HR job title
- Clinical Professor
- Contact Info
- 1 979 862 3192
Ivanov, Ivan Clinical Professor
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Overview
Publications
selected publications
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academic article
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Roitershtein, A., Rastegar, R., Chapkin, R. S., & Ivanov, I.
(2023).
Extinction scenarios in evolutionary processes: a multinomial Wright-Fisher approach. Journal of Mathematical Biology.
87(4), 63.
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McLeod, A., Wolf, P., Chapkin, R. S., Davidson, L. A., Ivanov, I., Berbaum, M., ... Tussing-Humphreys, L.
(2023).
Design of the Building Research in CRC prevention (BRIDGE-CRC) trial: a 6-month, parallel group Mediterranean diet and weight loss randomized controlled lifestyle intervention targeting the bile acid-gut microbiome axis to reduce colorectal cancer risk among African American/Black adults with obesity. 24(1), 113.
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Safe, S., Han, H., Jayaraman, A., Davidson, L. A., Allred, C. D., Ivanov, I., ... Chapkin, R. S.
(2023).
Aryl Hydrocarbon Receptor (AhR) Signaling in Colonic Cells and Tumors. 2(1), 93-99.
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Mullens, D. A., Ivanov, I., Hullar, M., Randolph, T. W., Lampe, J. W., & Chapkin, R. S.
(2022).
Personalized Nutrition Using Microbial Metabolite Phenotype to Stratify Participants and Non-Invasive Host Exfoliomics Reveal the Effects of Flaxseed Lignan Supplementation in a Placebo-Controlled Crossover Trial. Nutrients.
14(12), 2377-2377.
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Fang, X., Ni, N., Wang, X., Tian, Y., Ivanov, I., Rijnkels, M., ... Li, Q.
(2022).
EZH2 and Endometrial Cancer Development: Insights from a Mouse Model. 11(5), 909-909.
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Shakola, F., Palejev, D., & Ivanov, I.
(2022).
A Framework for Comparison and Assessment of Synthetic RNA-Seq Data. Genes.
13(12), 2362-2362.
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Ni, N., Fang, X., Mullens, D. A., Cai, J. J., Ivanov, I., Bartholin, L., & Li, Q.
(2022).
Transcriptomic Profiling of Gene Expression Associated with Granulosa Cell Tumor Development in a Mouse Model. Cancers.
14(9), 2184-2184.
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Kim, E., Ivanov, I., & Dougherty, E. R.
(2022).
Network Classification Based on Reducibility With Respect to the Stability of Canalizing Power of Genes in a Gene Regulatory Network - A Boolean Network Modeling Perspective. IEEE/ACM Transactions on Computational Biology and Bioinformatics.
19(1), 558-568.
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Yang, Y., Osorio, D., Davidson, L. A., Han, H., Mullens, D. A., Jayaraman, A., ... Chapkin, R. S.
(2022).
Single-cell RNA Sequencing Reveals How the Aryl Hydrocarbon Receptor Shapes Cellular Differentiation Potency in the Mouse Colon. Cancer Prevention Research.
15(1), 17-28.
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Yoon, G., Davidson, L. A., Goldsby, J. S., Mullens, D. A., Ivanov, I., Donovan, S. M., & Chapkin, R. S.
(2021).
Exfoliated epithelial cell transcriptome reflects both small and large intestinal cell signatures in piglets. American Journal of Physiology: Gastrointestinal and Liver Physiology.
321(1), G41-G51.
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Han, H., Davidson, L. A., Hensel, M., Yoon, G., Landrock, K., Allred, C., ... Chapkin, R. S.
(2021).
Loss of Aryl Hydrocarbon Receptor Promotes Colon Tumorigenesis in ApcS580/+; KrasG12D/+ Mice. Molecular Cancer Research.
19(5), 771-783.
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Hala, D., Faulkner, P., He, K., Kamalanathan, M., Brink, M., Simons, K., ... Qian, X.
(2021).
An integrated in vivo and in silico analysis of the metabolism disrupting effects of CPI-613 on embryo-larval zebrafish (Danio rerio). Comparative Biochemistry and Physiology C: Toxicology and Pharmacology.
248, 109084-109084.
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Morris, E., Boyle, A. G., Riihimki, M., Aspn, A., Anis, E., Hillhouse, A. E., ... Cohen, N. D.
(2021).
Differences in the genome, methylome, and transcriptome do not differentiate isolates of Streptococcus equi subsp. equi from horses with acute clinical signs from isolates of inapparent carriers. PLoS One.
16(6), e0252804-e0252804.
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He, K., Donovan, S. M., Ivanov, I. V., Goldsby, J. S., Davidson, L. A., & Chapkin, R. S.
(2020).
Assessing the Multivariate Relationship between the Human Infant Intestinal Exfoliated Cell Transcriptome (Exfoliome) and Microbiome in Response to Diet. Microorganisms.
8(12), 2032-2032.
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Han, H., Davidson, L. A., Fan, Y., Goldsby, J. S., Yoon, G., Jin, U., ... Chapkin, R. S.
(2020).
Loss of aryl hydrocarbon receptor potentiates FoxM1 signaling to enhance self-renewal of colonic stem and progenitor cells. The EMBO Journal.
