Original research (selected)

Van Dijk, W., Derks, K., Drüsedau, M., Meekels, J., Koeck, J., Essers, R., Dreesen, J., Coonen, E., de Die-Smulders, CEM., van Wijngaard, A., Paulussen, ADC., Zamani Esteki, M.  Embryo Tracking System for High-throughput Sequencing-based Preimplantation Genetic Testing. Human Reproduction. doi: 10.1093/humrep/deac208 [in press].

 

Koeck, R., Busato, F., Tost, J., Consten, D., Zandstra, H., Remy, S., Langie, S. , Gielen, M., van Golde, R., Dumoulin, JCM., Brunner, HG., #Zamani Esteki, M., #van Montfoort, APA. At age 9 the methylome of assisted reproductive technology children that underwent embryo culture in different media is not significantly different on a genome-wide scale. Human Reproduction. doi: 10.1093/humrep/deac213 [in press]. #Co-senior/corresponding author

Koeck, R., Busato, F., Tost, J., Consten, D., van Echten-Arends, J., Mastenbroek, S., Wurth, Y., Gielen, M., van Golde, R., Dumoulin, JCM., Brunner, HG., #van Montfoort, APA., #Zamani Esteki, M. Methylome-wide analysis of IVF neonates that underwent embryo culture in different media revealed no significant differences. npj Genomic Medicine. doi: 10.1038/s41525-022-00310-3. PMID: 35768464. #Co-senior/corresponding author

Heesterbeek, CJ., Aukema, SM, Galjaard, RH., Boon, EMJ., Srebniak, MI., Bouman, K., Faas, BHW., Govaerts, LCP., Hoffer, MJV.,  den Hollander, NS., Lichtenbelt, KD., van Maarle, MC., van Prooyen Schuurman, L., van Rij, MC.,  Schuring-Blom, GH., Stevens, SJC., Tan-Sindhunata, G., Zamani Esteki, M., de Die-Smulders, CEM., Tjan-Heijnen, VCG., Henneman, L., Sistermans, EA., Macville, MVE., Dutch NIPT Consortium. (2022). Prenatal Test Results Indicative of Maternal Malignancies: A Nationwide Genetic and Clinical Follow-Up Study. Journal of Clinical Oncology. doi: 10.1200/JCO.21.02260. PMID: 35394817

 

Masset, H., Ding, J., Dimitriadou, E., Debrock, S., Tšuiko, O., Smits, K., Peeraer, K., Voet, T., Zamani Esteki, M., Vermeesch, JR. (2022). Single-cell genome-wide concurrent haplotyping and copy-number profiling through genotyping-by-sequencing. Nucleic Acids Research, doi: 10.1093/nar/gkac134. PMID: 35212381

 

*Schobers, G., *Koeck, R., Pellaers, D., Stevens, S., Macville, M., Paulussen, ADC., Coonen, E., van Wijngaard, A., de Die-Smulders, CEM., De Wert, G., Brunner, HG., and Zamani Esteki, M. (2021). Liquid biopsy: State of Reproductive Medicine and Beyond. Human Reproduction,  doi: 10.1093/humrep/deab206. PMID: 34562078

*Co-first authors

Sallevelt SCEH, Stegmann APA, de Koning, B., Velter  C., Steyls  A., van Esch  M., Lakeman P., Yntema H., Zamani Esteki, M., de Die-Smulders CEM., Gilissen  C., van den Wijngaard A., Brunner HG., Paulussen ADC.  Diagnostic exome-based preconception carrier testing in consanguineous couples: results from the first 100 couples in clinical practice. (2021). Genetics in Medicine, 23(6):1125-1136. doi: 10.1038/s41436-021-01116-x. PMID: 33742171

 

Che, H., Villela, D., Dimitriadou, E., Melotte, C., Brison, N., Neofytou, M., Van Den Bogaert, K., Tsuiko, O., Devriendt, K., Legius, E., Zamani Esteki, M., Voet, T., Vermeesch, JR. Noninvasive prenatal diagnosis by genome-wide haplotyping of cell-free plasma DNA. (2020). Genetics in Medicine, 22(5):962-973. doi: 10.1038/s41436-019-0748-y. PMID: 32024963

 

