The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.
The IκB-NF-κB Signaling Module: Temporal Control and Selective Gene Activation
Abstract
Nuclear localization of the transcriptional activator NF-κB (nuclear factor κB) is controlled in mammalian cells by three isoforms of NF-κB inhibitor protein: IκBα, -β, and - ɛ . Based on simplifying reductions of the IκB–NF-κB signaling module in knockout cell lines, we present a computational model that describes the temporal control of NF-κB activation by the coordinated degradation and synthesis of IκB proteins. The model demonstrates that IκBα is responsible for strong negative feedback that allows for a fast turn-off of the NF-κB response, whereas IκBβ and - ɛ function to reduce the system's oscillatory potential and stabilize NF-κB responses during longer stimulations. Bimodal signal-processing characteristics with respect to stimulus duration are revealed by the model and are shown to generate specificity in gene expression.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
NF-κB: a key role in inflammatory diseases
Tak, P. P., & Firestein, G. S. (2001) · Journal of Clinical Investigation · doi:10.1172/jci11830 · Cited by 3,918
Activators and target genes of Rel/NF-κB transcription factors
Pahl, H. L. (1999) · Oncogene · doi:10.1038/sj.onc.1203239 · Cited by 3,727
Cited by
Shared Principles in NF-κB Signaling
Hayden, M. S., & Ghosh, S. (2008) · Cell · doi:10.1016/j.cell.2008.01.020 · Cited by 4,494
Hayden, M. S., & Ghosh, S. (2004) · Genes & Development · doi:10.1101/gad.1228704 · Cited by 3,842
Network motifs: theory and experimental approaches
Alon, U. (2007) · Nature Reviews Genetics · doi:10.1038/nrg2102 · Cited by 3,279
Macrophages, inflammation, and insulin resistance
Olefsky, J. M., & Glass, C. K. (2010) · Annual Review of Physiology · doi:10.1146/annurev-physiol-021909-135846 · Cited by 2,733
NF-κB, the first quarter-century: remarkable progress and outstanding questions
Hayden, M. S., & Ghosh, S. (2012) · Genes & Development · doi:10.1101/gad.183434.111 · Cited by 1,693
Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell
Tyson, J. J., Chen, K. C., & Novak, B. (2003) · Current Opinion in Cell Biology · doi:10.1016/s0955-0674(03)00017-6 · Cited by 1,583
Cell-signalling dynamics in time and space
Kholodenko, B. N. (2006) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm1838 · Cited by 1,347
Tili, E., Michaille, J.-J., Cimino, A., Costinean, S., Dumitru, C. D., Adair, B., Fabbri, M., Alder, H., Liu, C. G., Calin, G. A., et al. (2007) · The Journal of Immunology · doi:10.4049/jimmunol.179.8.5082 · Cited by 1,304
Oscillations in NF-κB Signaling Control the Dynamics of Gene Expression
Nelson, D. E., Ihekwaba, A. E. C., Elliott, M., Johnson, J. R., Gibney, C. A., Foreman, B. E., Nelson, G., See, V., Horton, C. A., Spiller, D. G., et al. (2004) · Science · doi:10.1126/science.1099962 · Cited by 1,186
Design principles of biochemical oscillators
Novák, B., & Tyson, J. J. (2008) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm2530 · Cited by 1,137
Kawahara, T. L. A., Michishita, E., Adler, A. S., Damian, M., Berber, E., Lin, M., McCord, R. A., Ongaigui, K. C. L., Boxer, L. D., Chang, H. Y., et al. (2009) · Cell · doi:10.1016/j.cell.2008.10.052 · Cited by 1,090