39(19), e104319.
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Padgett, A. L., Lepiz, M. L., Mackay, E. E., Driskill, A. J., Ivanov, I. V., Fajt, V. R., ... Washburn, S. E.
(2020).
Comparison of analgesic efficacy and fetal effects between transdermal administration of fentanyl and intramuscular administration of buprenorphine in pregnant sheep. American Journal of Veterinary Research.
81(7), 581-593.
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Arbizu, S., Noratto, G., Layosa, M., Lage, N. N., Atienza, L., Ivanov, I., Talcott, S., & Chew, B. P.
(2020).
Chemopreventive Potential of DSC Anthocyanins and Total Phenolics Extracted from Dark Sweet Cherry (DSC) Through Modulation of MDA-MB-453 Breast Tumor Proteomic Profile. Current Developments in Nutrition.
4(Suppl 2), nzaa044_004-nzaa044_004.
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Garcia-Villatoro, E. L., DeLuca, J., Callaway, E. S., Allred, K. F., Davidson, L. A., Hensel, M. E., ... Allred, C. D.
(2020).
Effects of high-fat diet and intestinal aryl hydrocarbon receptor deletion on colon carcinogenesis. American Journal of Physiology: Gastrointestinal and Liver Physiology.
318(3), G451-G463.
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Noratto, G., Layosa, M. A., Lage, N. N., Atienza, L., Ivanov, I., Mertens-Talcott, S. U., & Chew, B. P.
(2020).
Antitumor potential of dark sweet cherry sweet (Prunus avium) phenolics in suppressing xenograft tumor growth of MDA-MB-453 breast cancer cells. JOURNAL OF NUTRITIONAL BIOCHEMISTRY.
84, 108437-108437.
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Fang, X., Ni, N., Gao, Y., Lydon, J. P., Ivanov, I., Rijnkels, M., Bayless, K. J., & Li, Q.
(2020).
Transforming growth factor beta signaling and decidual integrity in mice. Biology of Reproduction.
103(6), 1186-1198.
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Coleman, M. C., Whitfield-Cargile, C., Cohen, N. D., Goldsby, J. L., Davidson, L., Chamoun-Emanuelli, A. M., ... Chapkin, R. S.
(2020).
Non-invasive evaluation of the equine gastrointestinal mucosal transcriptome. PLoS One.
15(3), e0229797-e0229797.
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Kim, E., Wright, G. A., Zoh, R. S., Patil, B. S., Jayaprakasha, G. K., Callaway, E. S., ... Chapkin, R. S.
(2019).
Establishment of a multicomponent dietary bioactive human equivalent dose to delete damaged Lgr5+ stem cells using a mouse colon tumor initiation model. European Journal of Cancer Prevention.
28(5), 383-389.
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Lampe, J. W., Kim, E., Levy, L., Davidson, L. A., Goldsby, J. S., Miles, F. L., ... Chapkin, R. S.
(2019).
Colonic mucosal and exfoliome transcriptomic profiling and fecal microbiome response to a flaxseed lignan extract intervention in humans. 110(2), 377-390.
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Hulshof, C., Colosio, C., Daams, J. G., Ivanov, I. D., Prakash, K. C., Kuijer, P., ... Frings-Dresen, M.
(2019).
WHO/ILO work-related burden of disease and injury: Protocol for systematic reviews of exposure to occupational ergonomic risk factors and of the effect of exposure to occupational ergonomic risk factors on osteoarthritis of hip or knee and selected other musculoskeletal diseases. Environment International.
125, 554-566.
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Fang, X., Ni, N., Lydon, J. P., Ivanov, I., Bayless, K. J., Rijnkels, M., & Li, Q.
(2019).
Enhancer of Zeste 2 Polycomb Repressive Complex 2 Subunit Is Required for Uterine Epithelial Integrity. American Journal of Pathology.
189(6), 1212-1225.
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Kim, E., Ivanov, I., & Dougherty, E. R.
(2019).
Quantifying the notions of canalizing and master genes in a gene regulatory network-a Boolean network modeling perspective. Bioinformatics.
35(4), 643-649.
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Tenkate, T., Adam, B., Al-Rifai, R. H., Chou, B. R., Gobba, F., Ivanov, I. D., ... Modenese, A.
(2019).
WHO/ILO work-related burden of disease and injury: Protocol for systematic reviews of occupational exposure to solar ultraviolet radiation and of the effect of occupational exposure to solar ultraviolet radiation on cataract. Environment International.
125, 542-553.
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Paulo, M. S., Adam, B., Akagwu, C., Akparibo, I., Al-Rifai, R. H., Bazrafshan, S., ... John, S. M.
(2019).
WHO/ILO work-related burden of disease and injury: Protocol for systematic reviews of occupational exposure to solar ultraviolet radiation and of the effect of occupational exposure to solar ultraviolet radiation on melanoma and non-melanoma skin cancer. Environment International.
126, 804-815.
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Triff, K., McLean, M. W., Callaway, E., Goldsby, J., Ivanov, I., & Chapkin, R. S.
(2018).
Dietary fat and fiber interact to uniquely modify global histone post-translational epigenetic programming in a rat colon cancer progression model. International Journal of Cancer.
