The Library
Browse by Warwick Author
Up a level |
Number of items: 41.
Chen, Sida and Finkenstädt, Bärbel (2024) Bayesian spline-based hidden Markov models with applications to actimetry data and sleep analysis. Journal of the American Statistical Association . pp. 1-21. doi:10.1080/01621459.2023.2279707 ISSN 1537-274X. (In Press)
Zhang, Yiyuan, Cordina-Duverger, Emilie, Komarzynski, Sandra, Attari, Amal M., Huang, Qi, Aristizabal, Guillen, Faraut, Brice, Léger, Damien, Adam, René, Guénel, Pascal, Brettschneider, Julia, Finkenstädt, Bärbel and Lévi, Francis (2022) Digital circadian and sleep health in individual hospital shift workers : a cross sectional telemonitoring study. eBioMedicine, 81 . 104121. doi:10.1016/j.ebiom.2022.104121 ISSN 2352-3964.
Unosson, Måns, Brancaccio, Marco, Hastings, Michael H., Johansen, Adam M. and Finkenstädt, Bärbel (2021) A spatio-temporal model to reveal oscillator phenotypes in molecular clocks : parameter estimation elucidates circadian gene transcription dynamics in single-cells. PLoS Computational Biology, 17 (12). e1009698. doi:10.1371/journal.pcbi.1009698 ISSN 1553-7358.
Dulong, S., Huang, Qi, Innominato, P. F., Karaboue, A., Bouchahda, M., Pruvost, A., Théodoro, F., Agrofoglio, L. A., Adam, R., Finkenstädt, Bärbel and Lévi, Francis A. (2021) Circadian and chemotherapy-related changes in urinary modified nucleosides excretion in patients with metastatic colorectal cancer. Scientific Reports, 11 (1). 24015. doi:10.1038/s41598-021-03247-2 ISSN 2045-2322.
Hadj-Amar, Beniamino, Finkenstädt, Bärbel, Fiecas, Mark and Huckstepp, Robert T. R. (2021) Identifying the recurrence of sleep apnea using a harmonic hidden Markov model. The Annals of Applied Statistics, 15 (3). pp. 1171-1193. doi:10.1214/21-AOAS1455 ISSN 1932-6157.
McNamara, Anne V, Awais, Raheela, Momiji, Hiroshi, Dunham, Lee, Featherstone, Karen, Harper, Claire V, Adamson, Antony A, Semprini, Sabrina, Jones, Nicholas A, Spiller, David G, Mullins, John J, Finkenstädt, Bärbel, Rand, David A., White, Michael R. H. and Davis, Julian R. E. (2021) Transcription factor Pit-1 affects transcriptional timing in the dual-promoter human prolactin gene. Endocrinology, 162 (4). bqaa249. doi:10.1210/endocr/bqaa249 ISSN 0013-7227.
Cavallaro, Massimo, Walsh, Mark David, Jones, Matt, Teahan, James, Tiberi, Simone, Finkenstädt, Bärbel and Hebenstreit, Daniel (2021) Data for 3'-5' crosstalk contributes to transcriptional bursting. [Dataset]
Cavallaro, Massimo, Walsh, Mark D., Jones, Matt, Teahan, James, Tiberi, Simone, Finkenstädt, Bärbel and Hebenstreit, Daniel (2021) 3’-5’ crosstalk contributes to transcriptional bursting. Genome Biology, 22 . 56. doi:10.1186/s13059-020-02227-5 ISSN 1474-7596.
Touloupou, Panayiota, Finkenstädt, Bärbel, Besser, Thomas E., French, Nigel P. and Spencer, Simon E. F. (2020) Bayesian inference for multi-strain epidemics with application to Escherichia coli O157 : H7 in feedlot cattle. The Annals of Applied Statistics, 14 (4). pp. 1925-1944. doi:10.1214/20-AOAS1366 ISSN 1932-6157.
Lévi, Francis A., Komarzynski, Sandra, Huang, Qi, Young, Teresa, Ang, Yeng, Fuller, Claire, Bolborea, Matei, Brettschneider, Julia, Fursse, Joanna, Finkenstädt, Bärbel, White, David Pollard and Innominato, Pasquale F. (2020) Tele-monitoring of cancer patients’ rhythms during daily life identifies actionable determinants of circadian and sleep disruption. Cancers, 12 (7). 1938. doi:10.3390/cancers12071938 ISSN 2072-6694.
