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Tue Feb 1 09:30:45 2005
The I kappa B-NF-kappa B signaling module:
Temporal control and selective gene activation

Hoffmann A, Levchenko A, Scott ML, Baltimore D
SCIENCE 298 (5596): 1241-1245 2002
and the citing papers

Nodes: 104, Authors: 431, Journals: 63, Outer References: 5144, Words: 500
Collection span: 2002 - 2005
View: Overview. Sorted by first author.
#LCRNCRNodes / Date / Journal / AuthorsLCSGCS
112741 2004 ARTHRITIS AND RHEUMATISM 50(11):3541-3548
Agarwal S; Deschner J; Long P; Verma A; Hofman C; et al.
Role of NF-kappa B transcription factors in antiinflammatory and proinflammatory actions of mechanical signals
00
2110447 2004 BIOTECHNOLOGY PROGRESS 20(2):426-442
Agrawal V; Zhang C; Shapiro AD; Dhurjati PS
A dynamic mathematical model to clarify signaling circuitry underlying programmed cell death control in Arabidopsis disease resistance
00
323794 2004 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 101(47):16537-16542
Aguilera C; Hoya-Arias R; Haegeman G; Espinosa L; Bigas A
Recruitment of I kappa B alpha to the hes1 promoter is associated with transcriptional repression
00
4211257 2004 CURRENT PHARMACEUTICAL DESIGN 10(23):2827-2837
Bacher S; Schmitz ML
The NF-kappa B pathway as a potential target for autoimmune disease therapy
01
514771 2004 JOURNAL OF BIOLOGICAL CHEMISTRY 279(52):54708-54715
Baetz A; Frey M; Heeg K; Dalpke AH
Suppressor of cytokine signaling (SOCS) proteins indirectly regulate toll-like receptor signaling in innate immune cells
00
623986 2004 NATURE BIOTECHNOLOGY 22(10):1253-1259
Butcher EC; Berg EL; Kunkel EJ
Systems biology in drug discovery
00
717284 2004 MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS 551(1-2):199-211
Carlsen H; Alexander G; Austenaa LMI; Ebihara K; Blomhoff R
Molecular imaging of the transcription factor NF-kappa B, a primary regulator of stress response
01
813724 2003 HEPATOLOGY 38(6):1540-1551
Cavin LG; Romieu-Mourez R; Panta GR; Sun JY; Factor VM; et al.
Inhibition of CK2 activity by TGF-beta 1 promotes I kappa B-alpha protein stabilization and apoptosis of immortalized hepatocytes
02
912336 2003 NATURE IMMUNOLOGY 4(10):933-936
Chakraborty AK; Dustin ML; Shaw AS
In silico models for cellular and molecular immunology: successes, promises and challenges
03
1024327 2003 JOURNAL OF BIOLOGICAL CHEMISTRY 278(25):23101-23106
Chen Y; Wu J; Ghosh G
kappa B-Ras binds to the unique insert within the ankyrin repeat domain of I kappa B beta and regulates cytoplasmic retention of I kappa B beta center dot NF-kappa B complexes
16
#LCRNCRNodes / Date / Journal / AuthorsLCSGCS
1133539 2003 SIMULATION-TRANSACTIONS OF THE SOCIETY FOR MODELING AND SIMULATION INTERNATIONAL 79(12):726-739
Cho KH; Shin SY; Kolch W; Wolkenhauer O
Experimental design in systems biology, based on parameter sensitivity analysis using a Monte Carlo method: A case study for the TNF alpha-mediated NF-kappa B signal transduction pathway
00
1211323 2003 GENOME RESEARCH 13(11):2413-2422
Cho KH; Shin SY; Lee HW; Wolkenhauer O
Investigations into the analysis and modeling of the TNF alpha-mediated NF-kappa B-signaling pathway
23
131237 2003 BIOCHEMICAL SOCIETY TRANSACTIONS 31:1503-1509
Cho KH; Wolkenhauer O
Analysis and modelling of signal transduction pathways in systems biology
01
1415065 2004 JOURNAL OF BIOCHEMISTRY AND MOLECULAR BIOLOGY 37(1):45-52
Cho SY; Park SG; Lee DH; Park BC
Protein-protein interaction networks: from interactions to networks
04
151233 2003 ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 47(12):3704-3707
Choi JH; Song MJ; Kim SH; Choi SM; Lee DG; et al.