143(6), 1402-1415.
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Knight, J. M., Ivanov, I., Triff, K., Chapkin, R. S., & Dougherty, E. R.
(2018).
Detecting Multivariate Gene Interactions in RNA-Seq Data Using Optimal Bayesian Classification. IEEE/ACM Transactions on Computational Biology and Bioinformatics.
15(2), 484-493.
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Hala, D., Cullen, J. A., Hernout, B., & Ivanov, I.
(2018).
In silico predicted transcriptional regulatory control of steroidogenesis in spawning female fathead minnows (Pimephales promelas). Journal of Theoretical Biology.
455, 179-190.
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Mandrioli, D., Schlnssen, V., dm, B., Cohen, R. A., Colosio, C., Chen, W., ... Scheepers, P.
(2018).
WHO/ILO work-related burden of disease and injury: Protocol for systematic reviews of occupational exposure to dusts and/or fibres and of the effect of occupational exposure to dusts and/or fibres on pneumoconiosis. Environment International.
119, 174-185.
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Whitfield-Cargile, C. M., Cohen, N. D., He, K., Ivanov, I., Goldsby, J. S., Chamoun-Emanuelli, A., ... Chapkin, R. S.
(2017).
The non-invasive exfoliated transcriptome (exfoliome) reflects the tissue-level transcriptome in a mouse model of NSAID enteropathy. Scientific Reports.
7(1), 14687.
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Mason, A., Engelen, M., Ivanov, I., Toffolo, G. M., & Deutz, N.
(2017).
A four-compartment compartmental model to assess net whole body protein breakdown using a pulse of phenylalanine and tyrosine stable isotopes in humans. American Journal of Physiology: Endocrinology and Metabolism.
313(1), E63-E74.
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Triff, K., McLean, M. W., Konganti, K., Pang, J., Callaway, E., Zhou, B., Ivanov, I., & Chapkin, R. S.
(2017).
Assessment of histone tail modifications and transcriptional profiling during colon cancer progression reveals a global decrease in H3K4me3 activity. BBA: Molecular Basis of Disease.
1863(6), 1392-1402.
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Kim, E., Ivanov, I., Hua, J., Lampe, J. W., Hullar, M. A., Chapkin, R. S., & Dougherty, E. R.
(2017).
The Model-Based Study of the Effectiveness of Reporting Lists of Small Feature Sets Using RNA-Seq Data. Cancer Informatics.
16, 1176935117710530-15.
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Zoh, R. S., Mallick, B., Ivanov, I., Baladandayuthapani, V., Manyam, G., Chapkin, R. S., Lampe, J. W., & Carroll, R. J.
(2016).
PCAN: Probabilistic correlation analysis of two non-normal data sets. Biometrics.
72(4), 1358-1368.
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Noratto, G., Chew, B. P., & Ivanov, I.
(2016).
Red raspberry decreases heart biomarkers of cardiac remodeling associated with oxidative and inflammatory stress in obese diabetic db/db mice. Food and Function.
7(12), 4944-4955.
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Donovan, S. M., Wang, M., Davidson, L. A., Ivanov, I., & Chapkin, R. S.
(2016).
0447 Microbial modulation of the neonatal immune system: Lessons from infants and piglets. Journal of Animal Science.
94(suppl_5), 214-214.
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Kim, H., Banerjee, N., Ivanov, I., Pfent, C. M., Prudhomme, K. R., Bisson, W. H., ... Mertens-Talcott, S. U.
(2016).
Comparison of anti-inflammatory mechanisms of mango (Mangifera Indica L.) and pomegranate (Punica Granatum L.) in a preclinical model of colitis. Molecular Nutrition and Food Research.
60(9), 1912-1923.
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Knight, J. M., Kim, E., Ivanov, I., Davidson, L. A., Goldsby, J. S., Hullar, M., ... Chapkin, R. S.
(2016).
Comprehensive site-specific whole genome profiling of stromal and epithelial colonic gene signatures in human sigmoid colon and rectal tissue. Physiological Genomics.
48(9), 651-659.
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Shah, M. S., Kim, E., Davidson, L. A., Knight, J. M., Zoh, R. S., Goldsby, J. S., ... Chapkin, R. S.
(2016).
Data describing the effects of dietary bioactive agents on colonic stem cell microRNA and mRNA expression. Data in Brief.
6, 398-404.
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Kim, H., Banerjee, N., Ivanov, I., Pfent, C. M., Prudhomme, K. R., Bisson, W. H., ... MertensTalcott, S. U.
(2016).
Inside front cover: Comparison of antiinflammatory mechanisms of mango (Mangifera Indica L.) and pomegranate (Punica Granatum L.) in a preclinical model of colitis. Molecular Nutrition and Food Research.
60(9), na-na.
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Shah, M. S., Kim, E., Davidson, L. A., Knight, J. M., Zoh, R. S., Goldsby, J. S., ... Chapkin, R. S.
(2016).
Comparative effects of diet and carcinogen on microRNA expression in the stem cell niche of the mouse colonic crypt. Biochimica et Biophysica Acta: international journal of biochemistry and biophysics.
1862(1), 121-134.