Hadj-Amar, Beniamino, Finkenstädt, Bärbel, Fiecas, Mark, Lévi, Francis A. and Huckstepp, Robert T. R. (2020) Bayesian model search for nonstationary periodic time series. Journal of the American Statistical Association, 115 (531). pp. 1320-1335. doi:10.1080/01621459.2019.1623043 ISSN 0162-1459.
Touloupou, Panayiota, Finkenstädt, Bärbel and Spencer, Simon E. F. (2020) Scalable Bayesian inference for coupled hidden Markov and semi-Markov models. Journal of Computational and Graphical Statistics, 29 (2). 238-249 . doi:10.1080/10618600.2019.1654880 ISSN 1537-2715.
Komarzynski, Sandra, Bolborea, Matei, Huang, Qi, Finkenstädt, Bärbel and Lévi, Francis A. (2019) Predictability of individual circadian phase during daily routine for medical applications of circadian clocks. JCI Insight, 4 (18). e130423. doi:10.1172/jci.insight.130423 ISSN 2379-3708.
Touloupou, Panayiota, Finkenstädt, Bärbel and Spencer, Simon E. F. (2019) Data for Scalable Bayesian inference for coupled hidden Markov and semi-Markov models. [Dataset]
Momiji, Hiroshi, Hassall, Kirsty, Featherstone, Karen, McNamara, Anne, Patist, Amanda, Spiller, David G., Christian, Helen, White, Michael R. H., Davis, Julian R. E., Finkenstädt, Bärbel and Rand, D. A. (David A.) (2019) Disentangling juxtacrine from paracrine signalling in dynamic tissue. PLoS Computational Biology, 15 (6). e1007030. doi:10.1371/journal.pcbi.1007030 ISSN 1553-7358.
Calderazzo, Silvia, Brancaccio, Marco and Finkenstädt, Bärbel (2019) Filtering and inference for stochastic oscillators with distributed delays. Bioinformatics, 35 (8). pp. 1380-1387. doi:10.1093/bioinformatics/bty782 ISSN 1460-2059.
Tiberi, Simone, Walsh, Mark David, Cavallaro, Massimo, Hebenstreit, Daniel and Finkenstädt, Bärbel (2018) Bayesian inference on stochastic gene transcription from flow cytometry data. Bioinformatics, 34 (17). i647-i655. doi:10.1093/bioinformatics/bty568 ISSN 1367-4811.
Komarzynski, Sandra, Huang, Qi, Innominato, Pasquale F., Maurice, Monique, Arbaud, Alexandre, Beau, Jacques, Bouchahda, Mohamed, Ulusakarya, Ayhan, Beaumatin, Nicolas, Breda, Gabrièle, Finkenstädt, Bärbel and Lévi, Francis A. (2018) Relevance of a mobile internet platform for capturing inter- and intrasubject variabilities in circadian coordination during daily routine : pilot study. Journal of Medical Internet Research, 20 (6). e204. doi:10.2196/jmir.9779 ISSN 1438-8871.
Huang, Qi, Cohen, Dwayne, Komarzynski, Sandra, Li, Xiao-Mei, Innominato, Pasquale F., Lévi, Francis A. and Finkenstädt, Bärbel (2018) Hidden Markov models for monitoring circadian rhythmicity in telemetric activity data. Journal of The Royal Society Interface, 15 (139). doi:10.1098/rsif-2017-0885 ISSN 1742-5689.
Dunham, Lee S. S., Momiji, Hiroshi, Harper, Claire V., Downton, Polly J., Hey, Kirsty L., McNamara, Anne, Featherstone, Karen, Spiller, David G., Rand, David A., Finkenstädt, Bärbel, White, Michael R. H. and Davis, Julian R.E. (2017) Asymmetry between activation and deactivation during a transcriptional pulse. Cell Systems, 5 (6). 646-653.E5. doi:10.1016/j.cels.2017.10.013 ISSN 2405-4712.
Minas, Giorgos, Jenkins, Dafyd J., Rand, D. A. (David A.) and Finkenstädt, Bärbel (2017) Inferring transcriptional logic from multiple dynamic experiments. Bioinformatics, 33 (21). pp. 3437-3444. doi:10.1093/bioinformatics/btx407 ISSN 1367-4803.
