K. A. Palkina et al., “A hybrid pathway for self-sustained luminescence,” Science Advances, vol. 10, no. 10. American Association for the Advancement of Science, 2024.
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M. A. Pak et al., “Using AlphaFold to predict the impact of single mutations on protein stability and function,” PLoS ONE, vol. 18, no. 3. Public Library of Science, 2023.
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K. R. B. Gert et al., “Divergent molecular signatures in fish Bouncer proteins define cross-fertilization boundaries,” Nature Communications, vol. 14. Springer Nature, 2023.
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W. Wolfsberger et al., “Scientists without borders: Lessons from Ukraine,” GigaScience, vol. 12. Oxford Academic, 2023.
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S. Rella, Y. Kulikova, A. Minnegalieva, and F. Kondrashov, “Complex vaccination strategies prevent the emergence of vaccine resistance,” in European Journal of Public Health, 2023, vol. 33, no. Supplement_2.
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S. Knyazev et al., “Unlocking capacities of genomics for the COVID-19 response and future pandemics,” Nature Methods, vol. 19, no. 4. Springer Nature, pp. 374–380, 2022.
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PMID: 35396471

N. Dranenko, M. Tutukina, M. Gelfand, F. Kondrashov, and O. Bochkareva, “Chromosome-encoded IpaH ubiquitin ligases indicate non-human enteroinvasive Escherichia,” Scientific Reports, vol. 12. Springer Nature, 2022.
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L. Gonzalez Somermeyer et al., “Heterogeneity of the GFP fitness landscape and data-driven protein design,” eLife, vol. 11. eLife Sciences Publications, 2022.
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R. J. Saona Urmeneta, F. Kondrashov, and K. Khudiakova, “Relation between the number of peaks and the number of reciprocal sign epistatic interactions,” Bulletin of Mathematical Biology, vol. 84, no. 8. Springer Nature, 2022.
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K. Chhugani et al., “Remote opportunities for scholars in Ukraine,” Science, vol. 378, no. 6626. American Association for the Advancement of Science, pp. 1285–1286, 2022.
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S. A. Slavskii et al., “The limits of normal approximation for adult height,” European Journal of Human Genetics, vol. 29, no. 7. Springer Nature, pp. 1082–1091, 2021.
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PMID: 33664501