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Garcia-Mazcorro, J. F., Ivanov, I., Mills, D. A., & Noratto, G.
(2016).
Influence of whole-wheat consumption on fecal microbial community structure of obese diabetic mice. PeerJ.
4(2), e1702-e1702.
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Wang, M., Li, M., Wu, S., Lebrilla, C. B., Chapkin, R. S., Ivanov, I., & Donovan, S. M.
(2015).
Fecal microbiota composition of breast-fed infants is correlated with human milk oligosaccharides consumed. JOURNAL OF PEDIATRIC GASTROENTEROLOGY AND NUTRITION.
60(6), 825-833.
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Triff, K., Knight, J., Ivanov, I., Zhou, B., & Chapkin, R.
(2015).
Epigenetic Mechanisms by Which Chemoprotective Natural Compounds Promote RXR/FXR Signaling and Reduce Colon Cancer Progression. The FASEB Journal.
29(S1),
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Noratto, G., Garcia-Perez, E., Ivanov, I., & Mills, D.
(2015).
Whole-Wheat Supplemented Diet Changed Fecal Microbial Ecology of Obese Diabetic Mice. The FASEB Journal.
29(S1),
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Knight, J. M., Ivanov, I., & Dougherty, E. R.
(2014).
MCMC implementation of the optimal Bayesian classifier for non-Gaussian models: model-based RNA-Seq classification. BMC Bioinformatics.
15(1), 401.
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Donovan, S. M., Wang, M., Monaco, M. H., Martin, C. R., Davidson, L. A., Ivanov, I., & Chapkin, R. S.
(2014).
Noninvasive molecular fingerprinting of host-microbiome interactions in neonates. FEBS Letters.
588(22), 4112-4119.
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McQueen, C. M., Doan, R., Dindot, S. V., Bourquin, J. R., Zlatev, Z. Z., Chaffin, M. K., ... Cohen, N. D.
(2014).
Identification of genomic loci associated with Rhodococcus equi susceptibility in foals. PLoS One.
9(6), e98710-e98710.
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Knight, J. M., Davidson, L. A., Herman, D., Martin, C. R., Goldsby, J. S., Ivanov, I. V., Donovan, S. M., & Chapkin, R. S.
(2014).
Non-invasive analysis of intestinal development in preterm and term infants using RNA-Sequencing. Scientific Reports.
4(1), 5453.
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Kim, H., Banerjee, N., Ivanov, I., Talcott, S., & MertensTalcott, S.
(2014).
Comparison of antiinflammatory mechanisms of mango (Mangifera indica L.) and pomegranate (Punica granatum L.) in DSSinduced colitis in rats (372.8). The FASEB Journal.
28(S1),
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Brannan, J. L., Riggs, P. K., Olafson, P. U., Ivanov, I., & Holman, P. J.
(2014).
Expression of bovine genes associated with local and systemic immune response to infestation with the Lone Star tick, Amblyomma americanum. TICKS AND TICK-BORNE DISEASES.
5(6), 676-688.
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Triff, K., Konganti, K., Gaddis, S., Zhou, B., Ivanov, I., & Chapkin, R. S.
(2013).
Genome-wide analysis of the rat colon reveals proximal-distal differences in histone modifications and proto-oncogene expression. Physiological Genomics.
45(24), 1229-1243.
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Ghaffari, N., Yousefi, M. R., Johnson, C. D., Ivanov, I., & Dougherty, E. R.
(2013).
Modeling the next generation sequencing sample processing pipeline for the purposes of classification. BMC Bioinformatics.
14(1), 307.
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Sayes, C. M., Smith, P. A., & Ivanov, I. V.
(2013).
A framework for grouping nanoparticles based on their measurable characteristics. 8 Suppl 1(Suppl 1), 45-56.
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Kachroo, P., Ivanov, I., Seabury, A. G., Liu, M., Chowdhary, B. P., & Cohen, N. D.
(2013).
Age-related changes following in vitro stimulation with Rhodococcus equi of peripheral blood leukocytes from neonatal foals. PLoS One.
8(5), e62879-e62879.
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Suchodolski, J. S., Markel, M. E., Garcia-Mazcorro, J. F., Unterer, S., Heilmann, R. M., Dowd, S. E., ... Toresson, L.
(2012).
The fecal microbiome in dogs with acute diarrhea and idiopathic inflammatory bowel disease. PLoS One.
7(12), e51907-e51907.
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Zhao, C., Hua, J., Bittner, M. L., Ivanov, I., & Dougherty, E. R.
(2012).
Identifying mechanistic similarities in drug responses. Bioinformatics.
28(14), 1902-1910.
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Schwartz, S., Friedberg, I., Ivanov, I. V., Davidson, L. A., Goldsby, J. S., Dahl, D. B., ... Chapkin, R.
(2012).
A metagenomic study of diet-dependent interaction between gut microbiota and host in infants reveals differences in immune response
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Schwartz, S., Friedberg, I., Ivanov, I. V., Davidson, L. A., Goldsby, J. S., Dahl, D. B., ... Chapkin, R. S.
(2012).
A metagenomic study of diet-dependent interaction between gut microbiota and host in infants reveals differences in immune response. 13(4), r32-R32.