Ding, J., Dimitriadou, E., Tsuiko, O., Destouni, A., Melotte, C., Van Den Bogaert, K., Debrock, S., Jatsenko, T., Zamani Esteki, M., Voet, T., Peeraer, K., Denayer, E., Vermeesch, J.R. (2020). Identity-by-state-based haplotyping expands the application of comprehensive preimplantation genetic testing. Human Reproduction, 35 (3), 718-726. doi: 10.1093/humrep/dez285. PMID: 32198505

 

Zamani Esteki, M.#,*, Viltrop T.*, Tšuiko, O.*, Tiirats, A. Koel, M., Nõukas M., Žilina, O., Heearu, K.,Marjonen, H., Kahila, H., Meekels, J., Söderström-Anttila, V., Suikkari, A., Mägi, R., Kõks, S.,Kaminen-Ahola, N., Kurg, A., Voet, T.#, Vermeesch JR# and Salumets, A#. 

In vitro fertilization does not increase the incidence of de novo copy number

alterations in fetal and placental lineages. (2019). Nature Medicine, 25(11):1699-1705. doi: 10.1038/s41591-019-0620-2. PMID: 31686035

*Joint first author, #Co-senior/corresponding author

 

 

 

 

 

 

Zamani Esteki, M.#*, Ardeshirdavani, A*, Alcaida, D.*, Masset, H.*, Ding, J.*, Sifrim, A., Kumar, P., Dimitriadou, E., Aerts, J. , Voet, T.#, Moreau, Y.#, Vermeesch, J#. HiVA: an integrative wet- and dry-lab platform for haplotype and copy number

analysis of single-cell genomes. *Co-first author, #Co-senior/corresponding author. (preprint: https://doi.org/10.1101/564914).

Zamani Esteki, M., Dimitriadou, E., Mateiu, L., Melotte, C., Jackmaert, S., Van der Aa, N., Kumar, P., Das, R., Theunis, K., Cheng, J., Brems, H., Legius E., Moreau, Y., Debrock, S., D'Hooghe, T., Verdyk,P., De Rycke, Sermon, K., Vermeesch, J., Voet, T.

Concurrent haplotyping and copy-number profiling of single cells. (2015).The American Journal of Human Genetics, 96(6):894-912. doi: 10.1016/j.ajhg.2015.04.011. PMID: 25983246

 

*Destouni, A., *Zamani Esteki, M., Catteeuw, M., Tsuiko, O., Dimitriadou, E., Kurg, A., Salumets, A., Van Soom A., Voet, T., Vermeesch, J.  (2016). Zygotes segregate entire parental genomes in distinct blastomere lineages causing cleavage stage chimaerism and mixolpoidy. Genome Research, 26(5):567-78. doi: 10.1101/gr.200527.115. PMID: 27197242

*These authors are joint first-authors and contributed equally to this work.

 

*Tsuiko O., *Catteeuw M., *Zamani Esteki M., Destouni A., Pascottini OB., Besenfelder U., Havlicek V., Smits K., Kurg A., Salumets A., D'Hooghe T., Voet T., Soom AV., Vermeesch JR. Vanneste E. (joint first author), Voet T. (2017). Genome stability of bovine in vivo-conceived cleavage-stage embryos is higher compared to in vitro-produced embryos. Human Reproduction, 32 (11), 2348-2357. doi: 10.1093/humrep/dex28 PMID: 29040498

*joint first author

*Masset H., *Zamani Esteki, M., Dimitriadou E., Dreesen J., Debrock S., Derhaag J., Derks K., Destouni A., Drusedau M., Meekels J., Melotte C., Peeraer K., Tsuiko O., Van Uum C., Allemeersch J., Devogelaere B., François K., Happe S., Lorson D., Richards RL., Theuns J., Brunner H., De Die-Smulders C., Voet T., Paulussen A., Coonen E., Vermeesch J. (2019). Multi-centre evaluation of a comprehensive preimplantation genetic test through haplotyping-by-sequencing. Human Reproduction doi: 10.1093/humrep/dez106.  PMID: 31348829

*Co-first author

 

Destouni A, Dimitriadou E, Masset H, Debrock S, Melotte C, Van Den Bogaert K, Zamani Esteki M, Ding J, Voet T, Denayer E, de Ravel T, Legius E, Meuleman C, Peeraer K, Vermeesch JR., (2018). Genome-wide haplotyping embryos developing from 0PN and 1PN zygotes increases transferrable embryos in PGT-M. Human Reproduction,33 (12), 2302-2311. doi: 10.1093/humrep/dey325. PMID: 30383227

