mycobacterium tuberculosis.. Curr Opin Microbiol. 39:64-72.

Rothchild AC, Sissons JR, Shafiani S, Plaisier C, Min D, Mai D, Gilchrist M, Peschon J, Larson RP, Bergthaler A et al..  2016.  MiR-155-regulated molecular network orchestrates cell fate in the innate and adaptive immune response to Mycobacterium tuberculosis.. Proc Natl Acad Sci U S A. 113(41):E6172-E6181.

Levitte S, Adams KN, Berg RD, Cosma CL, Urdahl KB, Ramakrishnan L.  2016.  Mycobacterial Acid Tolerance Enables Phagolysosomal Survival and Establishment of Tuberculous Infection In Vivo.. Cell Host Microbe. 20(2):250-8.

Peterson EJR, Ma S, Sherman DR, Baliga NS.  2016.  Network analysis identifies Rv0324 and Rv0880 as regulators of bedaquiline tolerance in Mycobacterium tuberculosis.. Nat Microbiol. 1(8):16078.

Turkarslan S, Peterson EJR, Rustad TR, Minch KJ, Reiss DJ, Morrison R, Ma S, Price ND, Sherman DR, Baliga NS.  2015.  A comprehensive map of genome-wide gene regulation in Mycobacterium tuberculosis.. Sci Data. 2:150010.

Minch KJ, Rustad TR, Peterson EJR, Winkler J, Reiss DJ, Ma S, Hickey M, Brabant W, Morrison B, Turkarslan S et al..  2015.  The DNA-binding network of Mycobacterium tuberculosis.. Nat Commun. 6:5829.

Moguche AO, Shafiani S, Clemons C, Larson RP, Dinh C, Higdon LE, Cambier CJ, Sissons JR, Gallegos AM, Fink PJ et al..  2015.  ICOS and Bcl6-dependent pathways maintain a CD4 T cell population with memory-like properties during tuberculosis.. J Exp Med. 212(5):715-28.

Ma S, Minch KJ, Rustad TR, Hobbs S, Zhou S-L, Sherman DR, Price ND.  2015.  Integrated Modeling of Gene Regulatory and Metabolic Networks in Mycobacterium tuberculosis.. PLoS Comput Biol. 11(11):e1004543.

Di Paolo NC, Shafiani S, Day T, Papayannopoulou T, Papayannoupoulou T, Russell DW, Iwakura Y, Sherman D, Urdahl K, Shayakhmetov DM.  2015.  Interdependence between Interleukin-1 and Tumor Necrosis Factor Regulates TNF-Dependent Control of Mycobacterium tuberculosis Infection.. Immunity. 43(6):1125-36.

Zak DE, Aderem A.  2015.  Systems integration of innate and adaptive immunity.. Vaccine. 33(40):5241-8.

Andersen P, Urdahl KB.  2015.  TB vaccines; promoting rapid and durable protection in the lung.. Curr Opin Immunol. 35:55-62.

Peterson EJR, Reiss DJ, Turkarslan S, Minch KJ, Rustad T, Plaisier CL, Longabaugh WJR, Sherman DR, Baliga NS.  2014.  A high-resolution network model for global gene regulation in Mycobacterium tuberculosis.. Nucleic Acids Res.

Rustad TR, Minch KJ, Ma S, Winkler JK, Hobbs S, Hickey M, Brabant W, Turkarslan S, Price ND, Baliga NS et al..  2014.  Mapping and manipulating the Mycobacterium tuberculosis transcriptome using a transcription factor overexpression-derived regulatory network.. Genome Biol. 15(11):502.

Zak DE, Tam VC, Aderem A.  2014.  Systems-level analysis of innate immunity.. Annu Rev Immunol. 32:547-77.

Urdahl KB.  2014.  Understanding and overcoming the barriers to T cell-mediated immunity against tuberculosis.. Semin Immunol. 26(6):578-87.

Galagan JE, Minch K, Peterson M, Lyubetskaya A, Azizi E, Sweet L, Gomes A, Rustad T, Dolganov G, Glotova I et al..  2013.  The Mycobacterium tuberculosis regulatory network and hypoxia.. Nature. 499(7457):178-83.