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Items: 1 to 50 of 60

1.

Ligand-Free Estrogen Receptor Alpha (ESR1) as Master Regulator for the Expression of CYP3A4 and other Cytochrome P450s (CYPs) in Human Liver.

Wang D, Lu R, Rempala G, Sadee W.

Mol Pharmacol. 2019 Aug 9. pii: mol.119.116897. doi: 10.1124/mol.119.116897. [Epub ahead of print]

2.

Quasi-Steady-State Approximations Derived from the Stochastic Model of Enzyme Kinetics.

Kang HW, KhudaBukhsh WR, Koeppl H, Rempała GA.

Bull Math Biol. 2019 May;81(5):1303-1336. doi: 10.1007/s11538-019-00574-4. Epub 2019 Feb 12.

PMID:
30756234
3.

Modeling household transmission dynamics: Application to waterborne diarrheal disease in Central Africa.

Woroszyło C, Choi B, Healy Profitós J, Lee J, Garabed R, Rempala GA.

PLoS One. 2018 Nov 7;13(11):e0206418. doi: 10.1371/journal.pone.0206418. eCollection 2018.

4.

Estimation of Sobol's Sensitivity Indices under Generalized Linear Models.

Lu R, Wang D, Wang M, Rempala GA.

Commun Stat Theory Methods. 2018;47(21):5163-5195. doi: 10.1080/03610926.2017.1388397. Epub 2017 Nov 20.

5.

The large graph limit of a stochastic epidemic model on a dynamic multilayer network.

Jacobsen KA, Burch MG, Tien JH, Rempała GA.

J Biol Dyn. 2018 Dec;12(1):746-788. doi: 10.1080/17513758.2018.1515993.

PMID:
30175687
6.

TGF-β-mediated enhancement of TH17 cell generation is inhibited by bone morphogenetic protein receptor 1α signaling.

Browning LM, Pietrzak M, Kuczma M, Simms CP, Kurczewska A, Refugia JM, Lowery DJ, Rempala G, Gutkin D, Ignatowicz L, Muranski P, Kraj P.

Sci Signal. 2018 Aug 28;11(545). pii: eaar2125. doi: 10.1126/scisignal.aar2125.

PMID:
30154100
7.

Non-canonicaly recruited TCRαβCD8αα IELs recognize microbial antigens.

Wojciech L, Szurek E, Kuczma M, Cebula A, Elhefnawy WR, Pietrzak M, Rempala G, Ignatowicz L.

Sci Rep. 2018 Jul 18;8(1):10848. doi: 10.1038/s41598-018-29073-7.

8.

The sum of standardized residuals: Goodness-of-fit test for binary response models.

Chen L, Sui Y, Song C, Rempala GA.

Stat Med. 2018 May 20;37(11):1932-1941. doi: 10.1002/sim.7644. Epub 2018 Mar 26.

PMID:
29579778
9.

Beyond the Michaelis-Menten equation: Accurate and efficient estimation of enzyme kinetic parameters.

Choi B, Rempala GA, Kim JK.

Sci Rep. 2017 Dec 5;7(1):17018. doi: 10.1038/s41598-017-17072-z.

10.

Anti-GITR Antibody Treatment Increases TCR Repertoire Diversity of Regulatory but not Effector T Cells Engaged in the Immune Response Against B16 Melanoma.

Scirka B, Szurek E, Pietrzak M, Rempala G, Kisielow P, Ignatowicz L, Miazek A.

Arch Immunol Ther Exp (Warsz). 2017 Dec;65(6):553-564. doi: 10.1007/s00005-017-0479-1. Epub 2017 Jun 21.

11.

A nested case-control study of 277 prediagnostic serum cytokines and glioma.

Schwartzbaum J, Wang M, Root E, Pietrzak M, Rempala GA, Huang RP, Johannesen TB, Grimsrud TK.

PLoS One. 2017 Jun 8;12(6):e0178705. doi: 10.1371/journal.pone.0178705. eCollection 2017.

12.

Associations between prediagnostic blood glucose levels, diabetes, and glioma.

