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Items: 1 to 50 of 55

1.

Computational immune monitoring reveals abnormal double negative T cells present across human tumor types.

Greenplate AR, McClanahan DD, Oberholtzer BK, Doxie DB, Roe CE, Diggins KE, Leelatian N, Rasmussen ML, Kelley MC, Gama V, Siska PJ, Rathmell JC, Ferrell PB, Johnson DB, Irish JM.

Cancer Immunol Res. 2018 Nov 9. pii: canimm.0692.2017. doi: 10.1158/2326-6066.CIR-17-0692. [Epub ahead of print]

PMID:
30413431
2.

Machine learning reveals chronic graft-versus-host disease phenotypes and stratifies survival after stem cell transplant for hematologic malignancies.

Gandelman JS, Byrne MT, Mistry AM, Polikowsky HG, Diggins KE, Chen H, Lee SJ, Arora M, Cutler C, Flowers M, Pidala J, Irish JM, Jagasia MH.

Haematologica. 2018 Sep 20. pii: haematol.2018.193441. doi: 10.3324/haematol.2018.193441. [Epub ahead of print]

3.

Genomic Profiling of T-Cell Neoplasms Reveals Frequent JAK1 and JAK3 Mutations With Clonal Evasion From Targeted Therapies.

Greenplate A, Wang K, Tripathi RM, Palma N, Ali SM, Stephens PJ, Miller VA, Shyr Y, Guo Y, Reddy NM, Kozhaya L, Unutmaz D, Chen X, Irish JM, Davé UP.

JCO Precis Oncol. 2018;2018. doi: 10.1200/PO.17.00019. Epub 2018 Feb 13.

PMID:
30079384
4.

BRAF and MEK inhibitor therapy eliminates Nestin-expressing melanoma cells in human tumors.

Doxie DB, Greenplate AR, Gandelman JS, Diggins KE, Roe CE, Dahlman KB, Sosman JA, Kelley MC, Irish JM.

Pigment Cell Melanoma Res. 2018 Nov;31(6):708-719. doi: 10.1111/pcmr.12712. Epub 2018 Jun 28.

PMID:
29778085
5.

Generating Quantitative Cell Identity Labels with Marker Enrichment Modeling (MEM).

Diggins KE, Gandelman JS, Roe CE, Irish JM.

Curr Protoc Cytom. 2018 Jan 18;83:10.21.1-10.21.28. doi: 10.1002/cpcy.34.

PMID:
29345329
6.

Discovery of human cell selective effector molecules using single cell multiplexed activity metabolomics.

Earl DC, Ferrell PB Jr, Leelatian N, Froese JT, Reisman BJ, Irish JM, Bachmann BO.

Nat Commun. 2018 Jan 2;9(1):39. doi: 10.1038/s41467-017-02470-8.

7.

T Cells Expressing Checkpoint Receptor TIGIT Are Enriched in Follicular Lymphoma Tumors and Characterized by Reversible Suppression of T-cell Receptor Signaling.

Josefsson SE, Huse K, Kolstad A, Beiske K, Pende D, Steen CB, Inderberg EM, Lingjærde OC, Østenstad B, Smeland EB, Levy R, Irish JM, Myklebust JH.

Clin Cancer Res. 2018 Feb 15;24(4):870-881. doi: 10.1158/1078-0432.CCR-17-2337. Epub 2017 Dec 7.

PMID:
29217528
8.

Single Cell Analysis of Human Tissues and Solid Tumors with Mass Cytometry.

Leelatian N, Doxie DB, Greenplate AR, Mobley BC, Lehman JM, Sinnaeve J, Kauffman RM, Werkhaven JA, Mistry AM, Weaver KD, Thompson RC, Massion PP, Hooks MA, Kelley MC, Chambless LB, Ihrie RA, Irish JM.

Cytometry B Clin Cytom. 2017 Jul 18. doi: 10.1002/cyto.b.21542. [Epub ahead of print] No abstract available.

9.

Regulatory myeloid cells: an underexplored continent in B-cell lymphomas.