Effect of moxiloxacin on production of proinflammatory cytokines from human peripheral blood mononuclear cells
01
1614111 2003 BLOOD 102(6):2259-2267
Choi M; Rolle S; Wellner M; Cardoso MC; Scheidereit C; et al.
Inhibition of NF-kappa B by a TAT-NEMO-binding domain peptide accelerates constitutive apoptosis and abrogates LPS-delayed neutrophil apoptosis
09
1713793 2004 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 101(19):7404-7408
Claud EC; Lu L; Anton PM; Savidge T; Walker WA; et al.
Developmentally regulated I kappa B expression in intestinal epithelium and susceptibility to flagellin-induced inflammation
01
181819 2003 BIOTECHNOLOGY AND BIOENGINEERING 84(7):763-772
Covert MW; Famili I; Palsson BO
Identifying constraints that govern cell behavior: A key to converting conceptual to computational models in biology?
25
1914998 2004 PROTEIN SCIENCE 13(7):1767-1777
Croy CH; Bergqvist S; Huxford T; Ghosh G; Komives EA
Biophysical characterization of the free I kappa B alpha ankyrin repeat domain in solution
00
2028212 2003 CANCER RESEARCH 63(24):8837-8847
Dadke D; Fryer BH; Golemis EA; Field J
Activation of p21-activated kinase 1-nuclear factor kappa B signaling by Kaposi's sarcoma-associated herpes virus G protein-coupled receptor during cellular transformation
03
#LCRNCRNodes / Date / Journal / AuthorsLCSGCS
21278220 2003 ENDOCRINE REVIEWS 24(4):488-522
De Bosscher K; Vanden Berghe W; Haegeman G
The interplay between the glucocorticoid receptor and nuclear factor-kappa B or activator protein-1: Molecular mechanisms for gene repression
118
2215864 2004 IMMUNITY 21(6):877-889
Diehl GE; Yue HH; Hsieh K; Kuang AA; Ho M; et al.
TRAIL-R as a negative regulator of innate immune cell responses
00
2316534 2003 JOURNAL OF IMMUNOLOGY 170(11):5615-5624
Dolganiuc A; Kodys K; Kopasz A; Marshall C; Do T; et al.
Hepatitis C virus core and nonstructural protein 3 proteins induce pro-and anti-inflammatory cytokines and inhibit dendritic cell differentiation
017
2415721 2003 ENDOCRINOLOGY 144(9):3828-3835
Etgen AM; Acosta-Martinez M
Participation of growth factor signal transduction pathways in estradiol facilitation of female reproductive behavior
02
25280103 2004 TRENDS IN CELL BIOLOGY 14(12):661-669
Eungdamrong NJ; Iyengar R
Computational approaches for modeling regulatory cellular networks
00
2614543 2004 BIOPHYSICAL JOURNAL 86(3):1270-1281
Feng XJ; Rabitz H
Optimal identification of biochemical reaction networks
02
271925 2003 BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS 311(4):1117-1132
Feske S; Okamura H; Hogan PG; Rao A
Ca2+/calcineurin signalling in cells of the immune system
05
2823390 2004 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 101(2):580-585
Francois P; Hakim V
Design of genetic networks with specified functions by evolution in silico
06
2914653 2004 CIRCULATION 110(12):1564-1571
Ghanim H; Aljada A; Hofmeyer D; Syed T; Mohanty P; et al.
