Select Publications

Complete List of Publications
* co-first authors
# co-corresponding authors


Predicting gene level sensitivity to JAK-STAT signaling perturbation using a mechanistic-to-machine learning framework.

Cheemalavagu N., Shoger K.E., Cao Y.M., Michalides B.A., Botta S.A., Faeder J.R.#, Gottschalk R.A.#

Cell Systems. DOI: 10.1016/j.cels.2023.12.006.


Isoform-specific optical activation of kinase function reveals p38-ERK signaling crosstalk.

Zhou W., Ryan A.,  Janosko C.P., Shoger K.E., Haugh J.M., Gottschalk R.A., Deiters A.

RSC Chemical Biology. DOI: 10.1039/d2cb00157h.

SARS-CoV-2 ORF8 Mediates Signals in Macrophages and Monocytes through MyD88 Independently of the IL-17 Receptor.

Ponde N.O, Shoger K.E., Khatun M.S., Sarkar M.K., Dey I., Taylor T.C., Cisney R.N., Arunkumar S.P., Gudjonsson J.E., Kolls J.K., Gottschalk R.A., Gaffen S.L.

Journal of Immunology. DOI: 10.4049/jimmunol.2300110.


Identification of Cell Surface Molecules That Determine the Macrophage Activation Threshold Associated With an Early Stage of Malignant Transformation.

Jacqueline C., Dracz M., Boothman S., Minden J.S., Gottschalk R.A., Finn O.J.

Frontiers in Immunology. DOI: 10.3389/fimmu.2021.749597.

CISH attenuates homeostatic cytokine signaling to promote lung-specific macrophage programming and function.

Shoger K.E., Cheemalavagu N., Cao Y.M., Michalides B.A., Chaudhri V.K., Cohen J.A., Singh H., Gottschalk R.A.

Science Signaling. DOI: 10.1126/scisignal.abe5137.


IFN-mediated negative feedback supports bacteria class-specific macrophage inflammatory responses.

Gottschalk R.A.*#, Dorrington M.G.*, Dutta B., Krauss K.S., Martins A.J., Uderhardt S., Chan W., Tsang J.S., Torabi-Parizi P., Fraser I.D., Germain R.N.#.

eLIFE. doi: 10.7554/eLife.46836.


Dual roles for Ikaros in regulation of macrophage chromatin state and inflammatory gene expression.

Oh K.S.*, Gottschalk R.A.*#, Lounsbury N.W.*, Sun J., Dorrington M.G., Baek S., Sun G., Wang Z., Krauss K.S., Milner J.D., Dutta B., Hager G.L., Sung M.H., Fraser I.D.#

Journal of Immunology. doi: 10.4049/jimmunol.1800158.


Anti-inflammatory chromatinscape suggests alternative mechanisms of glucocorticoid receptor action.

Oh K.S., Patel H., Gottschalk R.A., Lee W.S., Baek S., Fraser I.D., Hager G.L., Sung M.H.

Immunity. doi: 10.1016/j.immuni.2017.07.012.

Environment tunes propagation of cell-to-cell variation in the human macrophage gene network.

Martins A.J., Narayanan M., Prüstel T., Fixsen B., Park K., Gottschalk R.A., Lu Y., Pfannkoch C., Lau W.W., Wendelsdorf K.V., Tsang J.S.

Cell Systems. doi: 10.1016/j.cels.2017.03.002.


Distinct NF-kB and MAPK activation thresholds uncouple steady-state microbe sensing from anti-pathogen inflammatory responses.

Gottschalk R.A.#, Martins A.J., Angermann B.R., Dutta B., Ng C.E., Uderhardt S., Tsang J.S., Fraser I.D., Meier-Schellersheim M., Germain R.N.#

Cell Systems. doi: 10.1016/j.cels.2016.04.016.


Switching of the relative dominance between feedback mechanisms in lipopolysaccharide-induced NF-kB signaling.

Sung M.H., Li N., Lao Q., Gottschalk R.A., Hager G.L., Fraser I.D.

Science Signaling. doi: 10.1126/scisignal.2004764.


Cutting Edge: chronic inflammatory liver disease in mice expressing a CD28-specific ligand.

Corse E., Gottschalk R.A., Park J.S., Sepulveda M.A., Loke P., Sullivan T.J., Johnson L.K., Allison J.P.

Journal of Immunology. doi: 10.4049/jimmunol.1202621.


Distinct influences of peptide-MHC quality and quantity on in vivo T cell responses.

Gottschalk R.A., Hathorn M.M., Beuneu H., Corse E., Dustin M.L., Altan-Bonnet G., Allison J.P.

Proceeding of the National Academy of Sciences. doi: 10.1073/pnas.1119763109.

Expression of Helios in peripherally induced Foxp3+ regulatory T cells.

Gottschalk R.A., Corse E., Allison J.P.

Journal of Immunology. doi: 10.4049/jimmunol.1102964.


Attenuated T cell responses to a high-potency ligand in vivo.

Corse E., Gottschalk R.A., Krogsgaard M., Allison J.P.

PLoS Biology. 8(9). doi: 10.1371/journal.pbio.1000481.

TCR ligand density and affinity determine peripheral induction of Foxp3 in vivo.

Gottschalk R.A., Corse E., Allison J.P.

Journal of Experimental Medicine. doi: 10.1084/jem.20091999.

Development of promyelocytic zinc finger and ThPOK-expressing innate gamma delta T cells is controlled by strength of TCR signaling and Id3.

Alonzo E.S., Gottschalk R.A., Das J., Egawa T., Hobbs R.M., Pandolfi P.P., Pereira P., Nichols K.E., Koretzky G.A., Jordan M.S., Sant’Angelo D.B.

Journal of Immunology. doi: 10.4049/jimmunol.0903218.

Reviews and Previews

* co-first authors
# co-corresponding authors


Mechanisms encoding STAT functional diversity for context-specific inflammatory responses.

Myers S.A.*, Gottschalk R.A.*

Current Opinion in Immunology. DOI: 10.1016/j.coi.2022.01.001.


Volume control: Turning the dial on regulatory T cells.

Brown C.C.*#, Gottschalk R.A.*#

Cell. DOI: 10.1016/j.cell.2021.06.015..

Time will tell: The temporal code of immune threats.

Cheemalavagu N., Gottschalk R.A.

Immunity. DOI: 10.1016/j.immuni.2021.04.018.


Network representations of immune system complexity.

Subramanian N., Torabi-Parizi P., Gottschalk R.A., Germain R.N., Dutta B.

Wiley Interdisciplinary Reviews: Systems Biology and Medicine. doi: 10.1002/wsbm.1288.


Recent progress using systems biology approaches to better understand molecular mechanisms of immunity.

Gottschalk R.A.*, Martins A.J.*, Sjoelund V.H., Angermann B.R., Lin B., Germain R.N.

Seminars in Immunology. doi: 10.1016/j.smim.2012.11.002.


Brief Reviews: Strength of TCR-Peptide/MHC interactions and in vivo T cell responses.

Corse E.*, Gottschalk R.A.*, Allison J.P.

Journal of Immunology. doi: 10.4049/jimmunol.1003650.