Roussel M, Irish JM, Menard C, Lhomme F, Tarte K, Fest T.

Cancer Immunol Immunother. 2017 Aug;66(8):1103-1111. doi: 10.1007/s00262-017-2036-5. Epub 2017 Jul 8. Review.

PMID:
28689360
10.

Mitochondrial dysregulation and glycolytic insufficiency functionally impair CD8 T cells infiltrating human renal cell carcinoma.

Siska PJ, Beckermann KE, Mason FM, Andrejeva G, Greenplate AR, Sendor AB, Chiang YJ, Corona AL, Gemta LF, Vincent BG, Wang RC, Kim B, Hong J, Chen CL, Bullock TN, Irish JM, Rathmell WK, Rathmell JC.

JCI Insight. 2017 Jun 15;2(12). pii: 93411. doi: 10.1172/jci.insight.93411. [Epub ahead of print]

11.

Mass cytometry deep phenotyping of human mononuclear phagocytes and myeloid-derived suppressor cells from human blood and bone marrow.

Roussel M, Ferrell PB Jr, Greenplate AR, Lhomme F, Le Gallou S, Diggins KE, Johnson DB, Irish JM.

J Leukoc Biol. 2017 Aug;102(2):437-447. doi: 10.1189/jlb.5MA1116-457R. Epub 2017 Apr 11.

12.

Preparing Viable Single Cells from Human Tissue and Tumors for Cytomic Analysis.

Leelatian N, Doxie DB, Greenplate AR, Sinnaeve J, Ihrie RA, Irish JM.

Curr Protoc Mol Biol. 2017 Apr 3;118:25C.1.1-25C.1.23. doi: 10.1002/cpmb.37.

13.

Characterizing cell subsets using marker enrichment modeling.

Diggins KE, Greenplate AR, Leelatian N, Wogsland CE, Irish JM.

Nat Methods. 2017 Mar;14(3):275-278. doi: 10.1038/nmeth.4149. Epub 2017 Jan 30.

14.

Distinct patterns of B-cell receptor signaling in non-Hodgkin lymphomas identified by single-cell profiling.

Myklebust JH, Brody J, Kohrt HE, Kolstad A, Czerwinski DK, Wälchli S, Green MR, Trøen G, Liestøl K, Beiske K, Houot R, Delabie J, Alizadeh AA, Irish JM, Levy R.

Blood. 2017 Feb 9;129(6):759-770. doi: 10.1182/blood-2016-05-718494. Epub 2016 Dec 23.

15.

Mass Cytometry of Follicular Lymphoma Tumors Reveals Intrinsic Heterogeneity in Proteins Including HLA-DR and a Deficit in Nonmalignant Plasmablast and Germinal Center B-Cell Populations.

Wogsland CE, Greenplate AR, Kolstad A, Myklebust JH, Irish JM, Huse K.

Cytometry B Clin Cytom. 2017 Jan;92(1):79-87. doi: 10.1002/cyto.b.21498.

16.

Novel Hybrid Phenotype Revealed in Small Cell Lung Cancer by a Transcription Factor Network Model That Can Explain Tumor Heterogeneity.

Udyavar AR, Wooten DJ, Hoeksema M, Bansal M, Califano A, Estrada L, Schnell S, Irish JM, Massion PP, Quaranta V.

Cancer Res. 2017 Mar 1;77(5):1063-1074. doi: 10.1158/0008-5472.CAN-16-1467. Epub 2016 Dec 8.

17.

Impaired coordination between signaling pathways is revealed in human colorectal cancer using single-cell mass cytometry of archival tissue blocks.

Simmons AJ, Scurrah CR, McKinley ET, Herring CA, Irish JM, Washington MK, Coffey RJ, Lau KS.

Sci Signal. 2016 Oct 11;9(449):rs11.

18.

Single cell analysis of human tissues and solid tumors with mass cytometry.