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Archibong, E., Wang, L., Ivanov, I., Lita, A., Redda, K., & Mateeva, N.
(2012).
Investigation of the binding of dioxin selective pentapeptides to a polyaniline matrix. Synthetic Metals.
162(13-14), 1255-1263.
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Qin, J., Liu, X., Laffin, B., Chen, X., Choy, G., Jeter, C. R., ... Tang, D. G.
(2012).
The PSA(-/lo) prostate cancer cell population harbors self-renewing long-term tumor-propagating cells that resist castration. Cell Stem Cell.
10(5), 556-569.
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ZHAO, C., IVANOV, I., BITTNER, M. L., & DOUGHERTY, E. R.
(2011).
PATHWAY REGULATORY ANALYSIS IN THE CONTEXT OF BAYESIAN NETWORKS USING THE COEFFICIENT OF DETERMINATION. Journal of Biological Systems.
19(04), 651-682.
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Ghaffari, N., Ivanov, I., Qian, X., & Dougherty, E. R.
(2011).
A CoD-based stationary control policy for intervening in large gene regulatory networks. 12 Suppl 10(Suppl 10), S10.
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Kachroo, P., Ivanov, I., Davidson, L. A., Chowdhary, B. P., Lupton, J. R., & Chapkin, R. S.
(2011).
Classification of diet-modulated gene signatures at the colon cancer initiation and progression stages. DIGESTIVE DISEASES AND SCIENCES.
56(9), 2595-2604.
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Jia, Q., Ivanov, I., Zlatev, Z. Z., Alaniz, R. C., Weeks, B. R., Callaway, E. S., ... Chapkin, R. S.
(2011).
Dietary fish oil and curcumin combine to modulate colonic cytokinetics and gene expression in dextran sodium sulphate-treated mice. The British Journal of Nutrition: an international journal of nutritional science.
106(4), 519-529.
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Shah, M. S., Schwartz, S. L., Zhao, C., Davidson, L. A., Zhou, B., Lupton, J. R., Ivanov, I., & Chapkin, R. S.
(2011).
Integrated microRNA and mRNA expression profiling in a rat colon carcinogenesis model: effect of a chemo-protective diet. Physiological Genomics.
43(10), 640-654.
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Shah, M. S., Schwartz, S. L., Zhao, C., Davidson, L. A., Zhou, B., Lupton, J. R., Ivanov, I., & Chapkin, R. S.
(2011).
Integrated microRNA and mRNA expression profiling in a rat colon carcinogenesis model: Effect of a chemoprotective diet. Cancer Research.
71(8_Supplement), 1160-1160.
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Donovan, S. M., Schwartz, S. L., Ivanov, I. V., Davidson, L. A., Goldsby, J. S., Dahl, D. B., ... Chapkin, R. S.
(2011).
Hostmicrobe interactions in neonatal intestinal development. Role of early nutrition. Appetite.
57, s13-s14.
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Romoser, A. A., Chen, P. L., Berg, J. M., Seabury, C., Ivanov, I., Criscitiello, M. F., & Sayes, C. M.
(2011).
Quantum dots trigger immunomodulation of the NFB pathway in human skin cells. Molecular Immunology.
48(12-13), 1349-1359.
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Ivanov, I., Yabukarski, F., Ruigrok, R., & Jamin, M.
(2011).
Structural insights into the rhabdovirus transcription/replication complex. Virus Research.
162(1-2), 126-137.
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Qian, X., Ghaffari, N., Ivanov, I., & Dougherty, E. R.
(2010).
State reduction for network intervention in probabilistic Boolean networks. Bioinformatics.
26(24), 3098-3104.
-
Sayes, C., & Ivanov, I.
(2010).
Comparative study of predictive computational models for nanoparticle-induced cytotoxicity. Risk Analysis: an international journal.
30(11), 1723-1734.
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Ivanov, I., Simeonov, P., Ghaffari, N., Qian, X., & Dougherty, E. R.
(2010).
Selection Policy-Induced Reduction Mappings for Boolean Networks. IEEE Transactions on Signal Processing.
58(9), 4871-4882.
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Ghaffari, N., Ivanov, I., Qian, X., & Dougherty, E. R.
(2010).
A CoD-based reduction algorithm for designing stationary control policies on Boolean networks. Bioinformatics.
26(12), 1556-1563.
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Chapkin, R. S., Zhao, C., Ivanov, I., Davidson, L. A., Goldsby, J. S., Lupton, J. R., ... Dougherty, E. R.
(2010).
Noninvasive stool-based detection of infant gastrointestinal development using gene expression profiles from exfoliated epithelial cells. American Journal of Physiology: Gastrointestinal and Liver Physiology.
298(5), G582-G589.
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Ivanov, I., Crpin, T., Jamin, M., & Ruigrok, R.
(2010).
Structure of the dimerization domain of the rabies virus phosphoprotein. 84(7), 3707-3710.
-
Davidson, L. A., Wang, N., Shah, M. S., Lupton, J. R., Ivanov, I., & Chapkin, R. S.
(2009).
n-3 Polyunsaturated fatty acids modulate carcinogen-directed non-coding microRNA signatures in rat colon. Carcinogenesis.