Circulating mononuclear cells in the obese are in a proinflammatory state
00
30139101 2004 THROMBOSIS AND HAEMOSTASIS 92(4):858-866
Guo M; Sahni SK; Sahni A; Francis CW
Fibrinogen regulates the expression of inflammatory chemokines through NF-kappa B activation of endothelial cells
00
#LCRNCRNodes / Date / Journal / AuthorsLCSGCS
31536561 2004 GENES & DEVELOPMENT 18(18):2195-2224
Hayden MS; Ghosh S
Signaling to NF-kappa B
00
3215219 2003 EMBO JOURNAL 22(20):5530-5539
Hoffmann A; Leung TH; Baltimore D
Genetic analysis of NF-kappa B/Rel transcription factors defines functional specificities
212
330192 2002 SCIENCE 298(5596):1241-1245
Hoffmann A; Levchenko A; Scott ML; Baltimore D
The I kappa B-NF-kappa B signaling module: Temporal control and selective gene activation
103103
3412538 2003 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 100(24):14235-14240
Idel S; Dansky HM; Breslow JL
A20, a regulator of NF kappa B, maps to an atherosclerosis locus and differs between parental sensitive C57BL/6J and resistant FVB/N strains
03
35132104 2005 FEBS LETTERS 579(1):141-144
Iwai K; Lee BR; Hashiguchi M; Fukushima A; Iwashima M
IkB-alpha-specific transcript regulation by the C-terminal end of c-Rel
00
3613832 2003 JOURNAL OF CELL BIOLOGY 161(3):497-505
Jacquet M; Renault G; Lallet S; De Mey J; Goldbeter A
Oscillatory nucleocytoplasmic shuttling of the general stress response transcriptional activators Msn2 and Msn4 in Saccharomyces cerevisiae
05
371722 2003 FEBS LETTERS 541(1-3):176-177
Jensen MH; Sneppen K; Tiana G
Sustained oscillations and time delays in gene expression of protein Hes1
00
3812666 2004 JOURNAL OF BIOLOGICAL CHEMISTRY 279(2):1323-1329
Jiang BB; Xu SQ; Hou XY; Pimentel DR; Brecher P; et al.
Temporal control of NF-kappa B activation by ERK differentially regulates interleukin-1 beta-induced gene expression
03
3923850 2004 CELL 117(6):713-720
Kalir S; Alon U
Using a quantitative blueprint to reprogram the dynamics of the flagella gene network
04
4034456 2004 CURRENT OPINION IN GENETICS & DEVELOPMENT 14(4):440-445
Kerszberg M
Noise, delays, robustness, canalization and all that
00
#LCRNCRNodes / Date / Journal / AuthorsLCSGCS
4119037 2003 NEURAL NETWORKS 16(9):1389-1398
Kikuchi S; Fujimoto K; Kitagawa N; Fuchikawa T; Abe M; et al.
Kinetic simulation of signal transduction system in hippocampal long-term potentiation with dynamic modeling of protein phosphatase 2A
00
4215467 2004 JOURNAL OF BIOLOGICAL CHEMISTRY 279(6):4285-4291
Kim S; Domon-Dell C; Kang JH; Chung DH; Freund JN; et al.
Down-regulation of the tumor suppressor PTEN by the tumor necrosis factor-alpha/nuclear factor-kappa B (NF-kappa B)-inducing kinase/NF-kappa B pathway is linked to a default I kappa B-alpha autoregulatory loop
03
4313863 2004 HEPATOLOGY 40(5):1180-1189
Kimura K; Nagaki M; Takai S; Satake S; Moriwaki H
Pivotal role of nuclear factor kappa B signaling in anti-CD40-induced liver injury in mice
00
4413569 2004 JOURNAL OF BIOLOGICAL CHEMISTRY 279(41):42703-42708
Kiss-Toth E; Bagstaff SM; Sung HY; Jozsa V; Dempsey C; et al.
Human tribbles, a protein family controlling mitogen-activated protein kinase cascades
00
4514440 2003 THROMBOSIS AND HAEMOSTASIS 90(3):528-537
Kolev K; Skopal J; Simon L; Csonka E; Machovich R; et al.
