Assenov, Y., Ramírez, F., Schelhorn, S. E., Lengauer, T. and Albrecht, M. (2007). Computing topological parameters of biological networks. Bioinformatics, 24(2), 282-284.
Bai, R., Kusama, K., Sakurai, T., Bai, H., Wang, C., Zhang, J., ... and Imakawa, K. (2015). The role of endometrial selectins and their ligands on bovine conceptus attachment to the uterine epithelium during peri-implantation period. Biology of reproduction, 93(2).
Bader, G. D. and Hogue, C. W. (2003). An automated method for finding molecular complexes in large protein interaction networks. BMC bioinformatics, 4(1), 2.
Barabási, A. L. and Bonabeau, E. (2003). Scale-free networks. Scientific american, 288(5), 60-69.
Barrett, T., Wilhite, S. E., Ledoux, P., Evangelista, C., Kim, I. F., Tomashevsky, M., ... and Yefanov, A. (2012). NCBI GEO: archive for functional genomics data sets—update. Nucleic acids research, 41(D1), D991-D995.
Bauersachs, S., Ulbrich, S. E., Gross, K., Schmidt, S. E., Meyer, H. H., Wenigerkind, H., ... and Wolf, E. (2006). Embryo-induced transcriptome changes in bovine endometrium reveal species-specific and common molecular markers of uterine receptivity. Reproduction, 132(2), 319-331.
Bauersachs, S., Ulbrich, S. E., Reichenbach, H. D., Reichenbach, M., Büttner, M., Meyer, H. H., ... and Wolf, E. (2012). Comparison of the effects of early pregnancy with human interferon, alpha 2 (IFNA2), on gene expression in bovine endometrium. Biology of reproduction, 86(2), 46-1.
Bauersachs, S. and Wolf, E. (2013). Immune aspects of embryo-maternal cross-talk in the bovine uterus. Journal of reproductive immunology, 97(1), 20-26.
Berg, D. K., Van Leeuwen, J., Beaumont, S., Berg, M. and Pfeffer, P. L. (2010). Embryo loss in cattle between Days 7 and 16 of pregnancy. Theriogenology, 73(2), 250-260.
Boivin, J., Bunting, L., Collins, J. A. and Nygren, K. G. (2007). International estimates of infertility prevalence and treatment-seeking: potential need and demand for infertility medical care. Human reproduction, 22(6), 1506-1512.
Brandes, U. (2001). A faster algorithm for betweenness centrality. Journal of mathematical sociology, 25(2), 163-177.
Brazma, A., Parkinson, H., Sarkans, U., Shojatalab, M., Vilo, J., Abeygunawardena, N., ... and Oezcimen, A. (2003). ArrayExpress—a public repository for microarray gene expression data at the EBI. Nucleic acids research, 31(1), 68-71.
Cartwright, J. E., Fraser, R., Leslie, K., Wallace, A. E. and James, J. L. (2010). Remodelling at the maternal–fetal interface: relevance to human pregnancy disorders. Reproduction, 140(6), 803-813.
Dekel, N., Gnainsky, Y., Granot, I. and Mor, G. (2010). Inflammation and implantation. American Journal of Reproductive Immunology, 63(1), 17-21.
Denker, H. W. (1993). Implantation: a cell biological paradox. Journal of Experimental Zoology Part A: Ecological Genetics and Physiology, 266(6), 541-558.
Diskin, M. G., Murphy, J. J. and Sreenan, J. M. (2006). Embryo survival in dairy cows managed under pastoral conditions. Animal reproduction science, 96(3-4), 297-311.
Edgar, R., Domrachev, M. and Lash, A. E. (2002). Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic acids research, 30(1), 207-210.
Essabbani, A., Margottin-Goguet, F. and Chiocchia, G. (2009). Identification of clusterin domain involved in NF-kappaB pathway regulation. Journal of Biological Chemistry, jbc-C109.
Ferraz, P. A., Burnley, C., Karanja, J., Viera-Neto, A., Santos, J. E. P., Chebel, R. C. and Galvão, K. N. (2016). Factors affecting the success of a large embryo transfer program in Holstein cattle in a commercial herd in the southeast region of the United States. Theriogenology, 86(7), 1834-1841.
Flint, A. P. F., Guesdon, F. M. J. and Stewart, H. J. (1994). Regulation of trophoblast interferon gene expression. Molecular and cellular endocrinology, 100(1-2), 93-95.
Forde, N., Carter, F., Fair, T., Crowe, M. A., Evans, A. C. O., Spencer, T. E., ... and Lonergan, P. (2009). Progesterone-regulated changes in endometrial gene expression contribute to advanced conceptus development in cattle. Biology of Reproduction, 81(4), 784-794.
Ishiwata, H., Katsuma, S., Kizaki, K., Patel, O. V., Nakano, H., Takahashi, T., ... and Suzuki, Y. (2003). Characterization of gene expression profiles in early bovine pregnancy using a custom cDNA microarray. Molecular Reproduction and Development, 65(1), 9-18.
Jensen, L. J., Kuhn, M., Stark, M., Chaffron, S., Creevey, C., Muller, J., ... and Bork, P. (2008). STRING 8—a global view on proteins and their functional interactions in 630 organisms. Nucleic acids research, 37(suppl_1), D412-D416.
