-
1
-
-
34548262714
-
Transcriptome analysis in primary B lymphoid precursors following induction of the pre-B cell receptor
-
Schuh, W., Meister, S., Herrmann, K., Bradl, H. & Jack, H. M. Transcriptome analysis in primary B lymphoid precursors following induction of the pre-B cell receptor. Mol. Immunol. 45, 362-375 (2008)
-
(2008)
Mol. Immunol.
, vol.45
, pp. 362-375
-
-
Schuh, W.1
Meister, S.2
Herrmann, K.3
Bradl, H.4
Jack, H.M.5
-
2
-
-
77954384233
-
Assessing the human immune system through blood transcriptomics
-
Chaussabel, D., Pascual, V. & Banchereau, J. Assessing the human immune system through blood transcriptomics. BMC Biol. 8, 84 (2010)
-
(2010)
BMC Biol.
, vol.8
, pp. 84
-
-
Chaussabel, D.1
Pascual, V.2
Banchereau, J.3
-
3
-
-
77952318708
-
A genomic approach to human autoimmune diseases
-
Pascual, V., Chaussabel, D. & Banchereau, J. A genomic approach to human autoimmune diseases. Annu. Rev. Immunol. 28, 535-571 (2010)
-
(2010)
Annu. Rev. Immunol.
, vol.28
, pp. 535-571
-
-
Pascual, V.1
Chaussabel, D.2
Banchereau, J.3
-
4
-
-
84887611824
-
Systems biological approaches to measure and understand vaccine immunity in humans
-
Li, S., Nakaya, H. I., Kazmin, D. A., Oh, J. Z. & Pulendran, B. Systems biological approaches to measure and understand vaccine immunity in humans. Semin. Immunol. 25, 209-218 (2013)
-
(2013)
Semin. Immunol.
, vol.25
, pp. 209-218
-
-
Li, S.1
Nakaya, H.I.2
Kazmin, D.A.3
Oh, J.Z.4
Pulendran, B.5
-
5
-
-
84892598603
-
Vaccine activation of the nutrient sensor GCN2 in dendritic cells enhances antigen presentation
-
Ravindran, R. et al. Vaccine activation of the nutrient sensor GCN2 in dendritic cells enhances antigen presentation. Science 343, 313-317 (2014)
-
(2014)
Science
, vol.343
, pp. 313-317
-
-
Ravindran, R.1
-
6
-
-
79953050420
-
Systems biology in immunology: A computational modeling perspective
-
Germain, R. N., Meier-Schellersheim, M., Nita-Lazar, A. & Fraser, I. D. Systems biology in immunology: a computational modeling perspective. Annu. Rev. Immunol. 29, 527-585 (2011)
-
(2011)
Annu. Rev. Immunol.
, vol.29
, pp. 527-585
-
-
Germain, R.N.1
Meier-Schellersheim, M.2
Nita-Lazar, A.3
Fraser, I.D.4
-
7
-
-
82255175259
-
Strategies to discover regulatory circuits of the mammalian immune system
-
Amit, I., Regev, A. & Hacohen, N. Strategies to discover regulatory circuits of the mammalian immune system. Nature Rev. Immunol. 11, 873-880 (2011)
-
(2011)
Nature Rev. Immunol.
, vol.11
, pp. 873-880
-
-
Amit, I.1
Regev, A.2
Hacohen, N.3
-
8
-
-
81055129618
-
Systematic discovery of TLR signaling components delineates viral-sensing circuits
-
Chevrier, N. et al. Systematic discovery of TLR signaling components delineates viral-sensing circuits. Cell 147, 853-867 (2011)
-
(2011)
Cell
, vol.147
, pp. 853-867
-
-
Chevrier, N.1
-
9
-
-
84867688629
-
A FOXO3-IRF7 gene regulatory circuit limits inflammatory sequelae of antiviral responses
-
Litvak, V. et al. A FOXO3-IRF7 gene regulatory circuit limits inflammatory sequelae of antiviral responses. Nature 490, 421-425 (2012)
-
(2012)
Nature
, vol.490
, pp. 421-425
-
-
Litvak, V.1
-
10
-
-
79951676291
-
Systems biology approaches to dissect mammalian innate immunity
-
Shapira, S. D. & Hacohen, N. Systems biology approaches to dissect mammalian innate immunity. Curr. Opin. Immunol. 23, 71-77 (2011)
-
(2011)
Curr. Opin. Immunol.
