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[11] Wang K, Saito M, Bisikirska BC, Alvarez MJ, Lim WK,
Rajbhandari P, et al. Genome-wide identification of post-trans-
lational modulators of transcription factor activity in human B
cells. Nat Biotechnol 2009;27(9):829 e 39.
[12] Gilchrist M, Thorsson V, Li B, Rust AG, Korb M, Roach JC, et al.
Systems biology approaches identify ATF3 as a negative regulator
of Toll-like receptor 4. Nature 2006;441(7090):173 e 8.
[13] Ramsey SA, Klemm SL, Zak DE, Kennedy KA, Thorsson V, Li B,
Gilchrist M, et al. Uncovering a macrophage transcriptional
program by integrating evidence from motif scanning and expres-
sion dynamics. PLoS Comput Biol 2008;4(3):e1000021.
[14] Segal E, Shapira M, Regev A, Pe'er D, Botstein D, Koller D, et al.
Module networks: identifying regulatory modules and their
condition-specific regulators from gene expression data. Nat Genet
2003;34(2):166 e 76.
[15] Clancy T, Pedicini M, Castiglione F, Santoni D, Nygaard V,
Lavelle TJ, et al. Immunological network signatures of cancer
progression and survival. BMC Med Genomics 2011;4:28.
[16] Bourgon R, Gentleman R, Huber W. Independent filtering increases
detection power for high-throughput experiments. Proc Natl Acad
Sci USA 2010;107(21):9546 e 51.
[17] Alon U. Network motifs: theory and experimental approaches. Nat
Rev Genet 2007;8(6):450 e 61.
[18] Litvak V, Ramsey SA, Rust AG, Zak DE, Kennedy KA,
Lampano AE, et al. Function of C/EBPdelta in a regulatory circuit
that discriminates between transient and persistent TLR4-induced
signals. Nat Immunol 2009;10(4):437
[27] Irish JM, Myklebust JH, Alizadeh AA, Houot R, Sharman JP,
Czerwinski DK, et al. B-cell signaling networks reveal a negative
prognostic human lymphoma cell subset that emerges during
tumor progression. Proc Natl Acad Sci USA 2010;107(29):
12747 e 54.
[28] Kotecha N, Flores NJ, Irish JM, Simonds EF, Sakai DS,
Archambeault S, et al. Single-cell profiling identifies aberrant
STAT5 activation in myeloid malignancies with specific clinical
and biologic correlates. Cancer Cell 2008;14(4):335 e 43.
[29] Irish JM, Czerwinski DK, Nolan GP, Levy R. Altered B-cell
receptor signaling kinetics distinguish human follicular lymphoma
B cells from tumor-infiltrating nonmalignant B cells. Blood
2006;108(9):3135 e 42.
[30] Krutzik PO, Irish JM, Nolan GP, Perez OD. Analysis of
protein phosphorylation and cellular signaling events by flow
cytometry: techniques and clinical applications. Clin Immunol
2004;110(3):206 e 21.
[31] Irish JM, Hovland R, Krutzik PO, Perez OD, Bruserud O,
Gjertsen BT, et al. Single cell profiling of potentiated phospho-
protein networks in cancer cells. Cell 2004;118(2):217 e 28.
[32] Tay S, Hughey JJ, Lee TK, Lipniacki T, Quake SR, Covert MW.
Single-cell NF-kappaB dynamics reveal digital activation
and analogue information processing. Nature 2010;466(7303):
267
71.
[33] Han Q, Bradshaw EM, Nilsson B, Hafler DA, Love JC. Multidi-
mensional analysis of the frequencies and rates of cytokine
secretion from single cells by quantitative microengraving. Lab
Chip 2010;10(11):1391 e 400.
[34] Sachs K, Itani S, Fitzgerald J, Wille L, Schoeberl B, Dahleh MA,
et al. Learning cyclic signaling pathway structures while mini-
mizing data requirements. Pac Symp Biocomput 2009:63 e 74.
