U.S. Department of Health and Human Services

Laboratory of Biological Modeling

Arthur Sherman, Ph.D., Chief


A selection of recent and significant publications can be viewed below.

Striegel DA, Hara M, Periwal V. Adaptation of pancreatic islet cyto-architecture during development. Phys Biol. 2016 Apr 11; 13 (2; 13; 2016 Apr 11):025004. [Full Text/Abstract]
Striegel DA, Wojtowicz D, Przytycka TM, Periwal V. Correlated rigid modes in protein families. Phys Biol. 2016 Apr 11; 13 (2; 13; 2016 Apr 11):025003. [Full Text/Abstract]
McKenna JP, Ha J, Merrins MJ, Satin LS, Sherman A, Bertram R. Ca(2+) Effects on ATP Production and Consumption Have Regulatory Roles on Oscillatory Islet Activity. Biophys J. 2016 Feb 2; 110 (110; 3; 2016 Feb 2):733-42. [Full Text/Abstract]
Merrins MJ, Poudel C, McKenna JP, Ha J, Sherman A, Bertram R, Satin LS. Phase Analysis of Metabolic Oscillations and Membrane Potential in Pancreatic Islet β-Cells. Biophys J. 2016 Feb 2; 110 (110; 3; 2016 Feb 2):691-9. [Full Text/Abstract]
Watts M, Ha J, Kimchi O, Sherman A. Paracrine regulation of glucagon secretion: the β/α/δ model. Am J Physiol Endocrinol Metab. 2016 Feb 2; 310 (8; 310; 2016 Feb 2):E597-E611. [Full Text/Abstract]
Li Y, Periwal V, Cushman SW, Stenkula KG. Adipose cell hypertrophy precedes the appearance of small adipocytes by 3 days in C57BL/6 mouse upon changing to a high fat diet. Adipocyte. 2015 Dec 8; 5 (2015 Dec 8; 5; 1):81-7. [Full Text/Abstract]
Young LH, Periwal V. Metabolic scaling predicts posthepatectomy liver regeneration after accounting for hepatocyte hypertrophy. Liver Transpl. 2015 Dec 28; 22 (2015 Dec 28; 4; 22):476-484. [Full Text/Abstract]
Ha J, Satin LS, Sherman AS. A Mathematical Model of the Pathogenesis, Prevention, and Reversal of Type 2 Diabetes. Endocrinology. 2015 Dec 28; 157 (157; 2; 2015 Dec 28):624-635. [Full Text/Abstract]
Glynn E, Thompson B, Vadrevu S, Lu S, Kennedy RT, Ha J, Sherman A, Satin LS. Chronic Glucose Exposure Systematically Shifts the Oscillatory Threshold of Mouse Islets: Experimental Evidence for an Early Intrinsic Mechanism of Compensation for Hyperglycemia. Endocrinology. 2015 Dec 23; 157 (157; 2015 Dec 23; 2):611-623. [Full Text/Abstract]
Li Y, Gaillard JR, McLaughlin T, Sørensen TIa, Periwal V. Macro fat and micro fat: insulin sensitivity and gender dependent response of adipose tissue to isocaloric diet change. Adipocyte. 2015 Apr 21; 4 (4; 2015 Apr 21):256-63. [Full Text/Abstract]
Striegel DA, Hara M, Periwal V. The Beta Cell in Its Cluster: Stochastic Graphs of Beta Cell Connectivity in the Islets of Langerhans. PLoS Comput Biol. 2015 Aug; 11 (8; 11; 2015 Aug):e1004423. [Full Text/Abstract]
Peercy BE, Sherman AS, Bertram R. Modeling of glucose-induced cAMP oscillations in pancreatic β cells: cAMP rocks when metabolism rolls. Biophys J. 2015 Jul 21; 109 (109; 2015 Jul 21; 2):439-49. [Full Text/Abstract]
Vandevijvere S, Chow CC, Hall KD, Umali E, Swinburn BA. Increased food energy supply as a major driver of the obesity epidemic: a global analysis. Bull World Health Organ. 2015 Jul 1; 93 (2015 Jul 1; 93; 7):446-56. [Full Text/Abstract]
Shreif Z, Striegel DA, Periwal V. The jigsaw puzzle of sequence phenotype inference: Piecing together Shannon entropy, importance sampling, and Empirical Bayes. J Theor Biol. 2015 Jun 16; 380 (380; 2015 Jun 16):399-413. [Full Text/Abstract]
Chow CC, Finn KK, Storchan GB, Lu X, Sheng X, Simons SS Jr. Kinetically-defined component actions in gene repression. PLoS Comput Biol. 2015 Mar; 11 (3; 11; 2015 Mar):e1004122. [Full Text/Abstract]