Prebiotic Systems Chemistry: New Perspectives for the Origins of Life
Ruiz-Mirazo, K., Briones, C., & de la Escosura, A. (2014) · Chemical Reviews · doi:10.1021/cr2004844 · Cited by 930
Circuitry of nuclear factor κB signaling
Hoffmann, A., & Baltimore, D. (2006) · Immunological Reviews · doi:10.1111/j.0105-2896.2006.00375.x · Cited by 907
Self-citationDe Bosscher, K., Vanden Berghe, W., & Haegeman, G. (2003) · Endocrine Reviews · doi:10.1210/er.2002-0006 · Cited by 898
p53 Dynamics Control Cell Fate
Purvis, J. E., Karhohs, K. W., Mock, C., Batchelor, E., Loewer, A., & Lahav, G. (2012) · Science · doi:10.1126/science.1218351 · Cited by 770
Cummins, E. P., Berra, E., Comerford, K. M., Ginouves, A., Fitzgerald, K. T., Seeballuck, F., Godson, C., Nielsen, J. E., Moynagh, P., Pouyssegur, J., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0602235103 · Cited by 788
Moiseeva, O., Deschênes‐Simard, X., St‐Germain, E., Igelmann, S., Huot, G., Cadar, A. E., Bourdeau, V., Pollak, M. N., & Ferbeyre, G. (2013) · Aging Cell · doi:10.1111/acel.12075 · Cited by 654
Physicochemical modelling of cell signalling pathways
Aldridge, B. B., Burke, J. M., Lauffenburger, D. A., & Sorger, P. K. (2006) · Nature Cell Biology · doi:10.1038/ncb1497 · Cited by 592
RIG-I detects viral genomic RNA during negative-strand RNA virus infection
Rehwinkel, J., Tan, C. P., Goubau, D., Schulz, O., Pichlmair, A., Bier, K., Robb, N., Vreede, F., Barclay, W., Fodor, E., et al. (2010) · Cell · doi:10.1016/j.cell.2010.01.020 · Cited by 585
Pulsatile Stimulation Determines Timing and Specificity of NF-κB-Dependent Transcription
Ashall, L., Horton, C. A., Nelson, D. E., Paszek, P., Harper, C. V., Sillitoe, K., Ryan, S., Spiller, D. G., Unitt, J. F., Broomhead, D. S., et al. (2009) · Science · doi:10.1126/science.1164860 · Cited by 543
Hao, S., & Baltimore, D. (2009) · Nature Immunology · doi:10.1038/ni.1699 · Cited by 480
Self-citationGood cop, bad cop: the different faces of NF-κB
Perkins, N. D., & Gilmore, T. D. (2006) · Cell Death & Differentiation · doi:10.1038/sj.cdd.4401838 · Cited by 489
Structural identifiability of systems biology models: a critical comparison of methods
Chis, O.-T., Banga, J. R., & Balsa-Canto, E. (2011) · PLoS ONE · doi:10.1371/journal.pone.0027755 · Cited by 448
The Stressed CNS: When Glucocorticoids Aggravate Inflammation
Sorrells, S. F., Caso, J. R., Munhoz, C. D., & Sapolsky, R. M. (2009) · Neuron · doi:10.1016/j.neuron.2009.09.032 · Cited by 425
Statistical mechanical approaches to models with many poorly known parameters.
Brown, K. S., & Sethna, J. P. (2003) · Physical Review E · doi:10.1103/physreve.68.021904 · Cited by 398
Gao, H.-M., Zhou, H., Zhang, F., Wilson, B. C., Kam, W., & Hong, J.-S. (2011) · The Journal of Neuroscience · doi:10.1523/jneurosci.3732-10.2011 · Cited by 369
SIRT2 regulates NF-κB dependent gene expression through deacetylation of p65 Lys310
Rothgiesser, K. M., Erener, S., Waibel, S., Lüscher, B., & Hottiger, M. O. (2010) · Journal of Cell Science · doi:10.1242/jcs.073783 · Cited by 345
Litvak, V., Ramsey, S. A., Rust, A. G., Zak, D. E., Kennedy, K. A., Lampano, A. E., Nykter, M., Shmulevich, I., & Aderem, A. (2009) · Nature Immunology · doi:10.1038/ni.1721 · Cited by 295
Cell-to-cell variation in p53 dynamics leads to fractional killing.