Matrix metalloproteinase-9 expression in post-hypoxic human brain capillary endothelial cells: H2O2 as a trigger and NF-kappa B as a signal transducer
05
4614525 2003 JOURNAL OF BIOLOGICAL CHEMISTRY 278(10):8286-8293
Komarova SV; Pilkington MF; Weidema AF; Dixon SJ; Sims SM
RANK ligand-induced elevation of cytosolic Ca2+ accelerates nuclear translocation of nuclear factor kappa B in osteoclasts
011
47225875 2004 JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY C-PHOTOCHEMISTRY REVIEWS 5(2):113-137
Kumbhakar M; Nath S; Mukherjee T; Mittal JP; Pal H
Single-molecule detection in exploring nanoenvironments: an overview
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4813783 2004 MOLECULES AND CELLS 18(2):200-206
Kwon WJ; Kim SH; Park YO; Cho M; Kang CD; et al.
IKK gamma inhibits activation of NF-kappa B by NIK
00
4923088 2004 NATURE GENETICS 36(2):147-150
Lahav G; Rosenfeld N; Sigal A; Geva-Zatorsky N; Levine AJ; et al.
Dynamics of the p53-Mdm2 feedback loop in individual cells
310
501384 2003 BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS 305(2):211-214
Lee ZH; Kim HH
Signal transduction by receptor activator of nuclear factor kappa B in osteoclasts
012
#LCRNCRNodes / Date / Journal / AuthorsLCSGCS
5127410 2003 BIOTECHNOLOGY AND BIOENGINEERING 84(7):773-782
Levchenko A
Dynamical and integrative cell signaling: Challenges for the new biology
02
521256 2003 BIOCHEMICAL SOCIETY TRANSACTIONS 31:925-929
Lewis RS
Calcium oscillations in T-cells: mechanisms and consequences for gene expression
12
5313362 2004 GENES AND IMMUNITY 5(5):354-362
Leyfer D; Bond A; Tworog E; Perron D; Maska S; et al.
cis-element clustering correlates with dose-dependent pro-and antisignaling effects of IL18
00
5411138 2003 BIOESSAYS 25(8):767-780
Liou HC; Hsia CY
Distinctions between c-Rel and other NF-kappa B proteins in immunity and disease
03
5534077 2004 JOURNAL OF THEORETICAL BIOLOGY 228(2):195-215
Lipniacki T; Paszek P; Brasier AR; Luxon B; Kimmel M
Mathematical model of NF-kappa B regulatory module
00
5614449 2004 CANCER RESEARCH 64(18):6511-6523
Loercher A; Lee TL; Ricker JL; Howard A; Geoghegen J; et al.
Nuclear factor-kappa B is an important modulator of the altered gene expression profile and malignant phenotype in squamous cell carcinoma
00
5725526 2003 JOURNAL OF BIOLOGICAL CHEMISTRY 278(25):23094-23100
Malek S; Huang DB; Huxford T; Ghosh S; Ghosh G
X-ray crystal structure of an I kappa B beta center dot NF-kappa B p65 homodimer complex
39
5825468 2004 JOURNAL OF BIOLOGICAL CHEMISTRY 279(31):32869-32881
Marchetti L; Klein M; Schlett K; Pfizenmaier K; Eisel ULM
Tumor necrosis factor (TNF)-mediated neuroprotection against glutamate-induced excitotoxicity is enhanced by N-methyl-D-aspartate receptor activation - Essential role of a TNF receptor 2-mediated phosphatidylinositol 3-kinase-dependent NF-kappa B pathway
00
5926597 2004 PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY 86(1):45-76
Mariani L; Lohning M; Radbruch A; Hofer T
Transcriptional control networks of cell differentiation: insights from helper T lymphocytes
00
6015259 2004 DRUGS OF THE FUTURE 29(7):733-739
Matsumori A
The role of NF-kappa B in the pathogenesis of heart failure and endotoxemia
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6117613 2003 CHRONOBIOLOGY INTERNATIONAL 20(4):559-575
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Combining theoretical and experimental approaches to understand the circadian clock
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6214570 2004 JOURNAL OF BIOLOGICAL CHEMISTRY 279(48):50537-50554
Minami T; Horiuchi K; Miura M; Abid MR; Takabe W; et al.
Vascular endothelial growth factor-and thrombin-induced termination factor, down syndrome critical region-1, attenuates endothelial cell proliferation and angiogenesis
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6315573 2004 JOURNAL OF IMMUNOLOGY 173(9):5583-5590
Molinero LL; Fuertes MB; Girart MV; Fainboim L; Rabinovich GA; et al.