Schwartzbaum J, Edlinger M, Zigmont V, Stattin P, Rempala GA, Nagel G, Hammar N, Ulmer H, Föger B, Walldius G, Manjer J, Malmström H, Feychting M.

Sci Rep. 2017 May 3;7(1):1436. doi: 10.1038/s41598-017-01553-2.

13.

Double asymptotics for the chi-square statistic.

Rempała GA, Wesołowski J.

Stat Probab Lett. 2016 Dec;119:317-325. doi: 10.1016/j.spl.2016.09.004. Epub 2016 Sep 10.

14.

Erratum to: Non-linear interactions between candidate genes of myocardial infarction revealed in mRNA expression profiles.

Hartmann K, Seweryn M, Handelman SK, Rempała GA, Sadee W.

BMC Genomics. 2016 Dec 2;17(1):988. No abstract available.

15.

Network-based analysis of a small Ebola outbreak.

Burch MG, Jacobsen KA, Tien JH, Rempala GA.

Math Biosci Eng. 2017 Feb 1;14(1):67-77. doi: 10.3934/mbe.2017005.

16.

Gene expression profiling of brain samples from patients with Lewy body dementia.

Pietrzak M, Papp A, Curtis A, Handelman SK, Kataki M, Scharre DW, Rempala G, Sadee W.

Biochem Biophys Res Commun. 2016 Oct 28;479(4):875-880. doi: 10.1016/j.bbrc.2016.09.114. Epub 2016 Sep 22.

17.

Non-linear interactions between candidate genes of myocardial infarction revealed in mRNA expression profiles.

Hartmann K, Seweryn M, Handelman SK, Rempała GA, Sadee W.

BMC Genomics. 2016 Sep 17;17(1):738. doi: 10.1186/s12864-016-3075-6. Erratum in: BMC Genomics. 2016 Dec 2;17 (1):988.

18.

Non-random distribution of methyl-CpG sites and non-CpG methylation in the human rDNA promoter identified by next generation bisulfite sequencing.

Pietrzak M, Rempala GA, Nelson PT, Hetman M.

Gene. 2016 Jul 1;585(1):35-43. doi: 10.1016/j.gene.2016.03.028. Epub 2016 Mar 20.

19.

Mathematical analysis of a model for glucose regulation.

Fessel K, Gaither JB, Bower JK, Gaillard T, Osei K, Rempala GA.

Math Biosci Eng. 2016 Feb;13(1):83-99. doi: 10.3934/mbe.2016.13.83.

20.

RNA sequencing of transcriptomes in human brain regions: protein-coding and non-coding RNAs, isoforms and alleles.

Webb A, Papp AC, Curtis A, Newman LC, Pietrzak M, Seweryn M, Handelman SK, Rempala GA, Wang D, Graziosa E, Tyndale RF, Lerman C, Kelsoe JR, Mash DC, Sadee W.

BMC Genomics. 2015 Nov 23;16:990. doi: 10.1186/s12864-015-2207-8.

21.

Differences in Expression Level of Helios and Neuropilin-1 Do Not Distinguish Thymus-Derived from Extrathymically-Induced CD4+Foxp3+ Regulatory T Cells.

Szurek E, Cebula A, Wojciech L, Pietrzak M, Rempala G, Kisielow P, Ignatowicz L.

PLoS One. 2015 Oct 23;10(10):e0141161. doi: 10.1371/journal.pone.0141161. eCollection 2015.

22.

Association between Prediagnostic Allergy-Related Serum Cytokines and Glioma.

Schwartzbaum J, Seweryn M, Holloman C, Harris R, Handelman SK, Rempala GA, Huang RP, Burkholder B, Brandemihl A, Kallberg H, Johannesen TB, Ahlbom A, Feychting M, Grimsrud TK.

PLoS One. 2015 Sep 9;10(9):e0137503. doi: 10.1371/journal.pone.0137503. eCollection 2015.

23.

Allele-Selective Transcriptome Recruitment to Polysomes Primed for Translation: Protein-Coding and Noncoding RNAs, and RNA Isoforms.

Mascarenhas R, Pietrzak M, Smith RM, Webb A, Wang D, Papp AC, Pinsonneault JK, Seweryn M, Rempala G, Sadee W.