Leelatian N, Doxie DB, Greenplate AR, Mobley BC, Lehman JM, Sinnaeve J, Kauffmann RM, Werkhaven JA, Mistry AM, Weaver KD, Thompson RC, Massion PP, Hooks MA, Kelley MC, Chambless LB, Ihrie RA, Irish JM.

Cytometry B Clin Cytom. 2017 Jan;92(1):68-78. doi: 10.1002/cyto.b.21481. Epub 2016 Oct 4.

19.

Cytometry-based single-cell analysis of intact epithelial signaling reveals MAPK activation divergent from TNF-α-induced apoptosis in vivo.

Simmons AJ, Banerjee A, McKinley ET, Scurrah CR, Herring CA, Gewin LS, Masuzaki R, Karp SJ, Franklin JL, Gerdes MJ, Irish JM, Coffey RJ, Lau KS.

Mol Syst Biol. 2016 Aug 29;12(8):881. doi: 10.15252/msb.20167270. No abstract available.

20.

Deep phenotyping of Tregs identifies an immune signature for idiopathic aplastic anemia and predicts response to treatment.

Kordasti S, Costantini B, Seidl T, Perez Abellan P, Martinez Llordella M, McLornan D, Diggins KE, Kulasekararaj A, Benfatto C, Feng X, Smith A, Mian SA, Melchiotti R, de Rinaldis E, Ellis R, Petrov N, Povoleri GA, Chung SS, Thomas NS, Farzaneh F, Irish JM, Heck S, Young NS, Marsh JC, Mufti GJ.

Blood. 2016 Sep 1;128(9):1193-205. doi: 10.1182/blood-2016-03-703702. Epub 2016 Jun 8.

21.

Systems immune monitoring in cancer therapy.

Greenplate AR, Johnson DB, Ferrell PB Jr, Irish JM.

Eur J Cancer. 2016 Jul;61:77-84. doi: 10.1016/j.ejca.2016.03.085. Epub 2016 May 4. Review.

22.

High-Dimensional Analysis of Acute Myeloid Leukemia Reveals Phenotypic Changes in Persistent Cells during Induction Therapy.

Ferrell PB Jr, Diggins KE, Polikowsky HG, Mohan SR, Seegmiller AC, Irish JM.

PLoS One. 2016 Apr 13;11(4):e0153207. doi: 10.1371/journal.pone.0153207. eCollection 2016.

23.

Myelodysplastic Syndrome Revealed by Systems Immunology in a Melanoma Patient Undergoing Anti-PD-1 Therapy.

Greenplate AR, Johnson DB, Roussel M, Savona MR, Sosman JA, Puzanov I, Ferrell PB, Irish JM.

Cancer Immunol Res. 2016 Jun;4(6):474-480. doi: 10.1158/2326-6066.CIR-15-0213. Epub 2016 Mar 10.

24.

The use of fluorescently-tagged apoptolidins in cellular uptake and response studies.

Chong KM, Leelatian N, Deguire SM, Brockman AA, Earl D, Ihrie RA, Irish JM, Bachmann BO, Sulikowski GA.

J Antibiot (Tokyo). 2016 Apr;69(4):327-30. doi: 10.1038/ja.2016.22. Epub 2016 Mar 9.

25.

Melanoma-specific MHC-II expression represents a tumour-autonomous phenotype and predicts response to anti-PD-1/PD-L1 therapy.

Johnson DB, Estrada MV, Salgado R, Sanchez V, Doxie DB, Opalenik SR, Vilgelm AE, Feld E, Johnson AS, Greenplate AR, Sanders ME, Lovly CM, Frederick DT, Kelley MC, Richmond A, Irish JM, Shyr Y, Sullivan RJ, Puzanov I, Sosman JA, Balko JM.

Nat Commun. 2016 Jan 29;7:10582. doi: 10.1038/ncomms10582.

26.

In Vivo Autofluorescence Imaging of Tumor Heterogeneity in Response to Treatment.

Shah AT, Diggins KE, Walsh AJ, Irish JM, Skala MC.

Neoplasia. 2015 Dec;17(12):862-870. doi: 10.1016/j.neo.2015.11.006.