30(12), 2077-2084.
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Davidson, L. A., Wang, N., Ivanov, I., Goldsby, J., Lupton, J. R., & Chapkin, R. S.
(2009).
Identification of actively translated mRNA transcripts in a rat model of early-stage colon carcinogenesis. Cancer Prevention Research.
2(11), 984-994.
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Hosako, H., Martin, G. S., Barrier, M., Chen, Y. A., Ivanov, I. V., & Mirkes, P. E.
(2009).
Gene and microRNA expression in p53-deficient day 8.5 mouse embryos. 85(6), 546-555.
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Qian, X., Ivanov, I., Ghaffari, N., & Dougherty, E. R.
(2009).
Intervention in gene regulatory networks via greedy control policies based on long-run behavior. BMC Systems Biology.
3(1), 61.
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Zhao, C., Ivanov, I., Dougherty, E. R., Hartman, T. J., Lanza, E., Bobe, G., ... Chapkin, R. S.
(2009).
Noninvasive detection of candidate molecular biomarkers in subjects with a history of insulin resistance and colorectal adenomas. Cancer Prevention Research.
2(6), 590-597.
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Vahedi, G., Ivanov, I. V., & Dougherty, E. R.
(2009).
Inference of Boolean networks under constraint on bidirectional gene relationships. 3(3), 191-202.
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Wu, F., Ivanov, I., Xu, R., & Safe, S.
(2009).
Role of SP transcription factors in hormone-dependent modulation of genes in MCF-7 breast cancer cells: microarray and RNA interference studies. Journal of Molecular Endocrinology.
42(1), 19-33.
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Ivanov, I.
(2009).
Boolean models of genomic regulatory networks: reduction mappings, inference, and external control. Current Genomics.
10(6), 375-387.
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Gerard, F., Ribeiro, E., Leyrat, C., Ivanov, I., Blondel, D., Longhi, S., Ruigrok, R., & Jamin, M.
(2009).
Modular organization of rabies virus phosphoprotein. JOURNAL OF MOLECULAR BIOLOGY.
388(5), 978-996.
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Ivanov, I., Pal, R., & Dougherty, E. R.
(2007).
Dynamics preserving size reduction mappings for probabilistic boolean networks. 55(5), 2310-2322.
-
Ivanov, I., & Dougherty, E. R.
(2006).
Modeling genetic regulatory networks: Continuous or discrete?. Journal of Biological Systems.
14(2), 219-229.
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Pal, R., Ivanov, I., Datta, A., Bittner, M. L., & Dougherty, E. R.
(2005).
Generating Boolean networks with a prescribed attractor structure. Bioinformatics.
21(21), 4021-4025.
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Ivanov, I., & Dougherty, E. R.
(2004).
Reduction mappings between Probabilistic Boolean networks. EURASIP Journal on Advances in Signal Processing.
2004(1), 125-131.
-
Zhou, X., Wang, X., Pal, R., Ivanov, I., Bittner, M., & Dougherty, E. R.
(2004).
A Bayesian connectivity-based approach to constructing probabilistic gene regulatory networks. Bioinformatics.
20(17), 2918-2927.
-
Ivanov, I. V., & Shekhtman, B.
(2001).
Linear discrete operators on the disk algebra. Proceedings of the American Mathematical Society.
129(7), 1987-1993.
-
Naik, V. D., Lunde-Young, E. R., Davis-Anderson, K. L., Orzabal, M., Ivanov, I., & Ramadoss, J.
Chronic binge alcohol consumption during pregnancy alters rat maternal uterine artery pressure response. ALCOHOL.
56, 59-64.
-
Ivanov, I.
Gut-host Crosstalk: Methodological and Computational Challenges. DIGESTIVE DISEASES AND SCIENCES.
65(3), 686-694.
-
Roitershtein, A., Rastegar, R., Chapkin, R. S., & Ivanov, I.
(2023).
Extinction scenarios in evolutionary processes: a multinomial Wright-Fisher approach. Journal of Mathematical Biology.
87(4), 63.
-
chapter
-
Shakola, F., Simeonova, V., & Ivanov, I.
(2023).
Comparison of Four Classification Methods on Small-Sample-Size Synthetic RNA-seq Data. Studies in Computational Intelligence.
Advanced Computing in Industrial Mathematics.
(pp. 111-121).
Springer Nature.
-
Shakola, F., Palejev, D., & Ivanov, I.
(2022).
Comparative Study of Synthetic Bulk RNA-Seq Generators. Lecture Notes in Artificial Intelligence.
Bioinformatics and Biomedical Engineering.
(pp. 57-70).
Springer Nature.
-
Wang, M., Ivanov, I., Davidson, L. A., Chapkin, R. S., & Donovan, S. M.
(2017).
Infant nutrition and the microbiome. Nutrigenomics and Proteomics in Health and Disease.
(pp. 220-257).
Wiley.
-
Das, S., Caragea, D., Welch, S., Hsu, W. H., & Ivanov, I. V.
(2010).
Complexity of the BN and the PBN Models of GRNs and Mappings for Complexity Reduction. Handbook of Research on Computational Methodologies in Gene Regulatory Networks.
(pp. 334-351).
IGI Global.