S. Rella, Y. A. Kulikova, E. T. Dermitzakis, and F. Kondrashov, “Rates of SARS-CoV-2 transmission and vaccination impact the fate of vaccine-resistant strains,” Scientific Reports, vol. 11, no. 1. Springer Nature, 2021.
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M. Maslov et al., Core Project Proceedings. IST Austria, 2020.
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L. A. Uroshlev et al., “A method for identification of the methylation level of CpG islands from NGS data,” Scientific Reports, vol. 10. Springer Nature, 2020.
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L. A. Esteban et al., “HypercubeME: Two hundred million combinatorially complete datasets from a single experiment,” Bioinformatics, vol. 36, no. 6. Oxford Academic, pp. 1960–1962, 2020.
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T. Mitiouchkina et al., “Plants with genetically encoded autoluminescence,” Nature Biotechnology, vol. 38. Springer Nature, pp. 944–946, 2020.
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V. Pokusaeva et al., “An experimental assay of the interactions of amino acids from orthologous sequences shaping a complex fitness landscape,” PLoS Genetics, vol. 15, no. 4. Public Library of Science, 2019.
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V. Pokusaeva et al., “A statistical summary of segment libraries and sequencing results.” Public Library of Science, 2019.
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V. Pokusaeva et al., “A statistical summary of segment libraries and sequencing results.” Public Library of Science, 2019.
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V. Pokusaeva et al., “Multiple alignment of Hi orthologues.” Public Library of Science, 2019.
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E. Garriga et al., “Large multiple sequence alignments with a root-to-leaf regressive method,” Nature Biotechnology, vol. 37, no. 12. Springer Nature, pp. 1466–1470, 2019.
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E. Garriga et al., “Fast and accurate large multiple sequence alignments with a root-to-leaf regressive method.” Zenodo, 2018.
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A. A. Kotlobay et al., “Genetically encodable bioluminescent system from fungi,” Proceedings of the National Academy of Sciences of the United States of America, vol. 115, no. 50. National Academy of Sciences, pp. 12728–12732, 2018.
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DOI: 10.1073/pnas.1803615115
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L. Zapata, O. Pich, L. Serrano, F. Kondrashov, S. Ossowski, and M. Schaefer, “Negative selection in tumor genome evolution acts on essential cellular functions and the immunopeptidome,” Genome Biology, vol. 19. BioMed Central, 2018.
LibreCat: https://research-explorer.ista.ac.at/record/279
DOI: 10.1186/s13059-018-1434-0
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L. Zapata, O. Pich, L. Serrano, F. Kondrashov, S. Ossowski, and M. Schaefer, “Additional file 2: Of negative selection in tumor genome evolution acts on essential cellular functions and the immunopeptidome.” Springer Nature, 2018.
LibreCat: https://research-explorer.ista.ac.at/record/9812
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L. Zapata, O. Pich, L. Serrano, F. Kondrashov, S. Ossowski, and M. Schaefer, “Additional file 1: Of negative selection in tumor genome evolution acts on essential cellular functions and the immunopeptidome.” Springer Nature, 2018.
LibreCat: https://research-explorer.ista.ac.at/record/9811
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D. R. Usmanova et al., “Self-consistency test reveals systematic bias in programs for prediction change of stability upon mutation,” Bioinformatics, vol. 34, no. 21. Oxford University Press , pp. 3653–3658, 2018.
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K. Sarkisyan et al., “Local fitness landscape of the green fluorescent protein,” Nature, vol. 533. Nature Publishing Group, pp. 397–401, 2016.
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K. Howe et al., “Structure and evolutionary history of a large family of NLR proteins in the zebrafish,” Open Biology, vol. 6, no. 4. Royal Society, The, 2016.
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A. Saint Léger et al., “Saturation of recognition elements blocks evolution of new tRNA identities,” Science advances, vol. 2, no. 4. American Association for the Advancement of Science, pp. e1501860–e1501860, 2016.
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E. Rivkina et al., “Metagenomic analyses of the late Pleistocene permafrost - Additional tools for reconstruction of environmental conditions,” Biogeosciences, vol. 13, no. 7. European Geosciences Union, pp. 2207–2219, 2016.
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DOI: 10.5194/bg-13-2207-2016

D. Usmanova, L. Ferretti, I. Povolotskaya, P. Vlasov, and F. Kondrashov, “A model of substitution trajectories in sequence space and long-term protein evolution,” Molecular Biology and Evolution, vol. 32, no. 2. Oxford University Press, pp. 542–554, 2015.
LibreCat: https://research-explorer.ista.ac.at/record/848
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O. Arkhipova et al., “Recent origin of the methacrylate redox system in Geobacter sulfurreducens AM-1 through horizontal gene transfer,” PLoS One, vol. 10, no. 5. Public Library of Science, 2015.
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C. Kretz et al., “Massively parallel enzyme kinetics reveals the substrate recognition landscape of the metalloprotease ADAMT,” PNAS, vol. 112, no. 30. National Academy of Sciences, pp. 9328–9333, 2015.
LibreCat: https://research-explorer.ista.ac.at/record/866
DOI: 10.1073/pnas.1511328112

D. Kondrashov and F. Kondrashov, “Topological features of rugged fitness landscapes in sequence space,” Trends in Genetics, vol. 31, no. 1. Elsevier, pp. 24–33, 2015.
LibreCat: https://research-explorer.ista.ac.at/record/886
DOI: 10.1016/j.tig.2014.09.009

O. Rosello and F. Kondrashov, “Long-Term asymmetrical acceleration of protein evolution after gene duplication,” Genome Biology and Evolution, vol. 6, no. 8. Oxford University Press, pp. 1949–1955, 2014.
LibreCat: https://research-explorer.ista.ac.at/record/852
DOI: 10.1093/gbe/evu159