, vol.23
, pp. 71-77
-
-
Shapira, S.D.1
Hacohen, N.2
-
12
-
-
84883411060
-
Differential splicing across immune system lineages
-
Ergun, A. et al. Differential splicing across immune system lineages. Proc. Natl Acad. Sci. USA 110, 14324-14329 (2013)
-
(2013)
Proc. Natl Acad. Sci. USA
, vol.110
, pp. 14324-14329
-
-
Ergun, A.1
-
13
-
-
84859877845
-
Establishing the stem cell state: Insights from regulatory network analysis of blood stem cell development
-
Schutte, J., Moignard, V. & Gottgens, B. Establishing the stem cell state: insights from regulatory network analysis of blood stem cell development. Wiley Interdiscip. Rev. Syst. Biol. Med. 4, 285-295 (2012)
-
(2012)
Wiley Interdiscip. Rev. Syst. Biol. Med.
, vol.4
, pp. 285-295
-
-
Schutte, J.1
Moignard, V.2
Gottgens, B.3
-
14
-
-
34248187723
-
Transcriptional regulatory network analysis of developing human erythroid progenitors reveals patterns of coregulation and potential transcriptional regulators
-
Keller, M. A. et al. Transcriptional regulatory network analysis of developing human erythroid progenitors reveals patterns of coregulation and potential transcriptional regulators. Physiol. Genom. 28, 114-128 (2006)
-
(2006)
Physiol. Genom.
, vol.28
, pp. 114-128
-
-
Keller, M.A.1
-
15
-
-
78651486442
-
Densely interconnected transcriptional circuits control cell states in human hematopoiesis
-
Novershtern, N. et al. Densely interconnected transcriptional circuits control cell states in human hematopoiesis. Cell 144, 296-309 (2011)
-
(2011)
Cell
, vol.144
, pp. 296-309
-
-
Novershtern, N.1
-
16
-
-
84878242024
-
Identification of transcriptional regulators in the mouse immune system
-
Jojic, V. et al. Identification of transcriptional regulators in the mouse immune system. Nature Immunol. 14, 633-643 (2013)
-
(2013)
Nature Immunol.
, vol.14
, pp. 633-643
-
-
Jojic, V.1
-
17
-
-
84856065347
-
Expression profiling of human immune cell subsets identifies miRNA-mRNA regulatory relationships correlated with cell type specific expression
-
Allantaz, F. et al. Expression profiling of human immune cell subsets identifies miRNA-mRNA regulatory relationships correlated with cell type specific expression. PLoS ONE 7, e29979 (2012)
-
(2012)
PLoS ONE
, vol.7
-
-
Allantaz, F.1
-
18
-
-
82555190936
-
The genetic network controlling plasma cell differentiation
-
Nutt, S. L., Taubenheim, N., Hasbold, J., Corcoran, L. M. & Hodgkin, P. D. The genetic network controlling plasma cell differentiation. Semin. Immunol. 23, 341-349 (2011)
-
(2011)
Semin. Immunol.
, vol.23
, pp. 341-349
-
-
Nutt, S.L.1
Taubenheim, N.2
Hasbold, J.3
Corcoran, L.M.4
Hodgkin, P.D.5
-
19
-
-
68849118233
-
A Myc-regulated transcriptional network controls B-cell fate in response to BCR triggering
-
Murn, J. et al. A Myc-regulated transcriptional network controls B-cell fate in response to BCR triggering. BMC Genom. 10, 323 (2009)
-
(2009)
BMC Genom
, vol.10
, pp. 323
-
-
Murn, J.1
-
20
-
-
37849015433
-
The regulation of the B-cell gene expression programme by Pax5
-
Holmes, M. L., Pridans, C. & Nutt, S. L. The regulation of the B-cell gene expression programme by Pax5. Immunol. Cell Biol. 86, 47-53 (2008)
-
(2008)
Immunol. Cell Biol.
