My Publications


*first author publications

Formenti, G., (...), Urban, L., (...)., Bálint, M. (2022) The era of reference genomes in conservation genomics. Trends in Ecology & Evolution 37, 3: 197-202.

Cheng, H., (...), Urban, L., (...)., Li, H. (2022) Robust haplotype-resolved assembly of diploid individuals without parental data. Nature Biotechnology.

Urban, L.*, (…), Stammnitz, M. R. (2021) Freshwater monitoring with nanopore sequencing. eLife 10:e61504.

Oberle, A.* & Urban, L.*, Falch, S., Nagai, Y., Ulm, P. A., Hengstschläger, M., Feichtinger, M. (2021) 16S long-read nanopore sequencing is feasible and reliable for endometrial microbiome analysis. Reproductive Biomedicine Online, doi:

Macey, J. R., (…), Urban, L., (…), Gemmell, N. G. (2021) Two deeply divergent co-existing mitochondrial genomes in the Tuatara. Nature Communications Biology 4, 116.

Edgecombe, J., Urban, L., Todd, E. V., Gemmell, N. J. (2021) Might gene duplication and neofunctionalization contribute to the sexual lability observed in fish? Sexual Development 15, 122-133

Pearman, W., Urban, L., Alexander, A. (2022) Commonly used Hardy-Weinberg equilibrium filtering schemes impact population structure inferences using RADseq data. Molecular Ecology Resources


Preprint: Jeunen, G.* & Urban, L.*, (…), Gemmell, N. (2020) Marine environmental DNA (eDNA) for biodiversity assessments: a one-to-one comparison between eDNA and baited remote underwater video (BRUV) surveys. Authorea; under review at Molecular Ecology Resources.


PCAWG Transcriptome Core Group (incl. Urban, L.*), (...), Zhang, Z. (2020): Genomic basis for RNA alterations revealed by whole-genome analyses of 27 cancer types. Nature 578, 129–136.

The ICGC/TCGA PCAWG Consortium (incl. Urban, L.) (2020): Pan-cancer analysis of whole genomes. Nature 578, 82–93.


Bailey, M. H., (…), Urban, L., (…), PCAWG Consortium (2020) Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. Nature Communications 11:4748.


Li, C. H., (…), Urban, L., (…), PCAWG Consortium (2020) Sex differences in oncogenic mutational processes. Nature Communications 11:4330.


Urban, L.*, (…), Mueller, T. (2020): covRNA: discovering covariate associations in large-scale gene expression data. BMC Res Notes 13, 92.


Feichtinger, M.* & Urban, L.*, (…), Oberle, A. (2020): Oxford Nanopore Sequenzierung zur Bestimmung des Endometrium-Mikrobioms. Geburtshilfe und Frauenheilkunde 80(06). doi:10.1055/s-0040-1713190.


Linker, S.* & Urban, L.*, (…), Bonder, M. J. (2019): Combined single cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity. Genome Biology 20:30.

Avsec, Z., (…), Urban, L., (…), Gagneur, J. (2019): The Kipoi repository accelerates community exchange and reuse of predictive models for genomics. Nature Biotechnology 37, 592-600.


Calabrese, C.* & Lehmann, K. V.* & Urban, L.*, (...), Stegle O. (2017) Assessing the Gene Regulatory Landscape in 1,188 Human Tumors. bioRxiv preprint.

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