Paek, A. L., Liu, J. C., Loewer, A., Forrester, W. C., & Lahav, G. (2016) · Cell · doi:10.1016/j.cell.2016.03.025 · Cited by 292
Gong, Y., Lee, J. N., Lee, P. C. W., Goldstein, J. L., Brown, M. S., & Ye, J. (2006) · Cell Metabolism · doi:10.1016/j.cmet.2005.11.014 · Cited by 262
An iterative identification procedure for dynamic modeling of biochemical networks
Balsa-Canto, E., Alonso, A. A., & Banga, J. R. (2010) · BMC Systems Biology · doi:10.1186/1752-0509-4-11 · Cited by 202
Crosstalk via the NF-κB signaling system
Basak, S., & Hoffmann, A. (2008) · Cytokine & Growth Factor Reviews · doi:10.1016/j.cytogfr.2008.04.005 · Cited by 177
Self-citationCho, K.-H., Shin, S.-Y., Kolch, W., & Wolkenhauer, O. (2003) · SIMULATION · doi:10.1177/0037549703040943 · Cited by 172
Between the Poles of Data‐Driven and Mechanistic Modeling for Process Operation
Solle, D., Hitzmann, B., Herwig, C., Pereira Remelhe, M., Ulonska, S., Wuerth, L., Prata, A., & Steckenreiter, T. (2017) · Chemie Ingenieur Technik · doi:10.1002/cite.201600175 · Cited by 134
Klingmüller, U., Bauer, A., Bohl, S., Nickel, P. J., Breitkopf, K., Dooley, S., Zellmer, S., Kern, C., Merfort, I., Sparna, T., et al. (2006) · IEE Proceedings - Systems Biology · doi:10.1049/ip-syb:20050067 · Cited by 127
Cheng, X., Qiu, X., Liu, Y., Yuan, C., & Yang, X. (2019) · Thrombosis Research · doi:10.1016/j.thromres.2019.02.028 · Cited by 90
Predicting Gene Essentiality Using Genome-Scale in Silico Models
Joyce, A. R., & Palsson, B. Ø. (2008) · Methods in Molecular Biology™ · doi:10.1007/978-1-59745-321-9_30 · Cited by 87
Yan, H., Zhang, B., Li, S., & Zhao, Q. (2010) · BMC Systems Biology · doi:10.1186/1752-0509-4-50 · Cited by 73
Thomas, P. G., Carter, M. R., Da’dara, A. A., DeSimone, T. M., & Harn, D. A. (2005) · The Journal of Immunology · doi:10.4049/jimmunol.175.4.2082 · Cited by 76
Atkinson, G. P., Nozell, S. E., Harrison, D. K., Stonecypher, M. S., Chen, D., & Benveniste, E. N. (2009) · Oncogene · doi:10.1038/onc.2009.232 · Cited by 75
Skousen, J. L., Bridge, M. J., & Tresco, P. A. (2015) · Biomaterials · doi:10.1016/j.biomaterials.2014.08.039 · Cited by 61
González, F., Considine, R. V., Abdelhadi, O. A., & Acton, A. J. (2020) · The Journal of Clinical Endocrinology & Metabolism · doi:10.1210/clinem/dgaa108 · Cited by 60
The primary cilium influences interleukin-1β-induced NFκB signalling by regulating IKK activity
Wann, A. K. T., Chapple, J. P., & Knight, M. M. (2014) · Cellular Signalling · doi:10.1016/j.cellsig.2014.04.004 · Cited by 53
Globally optimised parameters for a model of mitotic control in frog egg extracts.
Zwolak, J. W., Tyson, J. J., & Watson, L. T. (2005) · IEE Proceedings - Systems Biology · doi:10.1049/ip-syb:20045032 · Cited by 49
NFκB signaling in T cell memory
Daniels, M. A., Luera, D., & Teixeiro, E. (2023) · Frontiers in Immunology · doi:10.3389/fimmu.2023.1129191 · Cited by 47
Calandria, J. M., Asatryan, A., Balaszczuk, V, Knott, E. J., Jun, B. K., Mukherjee, P. K., Belayev, L., & Bazan, N. G. (2015) · Cell Death & Differentiation · doi:10.1038/cdd.2014.233 · Cited by 47
Xie, B., Lu, C., Chen, C., Zhou, J., & Deng, Z. (2020) · Mediators of Inflammation · doi:10.1155/2020/1231243 · Cited by 25
He, F., Brown, M., & Yue, H. (2010) · International Journal of Robust and Nonlinear Control · doi:10.1002/rnc.1558 · Cited by 24
NAP1L1 regulates NF-κB signaling pathway acting on anti-apoptotic Mcl-1 gene expression
Tanaka, T., Hozumi, Y., Iino, M., & Goto, K. (2017) · Biochimica et Biophysica Acta (BBA) - Molecular Cell Research · doi:10.1016/j.bbamcr.2017.06.021 · Cited by 24
Gérard, C., Gonze, D., Lemaigre, F., & Novák, B. (2014) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1003455 · Cited by 20
Expression profiling of drug response - from genes to pathways
Herwig, R., & Lehrach, H. (2006) · Dialogues in Clinical Neuroscience · doi:10.31887/dcns.2006.8.3/rherwig · Cited by 14
Konrath, F., Willenbrock, M., Busse, D., Scheidereit, C., & Wolf, J. (2023) · iScience · doi:10.1016/j.isci.2023.107917 · Cited by 7
Metadata
- Authors
- Hoffmann, A., Levchenko, A., Scott, M. L., & Baltimore, D.
- Venue
- Science
- Published
- 2002-11-08
- Volume
- 298
- Issue
- 5596
- Pages
- 1241-1245
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- OpenAlex
- W1641228030
- Cited by
- 1,858
- References
- 2
- FWCI
- 24.36
- Type
- journal article
- Language
- en
- Open access
- closed
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.