Reinitz Lab Publication List

Jaeger J. Sharp D. & Reinitz J. (2007). Known maternal gradients are not sufficient for the establishment of gap domains in Drosophila melanogaster. Mechanisms of Development, 124:108-128. [pdf]
Jaeger J. and Reinitz J. (2006). On the dynamic nature of positional information. BioEssays, 28:1102-1111, [pdf]
Janssens H, Hou S, Jaeger J, Kim A, Myasnikova E, Sharp D, & Reinitz J (2006). Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene. Nature Genetics, 36: 1159-1165. [pdf;news and views]
Lebrecht D, Foehr M, Smith E, Lopes FJP, Vanario-Alonso CE, Reinitz J, Burz DS & Hanes SD (2005). Bicoid cooperative DNA binding is critical for embryonic patterning in Drosophila. Proc Nat Acad Sci USA, 102: 13176-13181. [pdf]
Janssens H, Kosman D, Vanario-Alonso CE, Jaeger J, Samsonova M & Reinitz J (2005). A high-throughput method for quantifying gene expression data from early Drosophila embryos. Dev Genes Evol 215: 374-381. [pdf] [Supplementary Information]
Myasnikova E, Samsonova M, Kosman D & Reinitz J (2005). Removal of background signal from in situ data on the expression of segmentation genes in Drosophila. Dev Genes Evol 215: 320-326. [pdf]
Gursky VV, Jaeger J, Kozlov KN, Reinitz J & Samsonov AM (2004). Pattern formation and nuclear divisions are uncoupled in Drosophila segmentation: Comparison of spatially discrete and continuous models. Physica D, 197: 286-302. [pdf]
Poustelnikova E, Pisarev A, Blagov M, Samsonova M & Reinitz J (2004). A database for management of gene expression data in situ. Bioinformatics 20: 2212-2221. [pdf]
Jaeger J, Blagov M, Kosman D, Kozlov KN, Manu, Myasnikova E, Surkova S, Vanario-Alonso CE, Samsonova M, Sharp DH & Reinitz J (2004). Dynamical analysis of regulatory interactions in the gap gene system of Drosophila melanogaster. Genetics 167: 1721-1737. [pdf] [color versions of figures 1,3,4 & 9 (pdf)]
Jaeger J, Surkova S, Blagov M, Janssens H, Kosman D, Kozlov KN, Manu, Myasnikova E, Vanario-Alonso CE, Samsonova M, Sharp DH & Reinitz J (2004). Dynamic control of positional information in the early Drosophila blastoderm. Nature 430: 368-371. [pdf] [Supplementary Information]
Reinitz J, Hou S & Sharp DH (2003). Transcriptional control in Drosophila. ComPlexUs 1: 54-64. [pdf]
Holloway DM, Reinitz J, Spirov AV & Vanario-Alonso CE (2002). Sharp borders from fuzzy gradients. Trends Genet 18: 385-387. [pdf]
Myasnikova E, Samsonova A, Samsonova M & Reinitz J (2002). Support vector regression applied to the determination of the developmental age of a Drosophila embryo from its segmentation gene expression patterns. Bioinformatics 18 Suppl 1: S87-S95. [pdf]
Aizenberg I, Myasnikova E, Samsonova M & Reinitz J (2002). Temporal classification of Drosophila segmentation gene expression patterns by the multi-valued neural recognition method. Math Biosci 176: 145-159. [pdf]
Kozlov K, Myasnikova E, Pisarev A, Samsonova M & Reinitz J (2002). A method for two-dimensional registration and construction of the two-dimensional atlas of gene expression patterns in situ. In Silico Biol 2: 125-141.