, vol.86
, pp. 47-53
-
-
Holmes, M.L.1
Pridans, C.2
Nutt, S.L.3
-
21
-
-
41149099559
-
Functional and genomic profiling of effector CD8 T cell subsets with distinct memory fates
-
Sarkar, S. et al. Functional and genomic profiling of effector CD8 T cell subsets with distinct memory fates. J. Exp. Med. 205, 625-640 (2008)
-
(2008)
J. Exp. Med.
, vol.205
, pp. 625-640
-
-
Sarkar, S.1
-
22
-
-
49649105526
-
Identification of an evolutionarily conserved transcriptional signature of CD8 memory differentiation that is shared by T and B cells
-
Haining, W. N. et al. Identification of an evolutionarily conserved transcriptional signature of CD8 memory differentiation that is shared by T and B cells. J. Immunol. 181, 1859-1868 (2008)
-
(2008)
J. Immunol.
, vol.181
, pp. 1859-1868
-
-
Haining, W.N.1
-
23
-
-
33644746220
-
Memory T and memory B cells share a transcriptional program of self-renewal with long-term hematopoietic stem cells
-
Luckey, C. J. et al. Memory T and memory B cells share a transcriptional program of self-renewal with long-term hematopoietic stem cells. Proc. Natl Acad. Sci. USA 103, 3304-3309 (2006)
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 3304-3309
-
-
Luckey, C.J.1
-
24
-
-
84870790944
-
PLAU inferred from a correlation network is critical for suppressor function of regulatory T cells
-
He, F. et al. PLAU inferred from a correlation network is critical for suppressor function of regulatory T cells. Mol. Systems Biol. 8, 624 (2012)
-
(2012)
Mol. Systems Biol.
, vol.8
, pp. 624
-
-
He, F.1
-
25
-
-
84870922385
-
Network analysis reveals centrally connected genes and pathways involved in CD8+ T cell exhaustion versus memory
-
Doering, T. A. et al. Network analysis reveals centrally connected genes and pathways involved in CD8+ T cell exhaustion versus memory. Immunity 37, 1130-1144 (2012)
-
(2012)
Immunity
, vol.37
, pp. 1130-1144
-
-
Doering, T.A.1
-
26
-
-
77957781776
-
Transcriptional analysis of HIV-specific CD8+ T cells shows that PD-1 inhibits T cell function by upregulating BATF
-
Quigley, M. et al. Transcriptional analysis of HIV-specific CD8+ T cells shows that PD-1 inhibits T cell function by upregulating BATF. Nature Med. 16, 1147-1151 (2010)
-
(2010)
Nature Med.
, vol.16
, pp. 1147-1151
-
-
Quigley, M.1
-
27
-
-
84876806691
-
Dynamic regulatory network controlling TH17 cell differentiation
-
Yosef, N. et al. Dynamic regulatory network controlling TH17 cell differentiation. Nature 496, 461-468 (2013)
-
(2013)
Nature
, vol.496
, pp. 461-468
-
-
Yosef, N.1
-
28
-
-
77953760548
-
Transcription factor regulation of CD8+ T-cell memory and exhaustion
-
Angelosanto, J. M. & Wherry, E. J. Transcription factor regulation of CD8+ T-cell memory and exhaustion. Immunol. Rev. 236, 167-175 (2010)
-
(2010)
Immunol. Rev.
, vol.236
, pp. 167-175
-
-
Angelosanto, J.M.1
Wherry, E.J.2
-
29
-
-
23944458138
-
A general framework for weighted gene co-expression network analysis
-
Article17
-
Zhang, B. & Horvath, S. A general framework for weighted gene co-expression network analysis. Stat. Appl. Genet. Mol. Biol. 4, Article17 (2005)
-
(2005)
Stat. Appl. Genet. Mol. Biol.