-
Shakola, F., Simeonova, V., & Ivanov, I.
(2023).
Comparison of Four Classification Methods on Small-Sample-Size Synthetic RNA-seq Data. Studies in Computational Intelligence.
Advanced Computing in Industrial Mathematics.
(pp. 111-121).
Springer Nature.
-
conference paper
-
Brun, M., Simeonov, P., Ivanov, I., & Ballarn, V.
(2017).
On the Distribution of Randomly Generated Boolean Networks as Models for Genetic Regulation. 1-6.
-
Kim, E., Ivanov, I., Hua, J., Chapkin, R. S., & Dougherty, E. R.
(2016).
Model-based study of the Effectiveness of Reporting Lists of Small Feature Sets using RNA-Seq Data. 470-471.
-
Schoenen, D., Ivanov, I., & Corves, B.
(2015).
An Approach to the Characterization of Flexure Hinges for the Purpose of Optimizing the Design of a Micromanipulator. Mechanisms and Machine Science.
869-877.
-
Knight, J., Ivanov, I., & Dougherty, E.
(2013).
Bayesian Multivariate Poisson Model for RNA-Seq Classification. IEEE International Workshop on Genomic Signal Processing and Statistics : [proceedings]. IEEE International Workshop on Genomic Signal Processing and Statistics.
96-97.
-
Wang, M., Li, M., Chapkin, R. S., Ivanov, I., & Donovan, S. M.
(2013).
Fecal microbiome and metabolites differ between breast and formula-fed human infants. The FASEB Journal.
850.4-850.4.
-
Yousefi, M. R., & Ivanov, I.
(2013).
Optimal control of gene regulatory networks with uncertain intervention effects. 105-108.
-
Zheng, C., Schwartz, S., Chapkin, R. S., Carroll, R. J., & Ivanov, I.
(2012).
Feature selection for high-dimensional integrated data. 1141-1150.
-
Sayes, C. M., & Ivanov, I. V.
(2012).
Grouping of Colloidal Metal Nanoparticles Based on Their Measurable Characteristics: A Proposed Framework. 876-883.
-
Zhao, C., Ivanov, I., Bittner, M. L., & Dougherty, E. R.
(2011).
Pathway Analysis in the Context of Bayesian Networks Mathematical Modeling of Master and Canalizing Genes. IEEE International Workshop on Genomic Signal Processing and Statistics : [proceedings]. IEEE International Workshop on Genomic Signal Processing and Statistics.
64-65.
-
Qin, J., Liu, X., Laffin, B., Chen, X., Choy, G., Jeter, C., ... Tang, D. G.
(2011).
Defining two populations of prostate cancer cells with distinct molecular, biological, and tumor-propagating properties. Cancer Research.
476-476.
-
Zhao, C., Ivanov, I., Shah, M., Davidson, L. A., Chapkin, R. S., & Dougherty, E. R.
(2010).
CONDITIONING-BASED MODEL FOR THE REGULATORY ACTIVITIES OF microRNAs IN SPECIFIC DIETARY CONTEXTS. IEEE International Workshop on Genomic Signal Processing and Statistics : [proceedings]. IEEE International Workshop on Genomic Signal Processing and Statistics.
1-4.
-
Donovan, S. M., Davidson, L. A., Zhao, C., Ivanov, I., Goldsby, J. S., Lupton, J. R., ... Chapkin, R. S.
(2010).
Non-invasive stool-based detection of newborn infant gastrointestinal development using gene expression profiles derived from exfoliated epithelial cells. The FASEB Journal.
206.6-206.6.
-
Ghaffari, N., Ivanov, I., & Dougherty, E.
(2009).
A COD BASED REDUCTION ALGORITHM FOR BOOLEAN AND PROBABILISTIC BOOLEAN NETWORKS. 1-2.
-
Ghaffari, N., Ivanov, I., & Dougherty, E.
(2008).
REDUCTION MAPPINGS AND CONTROL POLICIES FOR INTERVENTION IN BOOLEAN NETWORKS. 1-2.
-
Dougherty, J., & Ivanov, I.
(2008).
REDUCTION COST FOR BOOLEAN NETWORKS WITH PERTURBATION. 1-3.
-
Ivanov, I., Vahedi, G., & Dougherty, E.
(2007).
Constrained Reduction Mapping for a Class of Network Models of Genomic Regulation. 192-195.
-
Vahedi, G., Ivanov, I., & Dougherty, E. R.
(2007).
Bidirectional relationships and attractor structure of Boolean networks. IEEE International Workshop on Genomic Signal Processing and Statistics : [proceedings]. IEEE International Workshop on Genomic Signal Processing and Statistics.
7-+.
-
Ivanov, I., Pal, R., & Dougherty, E.
(2006).
Applying Reduction Mappings in Designing Genomic Regulatory Networks. 1-2.
-
Ivanov, I., Pal, R., & Dougherty, E. R.
(2006).
Reducing the complexity of a PBN while preserving its dynamical structure. IEEE International Workshop on Genomic Signal Processing and Statistics : [proceedings]. IEEE International Workshop on Genomic Signal Processing and Statistics.
77-+.
-
Pal, R., Ivanov, I., Datta, A., Bittner, M. L., & Dougherty, E. R.
