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Ahmet Ay
Ahmet Ay
Colgate University: Departments of Biology and Mathematics
Verified email at colgate.edu - Homepage
Title
Cited by
Cited by
Year
Mathematical modeling of gene expression: a guide for the perplexed biologist
A Ay, DN Arnosti
Critical reviews in biochemistry and molecular biology 46 (2), 137-151, 2011
1792011
Deciphering a transcriptional regulatory code: modeling short‐range repression in the Drosophila embryo
WD Fakhouri, A Ay, R Sayal, J Dresch, E Dayringer, DN Arnosti
Molecular systems biology 6 (1), 341, 2010
1592010
Circadian Clock Model Supports Molecular Link Between PER3 and Human Anxiety
AR Liberman, SB Kwon, HT Vu, A Filipowicz, A Ay, KK Ingram
Scientific reports 7 (1), 9893, 2017
662017
Thermodynamic modeling of transcription: sensitivity analysis differentiates biological mechanism from mathematical model-induced effects
JM Dresch, X Liu, DN Arnosti, A Ay
BMC systems biology 4, 1-11, 2010
632010
Short-lived Her proteins drive robust synchronized oscillations in the zebrafish segmentation clock
A Ay, S Knierer, A Sperlea, J Holland, EM Özbudak
Development 140 (15), 3244-3253, 2013
562013
Shifts in bird migration timing in north American long‐distance and short‐distance migrants are associated with climate change
J Zaifman, D Shan, A Ay, AG Jimenez
International Journal of Zoology 2017 (1), 6025646, 2017
542017
Hamiltonian equations in R3
A Ay, M Gürses, K Zheltukhin
Journal of mathematical physics 44 (12), 5688-5705, 2003
492003
Modeling strengthens molecular link between circadian polymorphisms and major mood disorders
AR Liberman, L Halitjaha, A Ay, KK Ingram
Journal of Biological Rhythms 33 (3), 318-336, 2018
482018
Noise in the vertebrate segmentation clock is boosted by time delays but tamed by notch signaling
S Keskin, GS Devakanmalai, SB Kwon, HT Vu, Q Hong, YY Lee, M Soltani, ...
Cell reports 23 (7), 2175-2185. e4, 2018
482018
Molecular insights into chronotype and time-of-day effects on decision-making
KK Ingram, A Ay, SB Kwon, K Woods, S Escobar, M Gordon, IH Smith, ...
Scientific Reports 6 (1), 29392, 2016
482016
Diurnal preference predicts phase differences in expression of human peripheral circadian clock genes
A Ferrante, D Gellerman, A Ay, KP Woods, AM Filipowicz, K Jain, ...
Journal of circadian rhythms 13, 2015
412015
Spatial gradients of protein-level time delays set the pace of the traveling segmentation clock waves
A Ay, J Holland, A Sperlea, GS Devakanmalai, S Knierer, S Sangervasi, ...
Development 141 (21), 4158-4167, 2014
342014
Pairing of segmentation clock genes drives robust pattern formation
OQH Zinani, K Keseroğlu, A Ay, EM Özbudak
Nature 589 (7842), 431-436, 2021
292021
Shortest path counting in probabilistic biological networks
Y Ren, A Ay, T Kahveci
BMC bioinformatics 19, 1-19, 2018
262018
ANCA: alignment-based network construction algorithm
K Chow, A Ay, R Elhesha, T Kahveci
Proceedings of the 2018 ACM International Conference on Bioinformatics …, 2018
172018
Pattern discovery in multilayer networks
Y Ren, A Sarkar, P Veltri, A Ay, A Dobra, T Kahveci
IEEE/ACM Transactions on Computational Biology and Bioinformatics 19 (2 …, 2021
162021
Boolean modeling of gene regulatory networks: Driesch redux
DN Arnosti, A Ay
Proceedings of the National Academy of Sciences 109 (45), 18239-18240, 2012
162012
Helicobacter pylori (H. pylori) risk factor analysis and prevalence prediction: a machine learning-based approach
V Tran, T Saad, M Tesfaye, S Walelign, M Wordofa, D Abera, K Desta, ...
BMC Infectious Diseases 22 (1), 655, 2022
152022
Machine learning-based risk factor analysis and prevalence prediction of intestinal parasitic infections using epidemiological survey data
A Zafar, Z Attia, M Tesfaye, S Walelign, M Wordofa, D Abera, K Desta, ...
PLOS Neglected Tropical Diseases 16 (6), e0010517, 2022
152022
Genome-wide errant targeting by Hairy
K Kok, A Ay, LM Li, DN Arnosti
Elife 4, e06394, 2015
142015
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Articles 1–20