, vol.4
-
-
Zhang, B.1
Horvath, S.2
-
30
-
-
0141993704
-
A gene-coexpression network for global discovery of conserved genetic modules
-
Stuart, J. M., Segal, E., Koller, D. & Kim, S. K. A gene-coexpression network for global discovery of conserved genetic modules. Science 302, 249-255 (2003)
-
(2003)
Science
, vol.302
, pp. 249-255
-
-
Stuart, J.M.1
Segal, E.2
Koller, D.3
Kim, S.K.4
-
31
-
-
79959454002
-
Physical Module Networks: An integrative approach for reconstructing transcription regulation
-
Novershtern, N., Regev, A. & Friedman, N. Physical Module Networks: an integrative approach for reconstructing transcription regulation. Bioinformatcs 27, i177-i185 (2011)
-
(2011)
Bioinformatcs
, vol.27
-
-
Novershtern, N.1
Regev, A.2
Friedman, N.3
-
32
-
-
0036184629
-
Probabilistic Boolean Networks: A rule-based uncertainty model for gene regulatory networks
-
Shmulevich, I., Dougherty, E. R., Kim, S. & Zhang, W. Probabilistic Boolean Networks: a rule-based uncertainty model for gene regulatory networks. Bioinformatics 18, 261-274 (2002)
-
(2002)
Bioinformatics
, vol.18
, pp. 261-274
-
-
Shmulevich, I.1
Dougherty, E.R.2
Kim, S.3
Zhang, W.4
-
33
-
-
77955894773
-
An interferon-inducible neutrophil-driven blood transcriptional signature in human tuberculosis
-
Berry, M. P. et al. An interferon-inducible neutrophil-driven blood transcriptional signature in human tuberculosis. Nature 466, 973-977 (2010)
-
(2010)
Nature
, vol.466
, pp. 973-977
-
-
Berry, M.P.1
-
34
-
-
47249152715
-
How the study of children with rheumatic diseases identified interferon and interleukin-1 as novel therapeutic targets
-
Pascual, V. et al. How the study of children with rheumatic diseases identified interferon and interleukin-1 as novel therapeutic targets. Immunol. Rev. 223, 39-59 (2008)
-
(2008)
Immunol. Rev.
, vol.223
, pp. 39-59
-
-
Pascual, V.1
-
35
-
-
59649129816
-
Yellow fever vaccine induces integrated multilineage and polyfunctional immune responses
-
Gaucher, D. et al. Yellow fever vaccine induces integrated multilineage and polyfunctional immune responses. J. Exp. Med. 205, 3119-3131 (2008)
-
(2008)
J. Exp. Med.
, vol.205
, pp. 3119-3131
-
-
Gaucher, D.1
-
36
-
-
84876745847
-
Systems scale interactive exploration reveals quantitative and qualitative differences in response to influenza and pneumococcal vaccines
-
Obermoser, G. et al. Systems scale interactive exploration reveals quantitative and qualitative differences in response to influenza and pneumococcal vaccines. Immunity 38, 831-844 (2013)
-
(2013)
Immunity
, vol.38
, pp. 831-844
-
-
Obermoser, G.1
-
37
-
-
80051989398
-
Systems biology of vaccination for seasonal influenza in humans
-
Nakaya, H. I. et al. Systems biology of vaccination for seasonal influenza in humans. Nature Immunol. 12, 786-795 (2011)
-
(2011)
Nature Immunol.
, vol.12
, pp. 786-795
-
-
Nakaya, H.I.1
-
38
-
-
84880626687
-
Integrative genomic analysis of the human immune response to influenza vaccination
-
Franco, L. M. et al. Integrative genomic analysis of the human immune response to influenza vaccination. eLife 2, e00299 (2013)
-
(2013)
ELife
, vol.2
-
-
Franco, L.M.1
-
39
-
-
57849085182
-
Systems biology approach predicts immunogenicity of the yellow fever vaccine in humans
-
Querec, T. D. et al. Systems biology approach predicts immunogenicity of the yellow fever vaccine in humans. Nature Immunol. 10, 116-125 (2009)
-
(2009)
Nature Immunol.
