Tarbier, M., Mackowiak, S.D., Sekar, V., Bonath, F., Yapar, E., Fromm, B., Faridani, O.R., Biryukova, I. and Friedländer, M.R., 2024. "Landscape of microRNA and target expression variation and covariation in single mouse embryonic stem cells"bioRxiv, pp.2024-03.    March
Fromm, B., & Sorger, T. (2023). "Rapid adaptation of cellular metabolic rate to the MicroRNA complements of mammals and its relevance to the evolution of endothermy"iScience, 27(2), 108740.                                          February                
Yu, D., Ren, Y., Uesaka, M. et al. "Hagfish genome elucidates vertebrate whole-genome duplication events and their evolutionary consequences". Nat Ecol Evol 8, 519–535 (2024).    January             


Marmol-Sanchez, E., Fromm, B., Oskolkov, N., Pochon, Z., Kalogeropoulos, P., Eriksson, E., Biryukova, I., Sekar, V., Ersmark, E., Andersson, B. and Dalen, L., 2023. "Historical RNA expression profiles from the extinct Tasmanian tiger"Genome Research, July    
Umu, S. U., Paynter, V. M., Trondsen, H., Buschmann, T., Rounge, T. B., Peterson, K. J., & Fromm, B. (2023). "Accurate microRNA annotation of animal genomes using trained covariance models of curated microRNA complements in MirMachine". Cell Genomics 3, 100348. June
Jenike, A. E.Jenike, K. M.Peterson, K. J.Fromm, B.*, & Halushka, M. K.* (2023). "Direct observation of the evolution of cell-type specific microRNA expression signatures supports the hematopoietic origin model of endothelial cells.Evolution & Development1– 14 May                     
Høye, E., Dagenborg, V.J., Torgunrud, A., Lund-Andersen, C., Fretland, Å.A., Lorenz, S., Edwin, B., Hovig, E., Fromm, B., Inderberg, E.M. and Greiff, V., 2023. "T cell receptor repertoire sequencing reveals chemotherapy-driven clonal expansion in colorectal liver metastases". GigaScience12, p.giad032.



Zolotarov, G., Fromm, B., Legnini, I., Ayoub, S., Polese, G., Maselli, V., Chabot, P. J., Vinther, J., Styfhals, R., Seuntjens, E., Cosmo, A. D., Peterson, K. J., & Rajewsky, N. (2022). "MicroRNAs are deeply linked to the emergence of the complex octopus brain". Science Advances, (47), eadd9938. November
Fromm, B., Patil, AH & Halushka, MK, 2022. Comment on " A Novel Circulating MicroRNA for the Detection of Acute Myocarditis ". The New England Journal of Medicine387 (13), pp.1240-1240.  September        

Aparicio-Puerta, E., Gómez-Martín, C., Giannoukakos, S., Medina, J. M., Scheepbouwer, C., García-Moreno, A., Carmona-Saez, P., Fromm, B., Pegtel, M., Keller, A., Marchal, J. A., & Hackenberg, M. (2022)." sRNAbench and sRNAtoolbox 2022 update: accurate miRNA and sncRNA profiling for model and non-model organisms ". Nucleic Acids Research


Schiffer, P. H., Natsidis, P., Leite, D. J., Robertson, H., Lapraz, F., Marlétaz, F., Fromm, B., Baudry, L., Simpson, F., Høye, E., Zakrzewski, A.-C., Kapli, P., Hoff, K. J., Mueller, S., Marbouty, M., Marlow, H., Copley, R. R., Koszul, R., Sarkies, P., & Telford, M. J. (2022)." The slowly evolving genome of the xenacoelomorph worm Xenoturbella bocki ". In bioRxiv (p. 2022.06.24.497508). 


Fromm, B., Zhong, X., Tarbier, M., Friedländer, M. R., & Hackenberg, M. (2022)."The Limits of Human MicroRNA Annotation Have Been Met". RNA , 28(6), 781–785.


Høye, E., Fromm, B., Böttger, P. H. M., Domanska, D., Torgunrud, A., Lund-Andersen, C., Abrahamsen, T. W., Fretland, Å. A., Dagenborg, V. J., Lorenz, S., Edwin, B., Hovig, E., & Flatmark, K. (2022). "A Comprehensive Framework for Analysis of MicroRNA Sequencing Data in Metastatic Colorectal Cancer" NAR Cancer, 4(1), zcab051.


Fromm, B., Høye, E., Domanska, D., Zhong, X., Aparicio-Puerta, E., Ovchinnikov, V., Umu, S.U., Chabot, P.J., Kang, W., Aslanzadeh, M. and Tarbier, M., 2022. "MirGeneDB 2.1: toward a complete sampling of all major animal phyla". Nucleic Acids Research50(D1), pp.D204-D210.


Peterson, K. J., Beavan, A., Chabot, P. J., McPeek, M. A., Pisani, D., Fromm, B., & Simakov, O. (2022).“MicroRNAs as Indicators into the Causes and Consequences of Whole-Genome Duplication Events”. Molecular Biology and Evolution, 39(1). 



Patil, A. H., Halushka, M. K., & Fromm, B. (2021)." No evidence of paralogous loci or new bona fide microRNAs in telomere to telomere (T2T) genomic data ". In bioRxiv (p. 2021.12.09.471935). 


Kang, W., Fromm, B., Houben, A. J., Høye, E., Bezdan, D., Arnan, C., Thrane, K., Asp, M., Johnson, R., Biryukova, I., & Friedländer, M. R. (2021). “ MapToCleave: High-Throughput Profiling of MicroRNA Biogenesis in Living Cells ” . Cell Reports, 37(7), 110015.