Liu, S., Yang, X., Liu, Y., Wang, X. and Yan, Q. (2011). sLeX/L-selectin mediates adhesion in vitro implantation model. Molecular and cellular biochemistry, 350(1-2), 185-192.
Liu, X. M., Ding, G. L., Jiang, Y., Pan, H. J., Zhang, D., Wang, T. T., ... and Huang, H. F. (2012). Down-regulation of S100A11, a calcium-binding protein, in human endometrium may cause reproductive failure. The Journal of Clinical Endocrinology & Metabolism, 97(10), 3672-3683.
Macklon, N. S., Stouffer, R. L., Giudice, L. C. and Fauser, B. C. (2006). The science behind 25 years of ovarian stimulation for in vitro fertilization. Endocrine reviews, 27(2), 170-207.
Mansouri-Attia, N., Aubert, J., Reinaud, P., Giraud-Delville, C., Taghouti, G., Galio, L., ... and Yang, X. (2009). Gene expression profiles of bovine caruncular and intercaruncular endometrium at implantation. Physiological genomics, 39(1), 14-27.
Nepusz, T., Yu, H. and Paccanaro, A. (2012). Detecting overlapping protein complexes in protein-protein interaction networks. Nature methods, 9(5), 471.
Nyman, S., Gustafsson, H. and Berglund, B. (2018). Extent and pattern of pregnancy losses and progesterone levels during gestation in Swedish Red and Swedish Holstein dairy cows. Acta veterinaria scandinavica, 60(1), 68.
Ribeiro, E. S., Galvão, K. N., Thatcher, W. W. and Santos, J. E. P. (2012). Economic aspects of applying reproductive technologies to dairy herds. Anim Reprod, 9(3), 370-387.
Ribeiro, E. S., Spricigo, J. F. W., Carvalho, M. R. and Ticiani, E. (2018). Physiological and cellular requirements for successful elongation of the preimplantation conceptus and the implications for fertility in lactating dairy cows. Anim. Reprod, 15(1), 765-783.
Roberts, R. M., Chen, Y., Ezashi, T. and Walker, A. M. (2008, April). Interferons and the maternal–conceptus dialog in mammals. In Seminars in cell & developmental biology (Vol. 19, No. 2, pp. 170-177). Academic Press.
Ross, J. W., Ashworth, M. D., Mathew, D., Reagan, P., Ritchey, J. W., Hayashi, K., ... and Geisert, R. D. (2010). Activation of the transcription factor, nuclear factor kappa-B, during the estrous cycle and early pregnancy in the pig. Reproductive Biology and Endocrinology, 8(1), 39.
Sadler, A. J. and Williams, B. R. (2008). Interferon-inducible antiviral effectors. Nature reviews immunology, 8(7), 559.
Sakumoto, R., Hayashi, K. G., Fujii, S., Kanahara, H., Hosoe, M., Furusawa, T. and Kizaki, K. (2017). Possible roles of CC-and CXC-Chemokines in regulating bovine endometrial function during early pregnancy. International journal of molecular sciences, 18(4), 742.
Senthilkumaran, C., Clark, M. E., Abdelaziz, K., Bateman, K. G., MacKay, A., Hewson, J. and Caswell, J. L. (2013). Increased annexin A1 and A2 levels in bronchoalveolar lavage fluid are associated with resistance to respiratory disease in beef calves. Veterinary research, 44(1), 24.
Shirozu, T., Sasaki, K., Kawahara, M., Yanagawa, Y., Nagano, M., Yamauchi, N. and Takahashi, M. (2016). Expression dynamics of bovine MX genes in the endometrium and placenta during early to mid pregnancy. Journal of Reproduction and Development, 62(1), 29-35.
Sponchiado, M., Gonella-Diaza, A. M., Rocha, C. C., Turco, E. G. L., Pugliesi, G., Leroy, J. L. and Binelli, M. (2019). The pre-hatching bovine embryo transforms the uterine luminal metabolite composition in vivo. Scientific reports, 9(1), 8354.
Stemmler, M. P. (2008). Cadherins in development and cancer. Molecular BioSystems, 4(8), 835-850.
Talbot, N. C., Powell, A. M., Caperna, T. J. and Garrett, W. M. (2010). Proteomic analysis of the major cellular proteins of bovine trophectoderm cell lines derived from IVP, parthenogenetic and nuclear transfer embryos: Reduced expression of annexins I and II in nuclear transfer-derived cell lines. Animal reproduction science, 120(1-4), 187-202.
Tinel, H., Denker, H. W. and Thie, M. (2000). Calcium influx in human uterine epithelial RL95-2 cells triggers adhesiveness for trophoblast-like cells. Model studies on signalling events during embryo implantation. Molecular human reproduction, 6(12), 1119-1130.
Warde-Farley, D., Donaldson, S. L., Comes, O., Zuberi, K., Badrawi, R., Chao, P., ... and Maitland, A. (2010). The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function. Nucleic acids research, 38(suppl_2), W214-W220.
Whitaker, M. (2006). Calcium at fertilization and in early development. Physiological reviews, 86(1), 25-88.
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