[35] Sachs K, Itani S, Carlisle J, Nolan GP, Pe'er D, Lauffenburger DA.
Learning signaling network structures with sparsely distributed
data. J Comput Biol 2009;16(2):201 e 12.
[36] Davis MM. A prescription for human immunology. Immunity
2008;29(6):835 e 8.
[37] Pulendran B, Li S, Nakaya HI. Systems vaccinology. Immunity
2010;33(4):516 e 29.
[38] Zak DE, Aderem A. Systems biology of innate immunity. Immunol
Rev 2009;227(1):264 e 82.
[39] Rappuoli R, Aderem A. A 2020 vision for vaccines against HIV,
tuberculosis and malaria. Nature 2011;473(7348):463 e 9.
[40] Chaussabel D, Pascual V, Banchereau J. Assessing the human
immune system through blood transcriptomics. BMC Biol
2010;8:84.
[41] Nakaya HI, Li S, Pulendran B. Systems vaccinology: learning to
compute the behavior of vaccine induced immunity. Wiley Inter-
discip Rev Syst Biol Med 2012;4(2):193 e 205.
[42] Goodwin K, Viboud C, Simonsen L. Antibody response to influ-
enza vaccination in the elderly: a quantitative review. Vaccine
2006;24(8):1159
e
43.
[19] Milner JD, Brenchley JM, Laurence A, Freeman AF, Hill BJ,
Elias KM, et al. Impaired T (H)17 cell differentiation in subjects
with autosomal dominant hyper-IgE syndrome. Nature 2008;
452(7188):773 e 6.
[20] Randall KL, Chan SS, Ma CS, Fung I, Mei Y, Yabas M, et al.
DOCK8 deficiency impairs CD8 T cell survival and function in
humans and mice. J Exp Med 2011;208(11):2305 e 20.
[21] Novershtern N, Subramanian A, Lawton LN, Mak RH,
Haining WN, McConkey ME, et al. Densely interconnected tran-
scriptional circuits control cell states in human hematopoiesis. Cell
2011;144(2):296 e 309.
[22] Petriv OI, Kuchenbauer F, Delaney AD, Lecault V, White A,
Kent D, et al. Comprehensive microRNA expression profiling
of the hematopoietic hierarchy. Proc Natl Acad Sci USA 2010;
107(35):15443 e 8.
[23] Heng TS, Painter MW. The immunological genome project:
networks of gene expression in immune cells. Nat Immunol 2008;
9(10):1091 e 4.
[24] Flatz L, Roychoudhuri R, Honda M, Filali-Mouhim A, Goulet JP,
Kettaf N, et al. Single-cell gene-expression profiling reveals qual-
itatively distinct CD8 T cells elicited by different gene-based
vaccines. Proc Natl Acad Sci USA 2011;108(14):5724
e
9.
[25] Gibbs Jr KD, Gilbert PM, Sachs K, Zhao F, Blau HM,
Weissman IL, et al. Single-cell phospho-specific flow cytometric
analysis demonstrates biochemical and functional heterogeneity in
human hematopoietic stem and progenitor compartments. Blood
2011;117(16):4226 e 33.
[26] Qiu P, Simonds EF, Bendall SC, Gibbs Jr KD, Bruggner RV,
Linderman MD, et al. Extracting a cellular hierarchy from high-
dimensional cytometry data with SPADE. Nat Biotechnol
2011;29(10):886 e 91.
e
69.
[43] Paul Y. Polio eradication in India: have we reached the dead end?
Vaccine 2010;28(7):1661
e
2.
[44] Ebert BL, Golub TR. Genomic approaches to hematologic malig-
nancies. Blood 2004;104(4):923 e 32.
[45] Segal E, Friedman N, Kaminski N, Regev A, Koller D. From
signatures to models: understanding cancer using microarrays. Nat
Genet 2005;37(Suppl):S38 e 45.
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