K. Pougach et al., “Duplication of a promiscuous transcription factor drives the emergence of a new regulatory network,” Nature Communications, vol. 5. Nature Publishing Group, 2014.
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L. Moroz et al., “The ctenophore genome and the evolutionary origins of neural systems,” Nature, vol. 510, no. 7503. Nature Publishing Group, pp. 109–114, 2014.
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A. Koval et al., “Anti leprosy drug clofazimine inhibits growth of triple-negative breast cancer cells via inhibition of canonical Wnt signaling,” Biochemical Pharmacology, vol. 87, no. 4. Elsevier, pp. 571–578, 2014.
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V. Seplyarskiy et al., “Crossing-over in a hypervariable species preferentially occurs in regions of high local similarity,” Molecular Biology and Evolution, vol. 31, no. 11. Oxford University Press, pp. 3016–3025, 2014.
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DOI: 10.1093/molbev/msu242

D. Ivankov, A. Finkelstein, and F. Kondrashov, “A structural perspective of compensatory evolution,” Current Opinion in Structural Biology, vol. 26, no. 1. Elsevier, pp. 104–112, 2014.
LibreCat: https://research-explorer.ista.ac.at/record/892
DOI: 10.1016/j.sbi.2014.05.004

M. Breen, C. Kemena, P. Vlasov, C. Notredame, and F. Kondrashov, “Breen et al. reply,” Nature, vol. 497, no. 7451. Nature Publishing Group, pp. –, 2013.
LibreCat: https://research-explorer.ista.ac.at/record/899
DOI: 10.1038/nature12220

R. Derelle et al., “Color differences among feral pigeons (Columba livia) are not attributable to sequence variation in the coding region of the melanocortin-1 receptor gene MR,” BMC Research Notes, vol. 6, no. 1. BioMed Central, 2013.
LibreCat: https://research-explorer.ista.ac.at/record/894
DOI: 10.1186/1756-0500-6-310

V. Arkhipov, T. Noah, S. Koschkar, and F. Kondrashov, “Birds of Mys Shmidta, north Chukotka, Russia,” Forktail, no. 29. Oriental Bird Club, pp. 25–30, 2013.
LibreCat: https://research-explorer.ista.ac.at/record/905

O. Soylemez and F. Kondrashov, “Estimating the rate of irreversibility in protein evolution,” Genome Biology and Evolution, vol. 4, no. 12. Oxford University Press, pp. 1213–1222, 2012.
LibreCat: https://research-explorer.ista.ac.at/record/846
DOI: 10.1093/gbe/evs096

I. Povolotskaya, F. Kondrashov, A. Ledda, and P. Vlasov, “Stop codons in bacteria are not selectively equivalent,” Biology Direct, vol. 7. BioMed Central, 2012.
LibreCat: https://research-explorer.ista.ac.at/record/858
DOI: 10.1186/1745-6150-7-30

M. Breen, C. Kemena, P. Vlasov, C. Notredame, and F. Kondrashov, “Epistasis as the primary factor in molecular evolution,” Nature, vol. 490, no. 7421. Nature Publishing Group, pp. 535–538, 2012.
LibreCat: https://research-explorer.ista.ac.at/record/900
DOI: 10.1038/nature11510

F. Kondrashov, “Gene duplication as a mechanism of genomic adaptation to a changing environment,” Proceedings of the Royal Society of London Series B Biological Sciences, vol. 279, no. 1749. Royal Society, The, pp. 5048–5057, 2012.
LibreCat: https://research-explorer.ista.ac.at/record/887
DOI: 10.1098/rspb.2012.1108

E. Koblik et al., “Acrocephalus orinus: A case of Mistaken identity,” PLoS One, vol. 6, no. 4. Public Library of Science, 2011.
LibreCat: https://research-explorer.ista.ac.at/record/890
DOI: 10.1371/journal.pone.0017716

F. Kondrashov, “Gene Dosage and Duplication,” in Evolution after Gene Duplication, Wiley-Blackwell, 2011, pp. 57–76.
LibreCat: https://research-explorer.ista.ac.at/record/881
DOI: 10.1002/9780470619902.ch4