, vol.10
, pp. 116-125
-
-
Querec, T.D.1
-
40
-
-
51349093240
-
Functional specializations of human epidermal Langerhans cells and CD14+ dermal dendritic cells
-
Klechevsky, E. et al. Functional specializations of human epidermal Langerhans cells and CD14+ dermal dendritic cells. Immunity 29, 497-510 (2008)
-
(2008)
Immunity
, vol.29
, pp. 497-510
-
-
Klechevsky, E.1
-
41
-
-
84859371920
-
Host immune transcriptional profiles reflect the variability in clinical disease manifestations in patients with Staphylococcus aureus infections
-
Banchereau, R. et al. Host immune transcriptional profiles reflect the variability in clinical disease manifestations in patients with Staphylococcus aureus infections. PloS ONE 7, e34390 (2012)
-
(2012)
PloS ONE
, vol.7
-
-
Banchereau, R.1
-
42
-
-
77951634577
-
Cell type-specific gene expression differences in complex tissues
-
Shen-Orr, S. S. et al. Cell type-specific gene expression differences in complex tissues. Nature Methods 7, 287-289 (2010)
-
(2010)
Nature Methods
, vol.7
, pp. 287-289
-
-
Shen-Orr, S.S.1
-
43
-
-
46749152178
-
A modular analysis framework for blood genomics studies: Application to systemic lupus erythematosus
-
Chaussabel, D. et al. A modular analysis framework for blood genomics studies: application to systemic lupus erythematosus. Immunity 29, 150-164 (2008)
-
(2008)
Immunity
, vol.29
, pp. 150-164
-
-
Chaussabel, D.1
-
44
-
-
65549116870
-
Enhanced monocyte response and decreased central memory T cells in children with invasive Staphylococcus aureus infections
-
Ardura, M. I. et al. Enhanced monocyte response and decreased central memory T cells in children with invasive Staphylococcus aureus infections. PLoS ONE 4, e5446 (2009)
-
(2009)
PLoS ONE
, vol.4
-
-
Ardura, M.I.1
-
45
-
-
84888990746
-
Whole blood gene expression profiles to assess pathogenesis and disease severity in infants with respiratory syncytial virus infection
-
Mejias, A. et al. Whole blood gene expression profiles to assess pathogenesis and disease severity in infants with respiratory syncytial virus infection. PLoS Med. 10, e1001549 (2013)
-
(2013)
PLoS Med.
, vol.10
-
-
Mejias, A.1
-
46
-
-
76249091272
-
Genomic transcriptional profiling identifies a candidate blood biomarker signature for the diagnosis of septicemic melioidosis
-
Pankla, R. et al. Genomic transcriptional profiling identifies a candidate blood biomarker signature for the diagnosis of septicemic melioidosis. Genome Biol. 10, R127 (2009)
-
(2009)
Genome Biol.
, vol.10
-
-
Pankla, R.1
-
47
-
-
84855486511
-
Synthetic double-stranded RNA induces innate immune responses similar to a live viral vaccine in humans
-
Caskey, M. et al. Synthetic double-stranded RNA induces innate immune responses similar to a live viral vaccine in humans. J. Exp. Med. 208, 2357-2366 (2011)
-
(2011)
J. Exp. Med.
, vol.208
, pp. 2357-2366
-
-
Caskey, M.1
-
48
-
-
84896944491
-
Molecular signatures of antibody responses derived from a systems biology study of five human vaccines
-
Li, S. et al. Molecular signatures of antibody responses derived from a systems biology study of five human vaccines. Nature Immunol. 15, 185-205 (2013)
-
(2013)
Nature Immunol.
, vol.15
, pp. 185-205
-
-
Li, S.1
-
49
-
-
70249134919
-
Molecular networks as sensors and drivers of common human diseases
-
Schadt, E. E. Molecular networks as sensors and drivers of common human diseases. Nature 461, 218-223 (2009)
-
(2009)
Nature
, vol.461
, pp. 218-223
-
-
Schadt, E.E.1
-
50
-
-
84860916660
-
Hive plots - rational approach to visualizing networks
-
Krzywinski, M., Birol, I., Jones, S. J. & Marra, M. A. Hive plots - rational approach to visualizing networks. Brief. Bioinformat. 13, 627-644 (2012)
-
(2012)
Brief. Bioinformat.
, vol.13
, pp. 627-644
-
-
Krzywinski, M.1
Birol, I.2
Jones, S.J.3
Marra, M.A.4
-
51
-
-
69649109364
-
Circos: An information aesthetic for comparative genomics
-
Krzywinski, M. et al. Circos: an information aesthetic for comparative genomics. Genome Res. 19, 1639-1645 (2009)
-
(2009)
Genome Res.
, vol.19
, pp. 1639-1645
-
-
Krzywinski, M.1
-
52
-
-
2442495404
-
Taking the mystery out of biological networks
-
Aloy, P. & Russell, R. B. Taking the mystery out of biological networks. EMBO Rep. 5, 349-350 (2004)
-
(2004)
EMBO Rep.
, vol.5
, pp. 349-350
-
-
Aloy, P.1
Russell, R.B.2
-
53
-
-
0034721164
-
Error and attack tolerance of complex networks
-
Albert, R., Jeong, H. & Barabasi, A. L. Error and attack tolerance of complex networks. Nature 406, 378-382 (2000).
-
(2000)
Nature
, vol.406
, pp. 378-382
-
-
Albert, R.1
Jeong, H.2
Barabasi, A.L.3
|