In general, the SARM project has been very active in disseminating the results of the research activities by publishing in international peer-reviewed scientific journals and giving oral and poster presentation at seminars and conferences.

Indeed, over the first two years of the project, 28 oral and poster presentations were given/prepared and 11 articles published in peer-reviewed journals. To this can be added 11 articles and >35 oral/poster presentations and several press releases/public media coverages in Year 3. In year 4, if counting only peer-reviewed scientific publications, the total was 11 articles, to which can be added 10s of oral/poster presentations and press releases/public media coverages.

Additionally, based on SARM final outputs, twelve (12) additional manuscripts have been prepared, which will be published in 2017.

MOST IMPORTANT SARM-PUBLISHED PAPERS

1)     Aghajanova, Lusine, Signe Altmäe, Sergo Kasvandik, Andres Salumets, Anneli Stavreus-Evers, and Linda C. Giudice. 2016. “Stanniocalcin-1 Expression in Normal Human Endometrium and Dysregulation in Endometriosis.” Fertility and Sterility 106 (3): 681–691.e1. doi: 10.1016/j.fertnstert.2016.05.023.

2)     Altmae, S., F. J. Esteban, A. Stavreus-Evers, C. Simon, L. Giudice, B. A. Lessey, J. A. Horcajadas, et al. 2014. “Guidelines for the Design, Analysis and Interpretation of ‘Omics’ Data: Focus on Human Endometrium.” Human Reproduction Update 20 (1): 12–28. doi: 10.1093/humupd/dmt048.

3)     Boggavarapu, Nageswara Rao, Sujata Lalitkumar, Vijay Joshua, Sergo Kasvandik, Andres Salumets, Parameswaran Grace Lalitkumar, and Kristina Gemzell-Danielsson. 2016. “Compartmentalized Gene Expression Profiling of Receptive Endometrium Reveals Progesterone Regulated ENPP3 Is Differentially Expressed and Secreted in Glycosylated Form.” Scientific Reports 6 (September): 33811. doi: 10.1038/srep33811.

4)     Destouni, Aspasia, Masoud Zamani Esteki, Maaike Catteeuw, Olga Tšuiko, Eftychia Dimitriadou, Katrien Smits, Ants Kurg, et al. 2016. “Zygotes Segregate Entire Parental Genomes in Distinct Blastomere Lineages Causing Cleavage-Stage Chimerism and Mixoploidy.” Genome Research 26 (5): 567–78. doi: 10.1101/gr.200527.115.

5)     Dimitriadou, Eftychia, Cindy Melotte, Sophie Debrock, Masoud Zamani Esteki, Kris Dierickx, Thierry Voet, Koen Devriendt, et al. 2017. “Principles Guiding Embryo Selection Following Genome-Wide Haplotyping of Preimplantation Embryos.” Human Reproduction, February, 1–11. doi: 10.1093/humrep/dex011.

6)     Dimitriadou, Eftychia, Niels Van der Aa, Jiqiu Cheng, Thierry Voet, and Joris R Vermeesch. 2014. “Single Cell Segmental Aneuploidy Detection Is Compromised by S Phase.” Molecular Cytogenetics 7 (1): 46. doi: 10.1186/1755-8166-7-46.

7)     Jouhilahti, Eeva-Mari, Elo Madissoon, Liselotte Vesterlund, Virpi Töhönen, Kaarel Krjutškov, Alvaro Plaza Reyes, Sophie Petropoulos, et al. 2016. “The Human PRD-like Homeobox Gene LEUTX Has a Central Role in Embryo Genome Activation.” Development 143 (19): 3459–69. doi: 10.1242/dev.134510.

8)     Kasvandik, Sergo, Külli Samuel, Maire Peters, Margus Eimre, Nadežda Peet, Anne Mari Roost, Lee Padrik, Kalju Paju, Lauri Peil, and Andres Salumets. 2016. “Deep Quantitative Proteomics Reveals Extensive Metabolic Reprogramming and Cancer-Like Changes of Ectopic Endometriotic Stromal Cells.” Journal of Proteome Research 15 (2): 572–84. doi: 10.1021/acs.jproteome.5b00965.

9)     Krjutškov, K., S. Katayama, M. Saare, M. Vera-Rodriguez, D. Lubenets, K. Samuel, T. Laisk-Podar, et al. 2016. “Single-Cell Transcriptome Analysis of Endometrial Tissue.” Human Reproduction 31 (4): 844–53. doi: 10.1093/humrep/dew008.

10)   Laisk-Podar, Triin, Cecilia M. Lindgren, Maire Peters, Juha S. Tapanainen, Cornelis B. Lambalk, Andres Salumets, and Reedik Mägi. 2016. “Ovarian Physiology and GWAS: Biobanks, Biology, and Beyond.” Trends in Endocrinology & Metabolism 27 (7): 516–28. doi: 10.1016/j.tem.2016.04.011.

11)   Madissoon, Elo, Eeva-Mari Jouhilahti, Liselotte Vesterlund, Virpi Töhönen, Kaarel Krjutškov, Sophie Petropoulous, Elisabet Einarsdottir, et al. 2016. “Characterization and Target Genes of Nine Human PRD-like Homeobox Domain Genes Expressed Exclusively in Early Embryos.” Scientific Reports 6 (July): 28995. doi: 10.1038/srep28995.