H. Innan and F. Kondrashov, “The evolution of gene duplications: Classifying and distinguishing between models,” Nature Reviews Genetics, vol. 11, no. 2. Nature Publishing Group, pp. 97–108, 2010.
LibreCat: https://research-explorer.ista.ac.at/record/891
DOI: 10.1038/nrg2689

M. Breen and F. Kondrashov, “Mitochondrial pathogenic mutations are population-specific,” Biology Direct, vol. 5. BioMed Central, 2010.
LibreCat: https://research-explorer.ista.ac.at/record/901
DOI: 10.1186/1745-6150-5-68

I. Povolotskaya and F. Kondrashov, “Sequence space and the ongoing expansion of the protein universe,” Nature, vol. 465, no. 7300. Nature Publishing Group, pp. 922–926, 2010.
LibreCat: https://research-explorer.ista.ac.at/record/857
DOI: 10.1038/nature09105

M. Meer, A. Kondrashov, Y. Artzy Randrup, and F. Kondrashov, “Compensatory evolution in mitochondrial tRNAs navigates valleys of low fitness,” Nature, vol. 464, no. 7286. Nature Publishing Group, pp. 279–282, 2010.
LibreCat: https://research-explorer.ista.ac.at/record/862
DOI: 10.1038/nature08691

F. Kondrashov and A. Kondrashov, “Measurements of spontaneous rates of mutations in the recent past and the near future,” Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences, vol. 365, no. 1544. Royal Society, The, pp. 1169–1176, 2010.
LibreCat: https://research-explorer.ista.ac.at/record/872
DOI: 10.1098/rstb.2009.0286

A. Kondrashov, I. Povolotskaya, D. Ivankov, and F. Kondrashov, “Rate of sequence divergence under constant selection,” Biology Direct, vol. 5. BioMed Central, 2010.
LibreCat: https://research-explorer.ista.ac.at/record/884
DOI: 10.1186/1745-6150-5-5

E. Alkalaeva et al., “Translation termination in pyrrolysine-utilizing archaea,” FEBS Letters, vol. 583, no. 21. Elsevier, pp. 3455–3460, 2009.
LibreCat: https://research-explorer.ista.ac.at/record/908
DOI: 10.1016/j.febslet.2009.09.044

S. Schmidt, A. Gerasimova, F. Kondrashov, I. Adzuhbei, A. Kondrashov, and S. Sunyaev, “Hypermutable non-synonymous sites are under stronger negative selection,” PLoS Genetics, vol. 4, no. 11. Public Library of Science, 2008.
LibreCat: https://research-explorer.ista.ac.at/record/844
DOI: 10.1371/journal.pgen.1000281

Z. Donaldson et al., “Evolution of a behavior-linked microsatellite-containing element in the 5 flanking region of the primate AVPA gene,” BMC Evolutionary Biology, vol. 8, no. 1. BioMed Central, 2008.
LibreCat: https://research-explorer.ista.ac.at/record/895
DOI: 10.1186/1471-2148-8-180

R. Assis, A. Kondrashov, E. Koonin, and F. Kondrashov, “Nested genes and increasing organizational complexity of metazoan genomes,” Trends in Genetics, vol. 24, no. 10. Elsevier, pp. 475–478, 2008.
LibreCat: https://research-explorer.ista.ac.at/record/907
DOI: 10.1016/j.tig.2008.08.003

O. Plotnikova, F. Kondrashov, P. Vlasov, A. Grigorenko, E. Ginter, and E. Rogaev, “Conversion and compensatory evolution of the ;3-crystallin genes and identification of a cataractogenic mutation that reverses the sequence of the human CRYGD gene to an ancestral state,” American Journal of Human Genetics, vol. 81, no. 1. Cell Press, pp. 32–43, 2007.
LibreCat: https://research-explorer.ista.ac.at/record/860
DOI: 10.1086/518616

F. Kondrashov, T. Gurbich, and P. Vlasov, “Selection for functional uniformity of tuf duplicates in ;3-proteobacteria,” Trends in Genetics, vol. 23, no. 5. Elsevier, pp. 215–218, 2007.
LibreCat: https://research-explorer.ista.ac.at/record/879
DOI: 10.1016/j.tig.2007.03.002

