باباعباسی، ب. (1395). "بیوانفورماتیک سلولی و مولکولی." پژوهشگاه رویان، پژوهشکده زیستشناسی و علوم پزشکی تولیدمثل جهاد دانشگاهی، مرکز تحقیقات پزشکی تولیدمثل، گروه ژنتیک، تهران، ایران: 9-318.
درزی، م.، گرگین، س.، مجیدزاده، ک.، و اسمعیلی، ر. (1400). "شناسایی ژن‌های مرتبط با پیش‌آگهی در سرطان پستان Her2-enriched با استفاده از تجزیه و تحلیل شبکه هم‌بیانی ژنی." فصلنامه بیماری‌های پستان ایران، 14(1)، 49-63.
Agrahari, R., Foroushani, A., Docking, T.R., Chang, L., Duns, G., and et al. (2018). “Applications of Bayesian network models in predicting types of hematological malignancies.” Scientific Reports, 8(1), 1-12.
Allen, M., Wang, X., Burgess, J.D., Watzlawik, J., Serie, D.J., and et al. (2018). “Conserved brain myelination networks are altered in Alzheimer's and other neurodegenerative diseases.” Alzheimer's & Dementia, 14(3), 352-366.
Bakhtiarizadeh, M.R., Mirzaei, S., Norouzi, M., Sheybani, N., and Vafaei Sadi, M.S. (2020). “Identification of gene modules and hub genes involved in mastitis development using a systems biology approach.” Frontiers in Genetics, 11, 722.
Dong, J., and Horvath, S. (2007). “Understanding network concepts in modules.” BMC Systems Biology, 1(1), 1-20.
Farhadian, M., Rafat, S.A., Panahi, B., and Mayack, C. (2021). “Weighted gene co-expression network analysis identifies modules and functionally enriched pathways in the lactation process.” Scientific Reports, 11(1), 1-15.
Foroushani, A., Agrahari, R., Docking, R., Chang, L., Duns, G., and et al. (2017). “Large-scale gene network analysis reveals the significance of extracellular matrix pathway and homeobox genes in acute myeloid leukemia: an introduction to the Pigengene package and its applications.” BMC Medical Genomics, 10(1), 1-15.
Fuller, T., Langfelder, P., Presson, A., and Horvath, S. (2011). “Review of weighted gene coexpression network analysis.” In Handbook of Statistical Bioinformatics. Springer, Berlin, Heidelberg, 369-388.
Fuller, T.F., Ghazalpour, A., Aten, J.E., Drake, T.A., Lusis, A.J., and et al. (2007). “Weighted gene coexpression network analysis strategies applied to mouse weight.” Mammalian Genome, 18(6), 463-472.
Gentleman, R., Carey, V.J., Huber, W., Irizarry, R.A., and Dudoit, S. (Eds.). (2005). “Bioinformatics and computational biology solutions using R and Bioconductor.” New York: Springer, 1 (0).
Ghafouri, F., Mehrabani Yeganeh, H., and Mohamadian Jeshvaghani, S. (2020). “Big data and the role of high-throughput technologies in livestock and poultry breeding”. Professional Journal of Domestic, 20(1), 34-40.
Ghahramani, N., Shodja, J., Rafat, S.A., Panahi, B., and Hasanpur, K. (2021). “Integrative systems biology analysis elucidates mastitis disease underlying functional modules in dairy cattle”. Frontiers in Genetics, 12.
Horvath, S. (2011). “Weighted network analysis: applications in genomics and systems biology.” Springer Science & Business Media.
Horvath, S., and Dong, J. (2008). “Geometric interpretation of gene coexpression network analysis.” PLoS Computational Biology, 4(8), e1000117.
Horvath, S., Zhang, B., Carlson, M., Lu, K.V., Zhu, S., and et al. (2006). “Analysis of oncogenic signaling networks in glioblastoma identifies ASPM as a molecular target.” Proceedings of the National Academy of Sciences, 103(46), 17402-17407.
Langfelder, P., Luo, R., Oldham, M.C., and Horvath, S. (2011). “Is my network module preserved and reproducible?.” PLoS Computational Biology, 7(1), e1001057.
Langfelder, P., Mischel, P.S., and Horvath, S. (2013). “When is hub gene selection better than standard meta-analysis?.” PloS One, 8(4), e61505.