NF-kB regulates expression of the MHC class I-related chain A gene-in activated T lymphocytes
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6422316 2003 CURRENT BIOLOGY 13(16):1409-1413
Monk NAM
Oscillatory expression of Hes1, p53, and NF-kappa B driven by transcriptional time delays
410
6515191 2004 PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 101(3):745-750
Mukhopadhyay P; Zheng M; Bedzyk LA; LaRossa RA; Storz G
Prominent roles of the NorR and Fur regulators in the Escherichia coli transcriptional response to reactive nitrogen species
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6614099 2004 RADIATION RESEARCH 162(5):536-546
Murley JS; Kataoka Y; Cao DC; Li JJ; Oberley LW; et al.
Delayed radioprotection by NF kappa B-mediated induction of Sod2 (MnSOD) in SA-NH tumor cells after exposure to clinically used thiol-containing drugs
00
6726951 2004 CHEMBIOCHEM 5(10):1334-1347
Murrell MF; Yarema KJ; Levchenko A
The systems biology of glycosylation
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Oscillations in NF-kappa B signaling control the dynamics of gene expression
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Nelson DE; See V; Nelson G; White MRH
Oscillations in transcription factor dynamics: a new way to control gene expression
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Proteasome inhibitors induce inhibitory kappa B (I kappa B) kinase activation, I kappa B alpha degradation, and nuclear factor kappa B activation in HT-29 cells
03
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A dual role for lkk alpha in tooth development
04
7214578 2004 JOURNAL OF THEORETICAL BIOLOGY 230(3):301-312
Orrell D; Bolouri H
Control of internal and external noise in genetic regulatory networks
00
7314544 2004 BIOPHYSICAL JOURNAL 87(1):37-46
Papin JA; Palsson BO
The JAK-STAT signaling network in the human B-cell: An extreme signaling pathway analysis
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Topological analysis of mass-balanced signaling networks: a framework to obtain network properties including crosstalk
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Papin JA; Reed JL; Palsson BO
Hierarchical thinking in network biology: the unbiased modularization of biochemical networks
01
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Modeling the isolated cardiac myocyte
00
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Feedback regulation of lymphocyte signalling
02
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Regulation of Cu/Zn-superoxide dismutase expression via the phosphatidylinositol 3 kinase/Akt pathway and nuclear factor-kappa B
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8215060 2004 EXPERIMENTAL CELL RESEARCH 296(2):173-182
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Consequences of notch-mediated induction of Jagged1
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Degradation of promoter-bound p65/RelA is essential for the prompt termination of the nuclear factor kappa B response
00
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Interleukin-1 beta but not IL-1 alpha at binds to fibrinogen and fibrin and has enhanced activity in the bound form
00
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Santoro MG; Rossi A; Amici C
New embo member's review - NF-kappa B and virus infection: who controls whom
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Modeling beta-adrenergic control of cardiac myocyte contractility in silico
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TNF alpha suppresses link protein and type II collagen expression in chondrocytes: Role of MEK1/2 and NF-kappa B signaling pathways
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9211182 2004 MOLECULAR PHARMACOLOGY 66(1):70-75
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In silico simulation of inhibitor drug effects on nuclear factor-kappa B pathway dynamics
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Ting AY; Endy D
Decoding NF-kappa B signaling
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Vasudevan KM; Gurumurthy S; Rangnekar VM
Suppression of PTEN expression by NF-kappa B prevents apoptosis
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A spectrum of models of signaling pathways
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Cytoplasmic I kappa B alpha increases NF-kappa B-independent transcription through binding to histone deacetylase (HDAC) 1 and HDAC3
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A functional connection between RanGTP,NF-kappa B and septic shock
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10214928 2003 JOURNAL OF BIOLOGICAL CHEMISTRY 278(33):30881-30888
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RelA control of I kappa B alpha phosphorylation - A positive feedback loop for high affinity NF-kappa B complexes
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Bcl10 activates the NF-kappa B pathway through ubiquitination of NEMO
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