G. Bazykin, F. Kondrashov, M. Brudno, A. Poliakov, I. Dubchak, and A. Kondrashov, “Extensive parallelism in protein evolution,” Biology Direct, vol. 2. BioMed Central, 2007.
LibreCat: https://research-explorer.ista.ac.at/record/904
DOI: 10.1186/1745-6150-2-20

K. Popadin, L. Mamirova, and F. Kondrashov, “A manually curated database of tetrapod mitochondrially encoded tRNA sequences and secondary structures,” BMC Bioinformatics, vol. 8. BioMed Central, 2007.
LibreCat: https://research-explorer.ista.ac.at/record/861
DOI: 10.1186/1471-2105-8-441

E. Rogaev et al., “Complete mitochondrial genome and phylogeny of pleistocene mammoth Mammuthus primigenius,” PLoS Biology, vol. 4, no. 3. Public Library of Science, pp. 0403–0410, 2006.
LibreCat: https://research-explorer.ista.ac.at/record/854
DOI: 10.1371/journal.pbio.0040073

F. Kondrashov, E. Koonin, I. Morgunov, T. Finogenova, and M. Kondrashova, “Evolution of glyoxylate cycle enzymes in Metazoa Evidence of multiple horizontal transfer events and pseudogene formation,” Biology Direct, vol. 1. BioMed Central, 2006.
LibreCat: https://research-explorer.ista.ac.at/record/868
DOI: 10.1186/1745-6150-1-31

F. Kondrashov and A. Kondrashov, “Role of selection in fixation of gene duplications,” Journal of Theoretical Biology, vol. 239, no. 2. Elsevier, pp. 141–151, 2006.
LibreCat: https://research-explorer.ista.ac.at/record/873
DOI: 10.1016/j.jtbi.2005.08.033

F. Kondrashov, A. Ogurtsov, and A. Kondrashov, “Selection in favor of nucleotides G and C diversifies evolution rates and levels of polymorphism at mammalian synonymous sites,” Journal of Theoretical Biology, vol. 240, no. 4. Elsevier, pp. 616–626, 2006.
LibreCat: https://research-explorer.ista.ac.at/record/869
DOI: 10.1016/j.jtbi.2005.10.020

V. Babenko, M. Basu, F. Kondrashov, I. Rogozin, and E. Koonin, “Signs of positive selection of somatic mutations in human cancers detected by EST sequence analysis,” BMC Cancer, vol. 6. BioMed Central, 2006.
LibreCat: https://research-explorer.ista.ac.at/record/903
DOI: 10.1186/1471-2407-6-36

L. Yampolsky, F. Kondrashov, and A. Kondrashov, “Distribution of the strength of selection against amino acid replacements in human proteins,” Human Molecular Genetics, vol. 14, no. 21. Oxford University Press, pp. 3191–3201, 2005.
LibreCat: https://research-explorer.ista.ac.at/record/843
DOI: 10.1093/hmg/ddi350

F. Kondrashov, “The analysis of monomer sequences in protein and tRNA and the manifestation of the compensation of pathogenic deviations in their evolution,” Biofizika, vol. 50, no. 3. Pleiades Publishing, pp. 389–395, 2005.
LibreCat: https://research-explorer.ista.ac.at/record/877
PMID: 15977826

F. Kondrashov, “In search of the limits of evolution,” Nature Genetics, vol. 37, no. 1. Nature Publishing Group, pp. 9–10, 2005.
LibreCat: https://research-explorer.ista.ac.at/record/878
DOI: 10.1038/ng0105-9

F. Kondrashov, “Prediction of pathogenic mutations in mitochondrially encoded human tRNAs,” Human Molecular Genetics, vol. 14, no. 16. Oxford University Press, pp. 2415–2419, 2005.
LibreCat: https://research-explorer.ista.ac.at/record/882
DOI: 10.1093/hmg/ddi243