PLoS One. 2015 Sep 2;10(9):e0136798. doi: 10.1371/journal.pone.0136798. eCollection 2015.

24.

Association Between Prediagnostic Serum 25-Hydroxyvitamin D Concentration and Glioma.

Zigmont V, Garrett A, Peng J, Seweryn M, Rempala GA, Harris R, Holloman C, Gundersen TE, Ahlbom A, Feychting M, Johannesen TB, Grimsrud TK, Schwartzbaum J.

Nutr Cancer. 2015;67(7):1120-30. doi: 10.1080/01635581.2015.1073757. Epub 2015 Aug 28.

25.

Analyzing allele specific RNA expression using mixture models.

Lu R, Smith RM, Seweryn M, Wang D, Hartmann K, Webb A, Sadee W, Rempala GA.

BMC Genomics. 2015 Aug 1;16:566. doi: 10.1186/s12864-015-1749-0.

26.

A mathematical model of pre-diagnostic glioma growth.

Sturrock M, Hao W, Schwartzbaum J, Rempala GA.

J Theor Biol. 2015 Sep 7;380:299-308. doi: 10.1016/j.jtbi.2015.06.003. Epub 2015 Jun 11.

27.

Bootstrapping least-squares estimates in biochemical reaction networks.

Linder DF, Rempała GA.

J Biol Dyn. 2015;9:125-46. doi: 10.1080/17513758.2015.1033022.

28.

Estimating epidemic parameters: Application to H1N1 pandemic data.

Schwartz EJ, Choi B, Rempala GA.

Math Biosci. 2015 Dec;270(Pt B):198-203. doi: 10.1016/j.mbs.2015.03.007. Epub 2015 Apr 2.

PMID:
25843353
29.

Algebraic Statistical Model for Biochemical Network Dynamics Inference.

Linder DF, Rempala GA.

J Coupled Syst Multiscale Dyn. 2013 Dec;1(4):468-475.

30.

The same self-peptide selects conventional and regulatory CD4⁺ T cells with identical antigen receptors.

Wojciech L, Ignatowicz A, Seweryn M, Rempala G, Pabla SS, McIndoe RA, Kisielow P, Ignatowicz L.

Nat Commun. 2014 Oct 1;5:5061. doi: 10.1038/ncomms6061.

31.

Missing heritability of common diseases and treatments outside the protein-coding exome.

Sadee W, Hartmann K, Seweryn M, Pietrzak M, Handelman SK, Rempala GA.

Hum Genet. 2014 Oct;133(10):1199-215. doi: 10.1007/s00439-014-1476-7. Epub 2014 Aug 9. Review. Erratum in: Hum Genet. 2015 May;134(5):509.

32.

Asymptotic Normality Through Factorial Cumulants and Partition Identities.

Bobecka K, Hitczenko P, López-Blázquez F, Rempała G, Wesołowski J.

Comb Probab Comput. 2013 Mar;22(2):213-240.

33.

Neurodegeneration-associated instability of ribosomal DNA.

Hallgren J, Pietrzak M, Rempala G, Nelson PT, Hetman M.

Biochim Biophys Acta. 2014 Jun;1842(6):860-8. doi: 10.1016/j.bbadis.2013.12.012. Epub 2014 Jan 2.

34.

On Permutation Procedures for Strong Control in Multiple Testing with Gene Expression Data.

Rempala GA, Yang Y.

Stat Interface. 2013;6(1). doi: 10.4310/SII.2013.v6.n1.a8.

35.

A Comparison of Methods for RNA-Seq Differential Expression Analysis and a New Empirical Bayes Approach.

Wesolowski S, Birtwistle MR, Rempala GA.

Biosensors (Basel). 2013 Jun 28;3(3):238-58. doi: 10.3390/bios3030238. eCollection 2013 Sep.

36.

Model discrimination in dynamic molecular systems: application to parotid de-differentiation network.

Kim J, Li J, Venkatesh SG, Darling DS, Rempala GA.

J Comput Biol. 2013 Jul;20(7):524-39. doi: 10.1089/cmb.2011.0222.