Stavreva DA, Coulon A, Baek S, Sung MH, John S, Stixova L, Tesikova M, Hakim O, Miranda T, Hawkins M, Stamatoyannopoulos JA, Chow CC, Hager GL. Dynamics of chromatin accessibility and long-range interactions in response to glucocorticoid pulsing. Genome Res. 2015 Feb 12; 25 (25; 6; 2015 Feb 12):845-57. [Full Text/Abstract]
Satin LS, Butler PC, Ha J, Sherman AS. Pulsatile insulin secretion, impaired glucose tolerance and type 2 diabetes. Mol Aspects Med. 2015 Jan 28; 42 (42; 2015 Jan 28):61-77. [Full Text/Abstract]
Chang CC, Chow CC, Tellier LC, Vattikuti S, Purcell SM, Lee JJ. Second-generation PLINK: rising to the challenge of larger and richer datasets. Gigascience. 2015 Feb 25; 4 (2015 Feb 25; 4):7. [Full Text/Abstract]
Chow CC, Buice MA. Path integral methods for stochastic differential equations. J Math Neurosci. 2015 Mar 24; 5 (2015 Mar 24; 5):8. [Full Text/Abstract]
Chow CC, Ong KM, Kagan B, Simons SS Jr. Theory of partial agonist activity of steroid hormones. AIMS Mol Sci. 2015; 2 (2015; 2):101-123. [Full Text/Abstract]
Coulon A, Ferguson ML, de Turris V, Palangat M, Chow CC, Larson DR. Kinetic competition during the transcription cycle results in stochastic RNA processing. Elife. 2014 Oct 1; 3 (2014 Oct 1; 3). [Full Text/Abstract]
Göbel B, Sanghvi A, Hall KD. Quantifying energy intake changes during obesity pharmacotherapy. Obesity (Silver Spring). 2014 Jun 24; 22 (2014 Jun 24; 10; 22):2105-8. [Full Text/Abstract]
Brady I, Hall KD. Dispatch from the field: is mathematical modeling applicable to obesity treatment in the real world?. Obesity (Silver Spring). 2014 Jun 4; 22 (2014 Jun 4; 9; 22):1939-41. [Full Text/Abstract]
Müller MJ, Baracos V, Bosy-Westphal A, Dulloo AG, Eckel J, Fearon KC, Hall KD, Pietrobelli A, Sørensen TI, Speakman J, Trayhurn P, Visser M, Heymsfield SB. Functional body composition and related aspects in research on obesity and cachexia: report on the 12th Stock Conference held on 6 and 7 September 2013 in Hamburg, Germany. Obes Rev. 2014 Aug; 15 (8; 2014 Aug; 15):640-56. [Full Text/Abstract]
Lee JJ, Chow CC. Conditions for the validity of SNP-based heritability estimation. Hum Genet. 2014 Aug; 133 (133; 8; 2014 Aug):1011-22. [Full Text/Abstract]
Chow CC, Hall KD. Short and long-term energy intake patterns and their implications for human body weight regulation. Physiol Behav. 2014 Jul; 134 (134; 2014 Jul):60-5. [Full Text/Abstract]
Hall KD, Hammond RA, Rahmandad H. Dynamic Interplay Among Homeostatic, Hedonic, and Cognitive Feedback Circuits Regulating Body Weight. Am J Public Health. 2014 Jul; 104 (104; 7; 2014 Jul):1169-75. [Full Text/Abstract]
Blackford JA Jr, Brimacombe KR, Dougherty EJ, Pradhan M, Shen M, Li Z, Auld DS, Chow CC, Austin CP, Simons SS Jr. Research Resource: Modulators of glucocorticoid receptor activity identified by a new high-throughput screening assay. Mol Endocrinol. 2014 Jul; 28 (28; 7; 2014 Jul):me20141069. [Full Text/Abstract]
Kong AP, Yang X, Luk A, Cheung KK, Ma RC, So WY, Ho CS, Chan MH, Ozaki R, Chow CC, Brown N, Chan JC. Hypoglycaemia, chronic kidney disease and death in type 2 diabetes: the Hong Kong diabetes registry. BMC Endocr Disord. 2014 Jun 13; 14 (14; 2014 Jun 13):48. [Full Text/Abstract]
Chan JC, Sui Y, Oldenburg B, Zhang Y, Chung HH, Goggins W, Au S, Brown N, Ozaki R, Wong RY, Ko GT, Fisher E, JADE and PEARL Project Team. Effects of telephone-based peer support in patients with type 2 diabetes mellitus receiving integrated care: a randomized clinical trial. JAMA Intern Med. 2014 Jun; 174 (6; 174; 2014 Jun):972-81. [Full Text/Abstract]
Periwal V, Gaillard JR, Needleman L, Doria C. Mathematical model of liver regeneration in human live donors. J Cell Physiol. 2014 May; 229 (229; 2014 May; 5):599-606. [Full Text/Abstract]
Simmons WK, Rapuano KM, Ingeholm JE, Avery J, Kallman S, Hall KD, Martin A. The ventral pallidum and orbitofrontal cortex support food pleasantness inferences. Brain Struct Funct. 2014 Mar; 219 (2014 Mar; 219; 2):473-83. [Full Text/Abstract]