Minas, Giorgos, Momiji, Hiroshi, Jenkins, Dafyd J., Costa, Maria J. (Maria João), Rand, David A. and Finkenstädt, Bärbel (2017) ReTrOS : a MATLAB toolbox for reconstructing transcriptional activity from gene and protein expression data. BMC Bioinformatics, 18 (316). doi:10.1186/s12859-017-1695-8 ISSN 1471-2105.
Bechtold, Ulrike, Penfold, Christopher A., Jenkins, Dafyd J., Legaie, Roxane, Moore, Jonathan D., Lawson, Tracy, Matthews, Jack S.A., Vialet-Chabrand, Silvere R. M., Baxter, Laura, Subramaniam, Sunitha et al.
(2016)
Time-series transcriptomics reveals that AGAMOUS-LIKE22 affects primary metabolism and developmental processes in drought-stressed Arabidopsis.
The Plant Cell, 28
(2).
pp. 345-366.
doi:10.1105/tpc.15.00910
ISSN 1040-4651.
Featherstone, Katie, Hey, Kirsty L., Momiji, Hiroshi, McNamara, A. V., Patist, A. L., Woodburn, J., Spiller , D. G., Christian, H. C., McNeilly, A. S., Mullins, J. J. , Finkenstädt, Bärbel, Rand, D. A. (David A.), White, M. R. H. and David, J. R. E. (2016) Spatially coordinated dynamic gene transcription in living pituitary tissue. eLife, 5 . e08494. doi:10.7554/eLife.08494 ISSN 2050-084X.
Hey, Kirsty L., Momiji, Hiroshi, Featherstone, Karen, Davis, Julian R.E., White, Michael R.H., Rand, D. A. (David A.) and Finkenstädt, Bärbel (2015) A stochastic transcriptional switch model for single cell imaging data. Biostatistics, 16 (4). pp. 655-669. doi:10.1093/biostatistics/kxv010 ISSN 1465-4644.
Sidaway-Lee, Kate, Costa, Maria J. (Maria João), Rand, D. A. (David A.), Finkenstädt, Bärbel and Penfield, Steven (2014) Direct measurement of transcription rates reveals multiple mechanisms for configuration of the Arabidopsis ambient temperature response. Genome Biology, Volume 15 (Number 3). Article number R45. doi:10.1186/gb-2014-15-3-r45 ISSN 1474-7596.
Woodcock, Dan J., Vance, Keith W., Komorowski, Michal, Koentges, Georgy, Finkenstädt, Bärbel and Rand, D. A. (David A.) (2013) A hierarchical model of transcriptional dynamics allows robust estimation of transcription rates in populations of single cells with variable gene copy number. Bioinformatics, Volume 29 (Number 12). pp. 1519-1525. doi:10.1093/bioinformatics/btt201 ISSN 1367-4803.
Costa, Maria J. (Maria João), Finkenstädt, Bärbel, Gould, Peter D., Foreman, Julia, Halliday, Karen J., Hall, Anthony, Roche, Véronique, Lévi, Francis A. and Rand, D. A. (David A.) (2013) Inference on periodicity of circadian time series. Biostatistics, Volume 14 (Number 4). pp. 792-806. doi:10.1093/biostatistics/kxt020 ISSN 1465-4644.
Jenkins, Dafyd J., Finkenstädt, Bärbel and Rand, D. A. (David A.) (2013) A temporal switch model for estimating transcriptional activity in gene expression. Bioinformatics, Volume 29 (Number 9). pp. 1158-1165. doi:10.1093/bioinformatics/btt111 ISSN 1367-4803.
Gould, Peter D., Ugarte, Nicolas, Domijan, Mirela, Costa, Maria J. (Maria João), Foreman, Julia, MacGregor, Dana, Rose, Ken, Griffiths, Jayne, Millar, A. J. (Andrew J.), Finkenstädt, Bärbel, Penfield, Steven, Rand, D. A. (David A.), Halliday, Karen J. and Hall, Anthony J. W. (2013) Network balance via CRY signalling controls the Arabidopsis circadian clock over ambient temperatures. Molecular Systems Biology, Volume 9 . Article no. 650. doi:10.1038/msb.2013.7 ISSN 1744-4292.
Finkenstädt, Bärbel, Woodcock, Dan J., Komorowski, Michal, Harper, Claire V., Davis, Julian R. E., White, Mike R. H. and Rand, D. A. (David A.) (2013) Quantifying intrinsic and extrinsic noise in gene transcription using the linear noise approximation : an application to single cell data. Annals of Applied Statistics, Volume 7 ( Number 4). pp. 1960-1982. ISSN 1932-6157.