27.

Multiparameter analysis of stimulated human peripheral blood mononuclear cells: A comparison of mass and fluorescence cytometry.

Nicholas KJ, Greenplate AR, Flaherty DK, Matlock BK, Juan JS, Smith RM, Irish JM, Kalams SA.

Cytometry A. 2016 Mar;89(3):271-80. doi: 10.1002/cyto.a.22799. Epub 2015 Nov 24.

28.

Characterizing Phenotypes and Signaling Networks of Single Human Cells by Mass Cytometry.

Leelatian N, Diggins KE, Irish JM.

Methods Mol Biol. 2015;1346:99-113. doi: 10.1007/978-1-4939-2987-0_8.

29.

Cytometry-based single-cell analysis of intact epithelial signaling reveals MAPK activation divergent from TNF-α-induced apoptosis in vivo.

Simmons AJ, Banerjee A, McKinley ET, Scurrah CR, Herring CA, Gewin LS, Masuzaki R, Karp SJ, Franklin JL, Gerdes MJ, Irish JM, Coffey RJ, Lau KS.

Mol Syst Biol. 2015 Oct 30;11(10):835. doi: 10.15252/msb.20156282. Erratum in: Mol Syst Biol. 2016 Aug 29;12(8):881.

30.

Cutting Edge: Redox Signaling Hypersensitivity Distinguishes Human Germinal Center B Cells.

Polikowsky HG, Wogsland CE, Diggins KE, Huse K, Irish JM.

J Immunol. 2015 Aug 15;195(4):1364-1367. doi: 10.4049/jimmunol.1500904. Epub 2015 Jul 8.

31.

NetworkPainter: dynamic intracellular pathway animation in Cytobank.

Karr JR, Guturu H, Chen EY, Blair SL, Irish JM, Kotecha N, Covert MW.

BMC Bioinformatics. 2015 May 25;16:172. doi: 10.1186/s12859-015-0602-4.

32.

Methods for discovery and characterization of cell subsets in high dimensional mass cytometry data.

Diggins KE, Ferrell PB Jr, Irish JM.

Methods. 2015 Jul 1;82:55-63. doi: 10.1016/j.ymeth.2015.05.008. Epub 2015 May 13.

33.

Beyond the age of cellular discovery.

Irish JM.

Nat Immunol. 2014 Dec;15(12):1095-7. doi: 10.1038/ni.3034.

PMID:
25396342
34.

High-dimensional single-cell cancer biology.

Irish JM, Doxie DB.

Curr Top Microbiol Immunol. 2014;377:1-21. doi: 10.1007/82_2014_367. Review.

35.

High PD-1 expression and suppressed cytokine signaling distinguish T cells infiltrating follicular lymphoma tumors from peripheral T cells.

Myklebust JH, Irish JM, Brody J, Czerwinski DK, Houot R, Kohrt HE, Timmerman J, Said J, Green MR, Delabie J, Kolstad A, Alizadeh AA, Levy R.

Blood. 2013 Feb 21;121(8):1367-76. doi: 10.1182/blood-2012-04-421826. Epub 2013 Jan 7.

36.

Hierarchy in somatic mutations arising during genomic evolution and progression of follicular lymphoma.

Green MR, Gentles AJ, Nair RV, Irish JM, Kihira S, Liu CL, Kela I, Hopmans ES, Myklebust JH, Ji H, Plevritis SK, Levy R, Alizadeh AA.

Blood. 2013 Feb 28;121(9):1604-11. doi: 10.1182/blood-2012-09-457283. Epub 2013 Jan 7.

37.

Phospho-specific flow cytometry identifies aberrant signaling in indolent B-cell lymphoma.

Blix ES, Irish JM, Husebekk A, Delabie J, Forfang L, Tierens AM, Myklebust JH, Kolstad A.

BMC Cancer. 2012 Oct 16;12:478. doi: 10.1186/1471-2407-12-478.

38.

Altered BCR and CD40 signalling are associated with clinical outcome in small lymphocytic lymphoma/chronic lymphocytic leukaemia and marginal zone lymphoma patients.