Langfelder, P., Zhang, B., and Horvath, S. (2008). “Defining clusters from a hierarchical cluster tree: the Dynamic Tree Cut package for R.” Bioinformatics, 24(5), 719-720.
Li, J., Zhou, D., Qiu, W., Shi, Y., Yang, J.J., and et al. (2018). “Application of weighted gene co-expression network analysis for data from paired design.” Scientific Reports, 8(1), 1-8.
Liu, W., Li, L., Ye, H., and Tu, W. (2017). “Weighted gene co-expression network analysis in biomedicine research.” Sheng wu Gong Cheng xue Bao= Chinese Journal of Biotechnology, 33(11), 1791-1801.
Maertens, A., Tran, V., Kleensang, A., and Hartung, T. (2018). “Weighted gene correlation network analysis (WGCNA) reveals novel transcription factors associated with bisphenol A dose-response.” Frontiers in Genetics, 9, 508.
Oldham, M.C., Konopka, G., Iwamoto, K., Langfelder, P., Kato, T., and et al. (2008). “Functional organization of the transcriptome in human brain.” Nature Neuroscience, 11(11), 1271-1282.
Oldham, M.C., Langfelder, P., and Horvath, S. (2012). “Network methods for describing sample relationships in genomic datasets: application to Huntington’s disease.” BMC Systems Biology, 6(1), 1-18.
Ovens, K., Eames, B.F., and McQuillan, I. (2021). “Comparative analyses of gene co-expression networks: Implementations and applications in the study of evolution.” Frontiers in Genetics, 12.
Presson, A.P., Sobel, E.M., Papp, J.C., Suarez, C.J., Whistler, T., and et al. (2008). “Integrated weighted gene co-expression network analysis with an application to chronic fatigue syndrome.” BMC Systems Biology, 2(1), 1-21.
Ranola, J.M., Langfelder, P., Lange, K., and Horvath, S. (2013). “Cluster and propensity based approximation of a network.” BMC Systems Biology, 7(1), 1-20.
Silva-Vignato, B., Coutinho, L.L., Poleti, M.D., Cesar, A.S., Moncau, C.T., and et al. (2019). “Gene co-expression networks associated with carcass traits reveal new pathways for muscle and fat deposition in Nelore cattle.” BMC Genomics, 20(1), 1-13.
Spadafora, R., Lu, J., Khetani, R.S., Zhang, C., Iberg, A., and et al. (2018). “Lung-resident mesenchymal stromal cells reveal transcriptional dynamics of lung development in preterm infants.” American Journal of Respiratory and Critical Care Medicine, 198(7), 961-964.
Swarup, V., Hinz, F.I., Rexach, J.E., Noguchi, K.I., Toyoshiba, H., and et al. (2019). “Identification of evolutionarily conserved gene networks mediating neurodegenerative dementia.” Nature Medicine, 25(1), 152-164.
Weston, D.J., Gunter, L.E., Rogers, A., and Wullschleger, S.D. (2008). “Connecting genes, coexpression modules, and molecular signatures to environmental stress phenotypes in plants.” BMC Systems Biology, 2(1), 1-17.
Wu, Z., Hai, E., Di, Z., Ma, R., Shang, F., and et al. (2020). “Using WGCNA (weighted gene co-expression network analysis) to identify the hub genes of skin hair follicle development in fetus stage of Inner Mongolia cashmere goat.” PloS One, 15(12), e0243507.
Zhang, B., and Horvath, S. (2005). “A general framework for weighted gene co-expression network analysis.” Statistical Applications in Genetics and Molecular Biology, 4(1). 17
Zhang, P., Li, Q., Wu, Y., Zhang, Y., Zhang, B., and et al. (2022). “Identification of candidate genes that specifically regulate subcutaneous and intramuscular fat deposition using transcriptomic and proteomic profiles in Dingyuan pigs.” Scientific Reports, 12(1), 1-13.
Zhao, X., Wang, C., Wang, Y., Zhou, L., Hu, H., and et al. (2020). “Weighted gene co‐expression network analysis reveals potential candidate genes affecting drip loss in pork.” Animal Genetics, 51(6), 855-865.
 دامِستیک', './data/domesticsj/coversheet/851678347367.png'))