Windram, Oliver P., Madhou, Priyadharshini, McHattie, Stuart, Hill, Claire, Hickman, Richard J., Cooke, Emma J., Jenkins, Dafyd J., Penfold, Christopher A., Baxter, Laura, Breeze, Emily et al.
(2012)
Arabidopsis defense against Botrytis cinerea : chronology and regulation deciphered by high-resolution temporal transcriptomic analysis.
The Plant Cell, Vol.24
(No.9).
pp. 3530-3557.
doi:10.1105/tpc.112.102046
ISSN 1040-4651.
Pinto, A. A., Ferreira, M., Finkenstädt, Bärbel, Oliveira, B. and Yannacopoulos, A. N. (2012) On the convergence to Walrasian prices in random matching Edgeworthian economies. Central European Journal of Operations Research, Volume 20 (Number 3). pp. 485-495. doi:10.1007/s10100-011-0208-5 ISSN 1435-246X.
Rittman, Martyn, Hoffmann, Søren V., Gilroy, Emma, Hicks, Matthew R., Finkenstädt, Bärbel and Rodger, Alison (2012) Probing the structure of long DNA molecules in solution using synchrotron radiation linear dichroism. Physical Chemistry Chemical Physics, Vol.14 (No.1). pp. 353-366. doi:10.1039/c1cp22371b ISSN 1463-9076.
Harper, Claire V., Finkenstädt, Bärbel, Woodcock, Dan J., Friedrichsen, Sönke, Semprini, Sabrina, Ashall, Louise, Spiller, David G., Mullins, John J., Rand, D. A. (David A.), Davis, Julian R. E. and White, Michael R. H. (2011) Dynamic analysis of stochastic transcription cycles. PLos Biology, Vol.9 (No.4). doi:10.1371/journal.pbio.1000607 ISSN 1545-7885.
Ferreira, M., Finkenstädt, Bärbel, Oliveira, B. M. P. M., Pinto, Alberto A. and Yannacopoulos, A. N. (2011) Bargaining skills in an Edgeworthian economy. In: Peixoto, Mauricio Matos and Pinto, Alberto A. and Rand, David A., (eds.) Dynamics, Games and Science I : DYNA 2008, in Honor of Maurício Peixoto and David Rand, University of Minho, Braga, Portugal, September 8-12, 2008. Springer Proceedings in Mathematics, Volume 1 (Number 2011). Springer, pp. 339-352. ISBN 9783642114557
Komorowski, Michal, Finkenstädt, Bärbel and Rand, D. A. (David A.) (2010) Using a single fluorescent reporter gene to infer half-life of extrinsic noise and other parameters of gene expression. Biophysical Journal, Vol.98 (No.12). pp. 2759-2769. doi:10.1016/j.bpj.2010.03.032 ISSN 0006-3495.
Komorowski, Michal, Finkenstädt, Bärbel, Harper, Claire V. and Rand, D. A. (David A.) (2009) Bayesian inference of biochemical kinetic parameters using the linear noise approximation. BMC Bioinformatics, Vol.10 (No.343). doi:10.1186/1471-2105-10-343 ISSN 1471-2105.
Finkenstädt, Bärbel, Heron, Elizabeth A., Komorowski, Michal, Edwards, Kieron, Tang, Sanyi, Harper, Claire V., Davis, Julian R. E., White, Michael R. H., Millar, A. J. (Andrew J.) and Rand, D. A. (David A.) (2008) Reconstruction of transcriptional dynamics from gene reporter data using differential equations. Bioinformatics, Vol.24 (No.24). pp. 2901-2907. doi:10.1093/bioinformatics/btn562 ISSN 1367-4803.
Heron, Elizabeth A., Finkenstädt, Bärbel and Rand, D. A. (David A.) (2007) Bayesian inference for dynamic transcriptional regulation; the Hes1 system as a case study. Bioinformatics, Vol.23 (No.19). pp. 2596-2603. doi:10.1093/bioinformatics/btm367 ISSN 1367-4803.
Lekone, Phenyo E. and Finkenstädt, Bärbel (2006) Statistical inference in a stochastic epidemic SEIR model with control intervention : Ebola as a case study. Biometrics, Volume 62 (Number 4). pp. 1170-1177. doi:10.1111/j.1541-0420.2006.00609.x ISSN 0006-341X.
This list was generated on Thu Mar 28 10:18:11 2024 GMT.