Blix ES, Irish JM, Husebekk A, Delabie J, Tierens AM, Myklebust JH, Kolstad A.

Br J Haematol. 2012 Dec;159(5):604-8. doi: 10.1111/bjh.12073. Epub 2012 Oct 9. No abstract available.

39.

Web-based analysis and publication of flow cytometry experiments.

Kotecha N, Krutzik PO, Irish JM.

Curr Protoc Cytom. 2010 Jul;Chapter 10:Unit10.17. doi: 10.1002/0471142956.cy1017s53.

40.

B-cell signaling networks reveal a negative prognostic human lymphoma cell subset that emerges during tumor progression.

Irish JM, Myklebust JH, Alizadeh AA, Houot R, Sharman JP, Czerwinski DK, Nolan GP, Levy R.

Proc Natl Acad Sci U S A. 2010 Jul 20;107(29):12747-54. doi: 10.1073/pnas.1002057107. Epub 2010 Jun 11.

41.

Therapeutic effect of CD137 immunomodulation in lymphoma and its enhancement by Treg depletion.

Houot R, Goldstein MJ, Kohrt HE, Myklebust JH, Alizadeh AA, Lin JT, Irish JM, Torchia JA, Kolstad A, Chen L, Levy R.

Blood. 2009 Oct 15;114(16):3431-8. doi: 10.1182/blood-2009-05-223958. Epub 2009 Jul 29.

42.

WebFlow: a software package for high-throughput analysis of flow cytometry data.

Hammer MM, Kotecha N, Irish JM, Nolan GP, Krutzik PO.

Assay Drug Dev Technol. 2009 Feb;7(1):44-55. doi: 10.1089/adt.2008.174.

43.

Single-cell profiling identifies aberrant STAT5 activation in myeloid malignancies with specific clinical and biologic correlates.

Kotecha N, Flores NJ, Irish JM, Simonds EF, Sakai DS, Archambeault S, Diaz-Flores E, Coram M, Shannon KM, Nolan GP, Loh ML.

Cancer Cell. 2008 Oct 7;14(4):335-43. doi: 10.1016/j.ccr.2008.08.014.

44.

K-RasG12D expression induces hyperproliferation and aberrant signaling in primary hematopoietic stem/progenitor cells.

Van Meter ME, Díaz-Flores E, Archard JA, Passegué E, Irish JM, Kotecha N, Nolan GP, Shannon K, Braun BS.

Blood. 2007 May 1;109(9):3945-52. Epub 2006 Dec 27.

45.

Flt3 Y591 duplication and Bcl-2 overexpression are detected in acute myeloid leukemia cells with high levels of phosphorylated wild-type p53.

Irish JM, Anensen N, Hovland R, Skavland J, Børresen-Dale AL, Bruserud O, Nolan GP, Gjertsen BT.

Blood. 2007 Mar 15;109(6):2589-96. Epub 2006 Nov 14.

46.

Kinetics of B cell receptor signaling in human B cell subsets mapped by phosphospecific flow cytometry.

Irish JM, Czerwinski DK, Nolan GP, Levy R.

J Immunol. 2006 Aug 1;177(3):1581-9.

47.
48.

Mapping normal and cancer cell signalling networks: towards single-cell proteomics.

Irish JM, Kotecha N, Nolan GP.

Nat Rev Cancer. 2006 Feb;6(2):146-55. Review.

PMID:
16491074
49.

Single cell profiling of potentiated phospho-protein networks in cancer cells.

Irish JM, Hovland R, Krutzik PO, Perez OD, Bruserud Ø, Gjertsen BT, Nolan GP.

Cell. 2004 Jul 23;118(2):217-28.

50.

Analysis of protein phosphorylation and cellular signaling events by flow cytometry: techniques and clinical applications.

Krutzik PO, Irish JM, Nolan GP, Perez OD.

Clin Immunol. 2004 Mar;110(3):206-21. Review.

PMID:
15047199

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