Wu, X, Vasisht V, Kosman D, Reinitz J & Small S (2001). Thoracic patterning by the Drosophila gap gene hunchback. Dev Biol 237: 79-92. [pdf]
Gursky VV, Reinitz J & Samsonov AM (2001). How gap genes make their domains: An analytical study based on data driven approximations Chaos 11: 132-141. [pdf]
Myasnikova E, Samsonova A, Kozlov K, Samsonova M & Reinitz J (2001). Registration of the expression patterns of Drosophila segmentation genes by two independent methods. Bioinformatics 17: 3-12. [pdf]
Aizenberg I, Myasnikova E, Samsonova M & Reinitz J (2001). Application of the neural networks based on multi-valued neurons to classification of the images of gene expression patterns. LNCS 2206: 291-304. [pdf]
Spirov AV, Timakin DL, Reinitz J & Kosman D (2001). Using of evolutionary computations in image processing for quantitative atlas of Drosophila genes expression. EvoWorkshop, LNCS 2037: 374-383. [pdf]
Kozlov KN, Myasnikova EM, Samsonova MG, Reinitz J & Kosman D (2000). Method for spatial registration of the expression patterns of Drosophila segmentation genes using wavelets. Comp Tech 5: 112-119.
Spirov AV, Bowler T & Reinitz, J (2000). HOX Pro: a specialized database for clusters and networks of homeobox genes. Nucleic Acids Res 28: 337-340. [pdf]
Kozlov K, Myasnikova E, Samsonova M, Reinitz R & Kosman D (2000). Fast Redundant Dyadic Wavelet Transform in Application to Spatial Registration of the Expression Patterns of Drosophila Segmentation Genes. ICPR: 3463-3466. [pdf]
Myasnikova E, Kosman D, Reinitz J & Samsonova M (1999). Spatio-temporal registration of the expression patterns of Drosophila segmentation genes. Proc Int Conf Intell Syst Mol Biol: 195-201. [pdf]
Chu KW, Deng Y & Reinitz J (1999). Parallel simulated annealing by mixing of states. Jour Comp Phys 148:646-662. [pdf]
Hewitt GF, Strunk BS, Margulies C, Priputin T, Wang XD, Amey R, Pabst BA, Kosman D, Reinitz J & Arnosti DN (1999). Transcriptional repression by the Drosophila giant protein: cis element positioning provides an alternative means of interpreting an effector gradient. Development 126: 1201-1210. [pdf]
Reinitz J, Kosman D, Vanario-Alonso CE & Sharp DH (1998). Stripe forming architecture of the gap gene system. Dev Genet 23: 11-27. [pdf]
Sharp DH & Reinitz J (1998). Prediction of mutant expression patterns using gene circuits. Biosystems 47: 79-90. [pdf]
Kosman D, Reinitz J & Sharp DH (1998). Automated assay of gene expression at cellular resolution Pac Symp Biocomput: 6-17.
Kosman D, Small S & Reinitz J (1998). Rapid preparation of a panel of polyclonal antibodies to Drosophila segmentation proteins. Dev Genes Evol 208: 290-294. [pdf]
Reinitz J & Sharp DH (1996). Gene circuits and their uses. In: Collado J, Magasanik B, Smith T (eds): Integrative Approaches to Molecular Biology, Chapter 13, pp. 253-272. Cambridge MA: MIT Press.
Reinitz J, Mjolsness E & Sharp DH (1995). Model for cooperative control of positional information in Drosophila by bicoid and hunchback. J Exp Zool 271: 47-56. [pdf]
Reinitz J & Sharp DH (1995). Mechanism of eve stripe formation. Mech Dev 49: 133-158. [pdf]
Mjolsness E, Sharp DH & Reinitz J (1991). A connectionist model of development. J Theor Biol 152: 429-453. [pdf]
Reinitz J & Vaisnys JR (1990). Theoretical and experimental analysis of the phage lambda genetic switch implies missing levels of co-operativity. J Theor Biol 145: 295-318.
Reinitz J & Levine M (1990). Control of initiation of homeotic gene expression by the gap genes giant and tailless in Drosophila. Dev Biol 140: 57-72.

[Home]