Dimitriadou, E., Melotte, C., Debrock, S., Zamani Esteki, M., Dierickx, K., Voet, T., Devriendt, K., de Ravel, T., Legius, E., Peraer, K., Meuleman, C., Vermeessch, J.R., (2017). Principles guiding embryo selection following genome-wide haplotyping of preimplantation embryos. Human Reproduction, 32(3), art.nr. 10.1093/humrep/dex011, 687-697. PMID: 26374319

Demeulemeester, J., Kumar,P., Møller, E., Nord, S., Wedge, DC., Peterson, A., Mathiesen, RR., Fjelldal, R., Zamani Esteki, M., Theunis K., Fernandez Gallardo, E., Grundstad, J., Borgen J., Baumbusch LO., Børresen-Dale, AL., White, KP., Kristensen, VN., Van Loo P., Voet, T., Naume, B. (2016)  Tracing the origin of disseminated tumor cells in breast cancer using single-cell sequencing. Genome Biology. 17 (1), art.nr. 10.1186/s13059-016-1109-7, 250. PMID: 27931250

 

Finalet Ferreiro, J., Morscio J., Dierickx, D., Vandenberghe, P., Gheysens, O., Verhoef, G., Zamani Esteki, M., Tousseyn, T., Wlodarska, I. (2015). EBV-Positive and EBV-Negative Posttransplant Diffuse Large B-Cell Lymphomas have Distinct Genomic and Transcriptomic Features. (2016). American Journal of Transplantation, 16 (2), art.nr. 10.1111/ajt.13558, 414-25.

Voet, T., Kumar, P., Van Loo, P., Cooke, S., Marshall, J., Lin, M., Zamani Esteki, M., Van der Aa, N., Mateiu, L., McBride, D., Bignell, G., McLaren, S., Teague, J., Butler, A., Raine, K., Stebbings, L., Quail, M., D'Hooghe, T., Moreau, Y., Futreal, P., Stratton, M., Vermeesch, J., Campbell, P. (2013). Single-cell paired-end genome sequencing reveals structural variation per cell cycle. Nucleic Acids Research, 41 (12), 6119-6138. doi: 10.1093/nar/gkt345. PMID: 23630320

Van der Aa, N., Cheng, J., Mateiu, L., Zamani Esteki, M., Kumar, P., Dimitriadou, E., Vanneste, E., Moreau, Y., Vermeesch, J.,Voet, T. (2013). Genome-wide copy number profiling of single cells in S-phase reveals DNA-replication domains. Nucleic Acids Research, 41 (6), art.nr. e66. doi: 10.1093/nar/gks1352.  PMID: 23295674

Robberecht, C., Voet, T., Zamani Esteki, M., Nowakowska, B., Vermeesch, J. (2013). Non-allelic homologous recombination between retrotransposable elements is a driver of de novo unbalanced translocations. Genome Research, 23 (3), 411-418. doi: 10.1101/gr.145631.112. PMID: 23212949

 Patents 

 

Zamani Esteki, M., Vermeesh, J.R., Voet, T. (2015) Haplotyping and copy number typing by polymorphic variant allele frequencies. ZL913096 - PCT/EP2014/068315 - WO/2015/028576

 

Vermeesh, J.R., Voet, T., Zamani Esteki, M.  (2011) Methods for haplotyping single cells. ZL910050 -PCT/EP2011/060211 - WO/2011/157846

Book chapters 

 

Dimitriadou, E., Zamani Esteki, M., Vermeesch, J. (2015). Copy Number Variation Analysis by Array Analysis of Single Cells Following Whole Genome Amplification. Methods in Molecular Biology, 1347, art.nr. 10.1007/978-1-4939-2990-0_14, 197-219.

*Kumar, P., *Zamani Esteki, M., *Van der Aa, N., Voet, T. (2013). How to analyse a single blastomere? Application of whole-genome technologies: micro-arrays and next generation sequencing. In: Sermon K., Viville S. (Eds.), Textbook of Human Reproductive Genetics, Cambridge University Press.

*Joint first author