12)   Madissoon, Elo, Virpi Töhönen, Liselotte Vesterlund, Shintaro Katayama, Per Unneberg, Jose Inzunza, Outi Hovatta, and Juha Kere. 2014. “Differences in Gene Expression between Mouse and Human for Dynamically Regulated Genes in Early Embryo.” Edited by Berta Alsina. PLoS ONE 9 (8): e102949. doi: 10.1371/journal.pone.0102949.

13)   Ruiz-Alonso, Maria, David Blesa, Patricia Díaz-Gimeno, Eva Gómez, Manuel Fernández-Sánchez, Francisco Carranza, Joan Carrera, Felip Vilella, Antonio Pellicer, and Carlos Simón. 2013. “The Endometrial Receptivity Array for Diagnosis and Personalized Embryo Transfer as a Treatment for Patients with Repeated Implantation Failure.” Fertility and Sterility 100 (3): 818–24. doi: 10.1016/j.fertnstert.2013.05.004.

14)   Saare, Merli, Vijayachitra Modhukur, Marina Suhorutshenko, Balaji Rajashekar, Kadri Rekker, Deniss Sõritsa, Helle Karro, et al. 2016. “The Influence of Menstrual Cycle and Endometriosis on Endometrial Methylome.” Clinical Epigenetics 8 (1): 2. doi: 10.1186/s13148-015-0168-z.

15)   Töhönen, Virpi, Shintaro Katayama, Liselotte Vesterlund, Eeva-Mari Jouhilahti, Mona Sheikhi, Elo Madissoon, Giuditta Filippini-Cattaneo, et al. 2015. “Novel PRD-like Homeodomain Transcription Factors and Retrotransposon Elements in Early Human Development.” Nature Communications 6 (September): 8207. doi: 10.1038/ncomms9207.

16)   Tšuiko, O., M. Nõukas, O. Žilina, K. Hensen, J.S. Tapanainen, R. Mägi, M. Kals, et al. 2016. “Copy Number Variation Analysis Detects Novel Candidate Genes Involved in Follicular Growth and Oocyte Maturation in a Cohort of Premature Ovarian Failure Cases.” Human Reproduction 31 (8): 1913–25. doi: 10.1093/humrep/dew142.

17)   Van der Aa, Niels, Masoud Zamani Esteki, Joris R Vermeesch, and Thierry Voet. 2013. “Preimplantation Genetic Diagnosis Guided by Single-Cell Genomics.” Genome Medicine 5 (8): 71. doi: 10.1186/gm475.

18)   Zamani Esteki, Masoud, Eftychia Dimitriadou, Ligia Mateiu, Cindy Melotte, Niels Van der Aa, Parveen Kumar, Rakhi Das, et al. 2015. “Concurrent Whole-Genome Haplotyping and Copy-Number Profiling of Single Cells.” The American Journal of Human Genetics 96 (6): 894–912. doi:10.1016/j.ajhg.2015.04.011.


SARM MANUSCRIPTS 

Based on SARM output, twelve (12) additional manuscripts have also been prepared, and will be published in 2017.  

1)     Altmäe et al. Manuscript under review in ‘Scientific Reports’.

“Meta-signature of human endometrial receptivity: a meta-analysis and validation study of transcriptomic biomarkers,” Signe Altmäe, Mariann Koel, Urmo Võsa, Priit Adler, Marina Suhorutsenko, Triin Laisk-Podar, Viktroija Kukushkina, Merli Saare, Agne Velthut-Meikas, Kaarel Krjutskov, Lusine Aghajanova, Parameswaran G Lalitkumar, Kristina Gemzell-Danielsson, Linda Giudice, Carlos Simon, Andres Salumets. Scientific Reports, Nature, UK.

2)     Blesa et al. Manuscript preparation in progress.

3)     Kasvandik, Velthut-Meikas et al. Manuscript preparation in progress.

4)     Koel, Krjutškov et al. Manuscript preparation in progress.

5)     Koel, Saare et al. Manuscript preparation in progress.

6)     Org et al. Manuscript preparation in progress.

7)     Peters et al. Manuscript preparation in progress.

8)     Sauk et al. Manuscript ready for peer-review in ‘Bioinformatics’.

9)     Tšuiko et al. Manuscript submitted for peer-review in ‘Science Translational Medicine’.

“In vitro Procedures Exacerbate Chromosome Instability in Cleavage-Stage Embryos”, Olga Tšuiko1,2,3‡, Masoud Zamani Esteki4‡, Maaike Catteeuw5‡, Aspasia Destouni1, Osvaldo Bogado Pascottini5, Urban Besenfelder6, Vitezslav Havlicek6, Katrien Smits5, Ants Kurg7, Andres Salumets2,3, Thomas D’Hooghe8, Thierry Voet4, Ann Van Soom5 & Joris Robert Vermeesch1. Science Translational Medicine, NEJM Group, United States.

10)   Van der Aa et al. Manuscript preparation in progress.

11)   Vignesh-Srinivasan et al. Manuscript preparation in progress.

12)   Zamani Esteki et al. Manuscript under review in ‘Nature Medicine’

All data as of 28 February 2017