37.

Thymus-derived regulatory T cells contribute to tolerance to commensal microbiota.

Cebula A, Seweryn M, Rempala GA, Pabla SS, McIndoe RA, Denning TL, Bry L, Kraj P, Kisielow P, Ignatowicz L.

Nature. 2013 May 9;497(7448):258-62. doi: 10.1038/nature12079. Epub 2013 Apr 28.

38.

Bayesian multivariate Poisson abundance models for T-cell receptor data.

Greene J, Birtwistle MR, Ignatowicz L, Rempala GA.

J Theor Biol. 2013 Jun 7;326:1-10. doi: 10.1016/j.jtbi.2013.02.009. Epub 2013 Mar 1.

39.

Statistical Model for Biochemical Network Inference.

Craciun G, Kim J, Pantea C, Rempala GA.

Commun Stat Simul Comput. 2013 Jan;42(1):121-137. Epub 2012 Sep 26.

40.

Methods for diversity and overlap analysis in T-cell receptor populations.

Rempala GA, Seweryn M.

J Math Biol. 2013 Dec;67(6-7):1339-68. doi: 10.1007/s00285-012-0589-7. Epub 2012 Sep 25.

41.

Least squares estimation in stochastic biochemical networks.

Rempala GA.

Bull Math Biol. 2012 Aug;74(8):1938-55. doi: 10.1007/s11538-012-9744-y. Epub 2012 Jun 30.

PMID:
22752340
42.

Inference for discretely observed stochastic kinetic networks with applications to epidemic modeling.

Choi B, Rempala GA.

Biostatistics. 2012 Jan;13(1):153-65. doi: 10.1093/biostatistics/kxr019. Epub 2011 Aug 10.

43.

Gene Selection with Sequential Classification and Regression Tree Algorithm.

Bastian CD, Rempala GA.

Biostat Bioinforma Biomath. 2011 Aug 1;2(4):157-186.

44.

Epigenetic silencing of nucleolar rRNA genes in Alzheimer's disease.

Pietrzak M, Rempala G, Nelson PT, Zheng JJ, Hetman M.

PLoS One. 2011;6(7):e22585. doi: 10.1371/journal.pone.0022585. Epub 2011 Jul 22.

45.

Intratumoral convergence of the TCR repertoires of effector and Foxp3+ CD4+ T cells.

Kuczma M, Kopij M, Pawlikowska I, Wang CY, Rempala GA, Kraj P.

PLoS One. 2010 Oct 26;5(10):e13623. doi: 10.1371/journal.pone.0013623.

46.

Model for comparative analysis of antigen receptor repertoires.

Rempala GA, Seweryn M, Ignatowicz L.

J Theor Biol. 2011 Jan 21;269(1):1-15. doi: 10.1016/j.jtbi.2010.10.001. Epub 2010 Oct 16.

47.

Knockdown of zebrafish Lgi1a results in abnormal development, brain defects and a seizure-like behavioral phenotype.

Teng Y, Xie X, Walker S, Rempala G, Kozlowski DJ, Mumm JS, Cowell JK.

Hum Mol Genet. 2010 Nov 15;19(22):4409-20. doi: 10.1093/hmg/ddq364. Epub 2010 Sep 6.

48.

Neurotoxic mechanisms of DNA damage: focus on transcriptional inhibition.

Hetman M, Vashishta A, Rempala G.

J Neurochem. 2010 Sep;114(6):1537-49. doi: 10.1111/j.1471-4159.2010.06859.x. Epub 2010 Aug 19. Review.

49.

Confidence Estimation via the Parametric Bootstrap in Logistic Joinpoint Regression.

Gill R, Rempala GA, Czajkowski M.

J Stat Plan Inference. 2009 Sep 1;139(9):3132-3141.

50.

Algebraic methods for inferring biochemical networks: a maximum likelihood approach.

Craciun G, Pantea C, Rempala GA.

Comput Biol Chem. 2009 Oct;33(5):361-7. doi: 10.1016/j.compbiolchem.2009.07.014. Epub 2009 Aug 6.

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