Shreif Z, Periwal V. A network characteristic that correlates environmental and genetic robustness. PLoS Comput Biol. 2014 Feb; 10 (2; 2014 Feb; 10):e1003474. [Full Text/Abstract]
Vattikuti S, Lee JJ, Chang CC, Hsu SD, Chow CC. Applying compressed sensing to genome-wide association studies. Gigascience. 2014 Jun 16; 3 (2014 Jun 16; 3):10. [Full Text/Abstract]
Hall KD, Chow CC. Why is the 3500 kcal per pound weight loss rule wrong?. Int J Obes (Lond). 2013 Dec; 37 (2013 Dec; 37; 12):1614. [Full Text/Abstract]
Simmons WK, Rapuano KM, Kallman SJ, Ingeholm JE, Miller B, Gotts SJ, Avery JA, Hall KD, Martin A. Category-specific integration of homeostatic signals in caudal but not rostral human insula. Nat Neurosci. 2013 Nov; 16 (16; 2013 Nov; 11):1551-2. [Full Text/Abstract]
Hall KD, Butte NF, Swinburn BA, Chow CC. Dynamics of childhood growth and obesity: development and validation of a quantitative mathematical model. Lancet Diabetes Endocrinol. 2013 Oct; 1 (2013 Oct; 2; 1):97-105. [Full Text/Abstract]
Lee JJ, Chow CC. The causal meaning of Fisher's average effect. Genet Res (Camb). 2013 Jun; 95 (95; 2-3; 2013 Jun):89-109. [Full Text/Abstract]
Jo J, Hörnblad A, Kilimnik G, Hara M, Ahlgren U, Periwal V. The fractal spatial distribution of pancreatic islets in three dimensions: a self-avoiding growth model. Phys Biol. 2013 Jun; 10 (10; 3; 2013 Jun):036009. [Full Text/Abstract]
Hall KD. Diet versus exercise in "the biggest loser" weight loss competition. Obesity (Silver Spring). 2013 May; 21 (2013 May; 21; 5):957-9. [Full Text/Abstract]
Adler-Wailes DC, Periwal V, Ali AH, Brady SM, McDuffie JR, Uwaifo GI, Tanofsky-Kraff M, Salaita CG, Hubbard VS, Reynolds JC, Chow CC, Sumner AE, Yanovski JA. Sex-associated differences in free fatty acid flux of obese adolescents. J Clin Endocrinol Metab. 2013 Apr; 98 (98; 4; 2013 Apr):1676-84. [Full Text/Abstract]
Li Y, Periwal V. Synergy in free radical generation is blunted by high-fat diet induced alterations in skeletal muscle mitochondrial metabolism. Biophys J. 2013 Mar 5; 104 (104; 5; 2013 Mar 5):1127-41. [Full Text/Abstract]
Buice MA, Chow CC. Beyond mean field theory: statistical field theory for neural networks. J Stat Mech. 2013 Mar; 2013 (2013 Mar; 2013):P03003. [Full Text/Abstract]
Buice MA, Chow CC. Dynamic finite size effects in spiking neural networks. PLoS Comput Biol. 2013; 9 (9; 1; 2013):e1002872. [Full Text/Abstract]
Buice MA, Chow CC. Generalized activity equations for spiking neural network dynamics. Front Comput Neurosci. 2013 Nov 15; 7 (2013 Nov 15; 7):162. [Full Text/Abstract]
Hall KD. Metabolism of mice and men: mathematical modeling of body weight dynamics. Curr Opin Clin Nutr Metab Care. 2012 Sep; 15 (2012 Sep; 15; 5):418-23. [Full Text/Abstract]
Hall KD. Modeling metabolic adaptations and energy regulation in humans. Annu Rev Nutr. 2012 Aug 21; 32 (32; 2012 Aug 21):35-54. [Full Text/Abstract]
Osinga HM, Sherman A, Tsaneva-Atanasova K. CROSS-CURRENTS BETWEEN BIOLOGY AND MATHEMATICS: THE CODIMENSION OF PSEUDO-PLATEAU BURSTING. Discrete Contin Dyn Syst Ser A. 2012 Aug; 32 (2012 Aug; 32; 8):2853-2877. [Full Text/Abstract]
Johannsen DL, Knuth ND, Huizenga R, Rood JC, Ravussin E, Hall KD. Metabolic slowing with massive weight loss despite preservation of fat-free mass. J Clin Endocrinol Metab. 2012 Jul; 97 (7; 97; 2012 Jul):2489-96. [Full Text/Abstract]
Khadra A, Yan Z, Coddou C, Tomić M, Sherman A, Stojilkovic SS. Gating properties of the P2X2a and P2X2b receptor channels: experiments and mathematical modeling. J Gen Physiol. 2012 May; 139 (2012 May; 139; 5):333-48. [Full Text/Abstract]