(2006).
Synthesizing Boolean networks with a given attractor structure. IEEE International Workshop on Genomic Signal Processing and Statistics : [proceedings]. IEEE International Workshop on Genomic Signal Processing and Statistics.
73-+.
-
Brun, M., Simeonov, P., Ivanov, I., & Ballarn, V.
(2017).
On the Distribution of Randomly Generated Boolean Networks as Models for Genetic Regulation. 1-6.
-
institutional repository document
-
Ahmad, I., Gupta, S., Faulkner, P., Mullens, D., Thomas, M., Sytha, S. P., ... Newell-Fugate, A. E.
(2023).
Single-nucleus transcriptomics of epicardial adipose tissue from females reveals exercise control of innate and adaptive immune cells
-
Bahadorinejad, A., Ivanov, I., Lampe, J. W., Hullar, M. A., Chapkin, R. S., & Braga-Neto, U. M.
(2018).
Bayesian Classification of Microbial Communities Based on 16S rRNA Metagenomic Data
-
Garcia-Mazcorro, J. F., Ivanov, I., Mills, D. A., & Noratto, G.
(2015).
Influence of whole-wheat consumption on fecal microbial ecology of obese diabetic mice
-
Garcia-Mazcorro, J. F., Ivanov, I., Mills, D. A., & Noratto, G.
(2015).
Influence of whole-wheat consumption on fecal microbial ecology of obese diabetic mice
-
Ahmad, I., Gupta, S., Faulkner, P., Mullens, D., Thomas, M., Sytha, S. P., ... Newell-Fugate, A. E.
(2023).
Single-nucleus transcriptomics of epicardial adipose tissue from females reveals exercise control of innate and adaptive immune cells
editor of
-
book
-
Ivanov, I. V., Qian, X., & Pal, R.
(2016).
Emerging Research in the Analysis and Modeling of Gene Regulatory Networks
Ivanov, I. V. (Eds.),
IGI Global.
-
Ivanov, I. V., Qian, X., & Pal, R.
(2016).
Emerging Research in the Analysis and Modeling of Gene Regulatory Networks
Ivanov, I. V. (Eds.),
IGI Global.
Research
co-principal investigator on
- Role of Aryl Hydrocarbon Receptor in Microbiota-Colon Stem Cell Interactions awarded by National Institute of Environmental Health Sciences - (Durham, North Carolina, United States) 2016 - 2021
- Systemic oxylipin signals (SOS) for herbivory-induced defense awarded by United States Department of Agriculture - (Washington D.C., District of Columbia, United States) 2017 - 2020
investigator on
- Texas A&M Center for Environmental Health Research awarded by National Institute of Environmental Health Sciences - (Durham, North Carolina, United States) 2019 - 2024
- TGF-BETA Signaling in Endometrial Cell Function and Dysfunction awarded by National Institutes of Health - (Bethesda, Maryland, United States) 2017 - 2022
- A novel mouse model of testicular granulosa cell tumors awarded by National Institutes of Health - (Bethesda, Maryland, United States) 2019 - 2021
- Diet-dependent regulation of DCIS progression awarded by National Institutes of Health - (Bethesda, Maryland, United States) 2016 - 2019
- Center for Translational Environmental Health Research awarded by National Institutes of Health - (Bethesda, Maryland, United States) 2014 - 2018
- Chemoprotective Effects of Natural Products on Colonic Adult Stem Cells awarded by National Institutes of Health - (Bethesda, Maryland, United States) 2011 - 2017
Teaching
teaching activities
- BIMS101 Intro To Biomedical Sc Instructor
- BIOT685 Directed Studies Instructor
- VTPP234 Design Models For Physiology Instructor
- VTPP235 Analy Valid Of Models Physiol Instructor
- VTPP289 Sptp Bioinfo Res Met Instructor
- VTPP289 Sptp: Bioinfo Res Analysis Instructor
- VTPP289 Sptp: Bioinformatics Analysis Instructor
- VTPP438 Analy Of Genomic Signals Instructor
- VTPP489 Sptp: Develop Disorders-bulgar Instructor
- VTPP489 Sptp: Relational Bio Models Instructor
- VTPP489 Sptp: Relational Biology Model Instructor
- VTPP489 Sptp: Relational Biology Model Instructor
- VTPP489 Sptp:dev Disorder- Bulgaria Instructor
- VTPP491 Hnr-research Instructor
- VTPP638 Analy Of Genomic Signals Instructor
- VTPP685 Directed Studies Instructor
- VTPP689 Sptp: Relational Bio Models Instructor
- VTPP689 Sptp: Relational Biology Model Instructor
- VTPP691 Research Instructor
Works By Students
chaired theses and dissertations
-
Knight, Jason Matthew (2015-05). Optimal Model-Based Approaches for Predictive Inference in Biology.
-
Zhao, Chen (2012-07). Stochastic Modeling and Analysis of Pathway Regulation and Dynamics.
Contact
first name
- Ivan
has last name
- Ivanov
mailing address
-
Texas A&M University
Vet Med - Physiology & Pharmacology
4466 TAMU
College Station, TX 77843-4466
USA
Other
- ivanov@tamu.edu