F. Kondrashov, “The convergent evolution of the secondary structure of mitochondrial cysteine tRNA in the nine-banded armadillo Dasypus novemcinctus,” Biofizika, vol. 50, no. 3. Pleiades Publishing, pp. 396–403, 2005.
LibreCat: https://research-explorer.ista.ac.at/record/880
PMID: 15977827

I. Jordan et al., “A universal trend of amino acid gain and loss in protein evolution,” Nature, vol. 433, no. 7026. Nature Publishing Group, pp. 633–638, 2005.
LibreCat: https://research-explorer.ista.ac.at/record/893
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A. Panchenko, F. Kondrashov, and S. Bryant, “Prediction of functional sites by analysis of sequence and structure conservation,” Protein Science, vol. 13, no. 4. Wiley-Blackwell, pp. 884–892, 2004.
LibreCat: https://research-explorer.ista.ac.at/record/864
DOI: 10.1110/ps.03465504

F. Kondrashov, A. Ogurtsov, and A. Kondrashov, “Bioinformatical assay of human gene morbidity,” Nucleic Acids Research, vol. 32, no. 5. Oxford University Press, pp. 1731–1737, 2004.
LibreCat: https://research-explorer.ista.ac.at/record/870
DOI: 10.1093/nar/gkh330

F. Kondrashov and E. Koonin, “A common framework for understanding the origin of genetic dominance and evolutionary fates of gene duplications,” Trends in Genetics, vol. 20, no. 7. Elsevier, pp. 287–291, 2004.
LibreCat: https://research-explorer.ista.ac.at/record/875
DOI: 10.1016/j.tig.2004.05.001

A. Kern and F. Kondrashov, “Mechanisms and convergence of compensatory evolution in mammalian mitochondrial tRNAs,” Nature Genetics, vol. 36, no. 11. Nature Publishing Group, pp. 1207–1212, 2004.
LibreCat: https://research-explorer.ista.ac.at/record/889
DOI: 10.1038/ng1451

G. Bazykin, F. Kondrashov, A. Ogurtsov, S. Sunyaev, and A. Kondrashov, “Positive selection at sites of multiple amino acid replacements since rat-mouse divergence,” Nature, vol. 429, no. 6991. Nature Publishing Group, pp. 558–562, 2004.
LibreCat: https://research-explorer.ista.ac.at/record/898
DOI: 10.1038/nature02601

C. Castillo Davis, F. Kondrashov, D. Hartl, and R. Kulathinal, “The functional genomic distribution of protein divergence in two animal phyla: Coevolution, genomic conflict, and constraint,” Genome Research, vol. 14, no. 5. Cold Spring Harbor Laboratory Press, pp. 802–811, 2004.
LibreCat: https://research-explorer.ista.ac.at/record/902
DOI: 10.1101/gr.2195604

S. Sunyaev, F. Kondrashov, P. Bork, and V. Ramensky, “Impact of selection, mutation rate and genetic drift on human genetic variation,” Human Molecular Genetics, vol. 12, no. 24. Oxford University Press, pp. 3325–3330, 2003.
LibreCat: https://research-explorer.ista.ac.at/record/847
DOI: 10.1093/hmg/ddg359

F. Kondrashov and E. Koonin, “Evolution of alternative splicing: Deletions, insertions and origin of functional parts of proteins from intron sequences,” Trends in Genetics, vol. 19, no. 3. Elsevier, pp. 115–119, 2003.
LibreCat: https://research-explorer.ista.ac.at/record/876
DOI: 10.1016/S0168-9525(02)00029-X

A. Kondrashov, S. Sunyaev, and F. Kondrashov, “Dobzhansky-Muller incompatibilities in protein evolution,” PNAS, vol. 99, no. 23. National Academy of Sciences, pp. 14878–14883, 2002.
LibreCat: https://research-explorer.ista.ac.at/record/885
DOI: 10.1073/pnas.232565499
PMID: 12403824

C. Castillo Davis, S. Mekhedov, D. Hartl, E. Koonin, and F. Kondrashov, “Selection for short introns in highly expressed genes,” Nature Genetics, vol. 31, no. 4. Nature Publishing Group, pp. 415–418, 2002.
LibreCat: https://research-explorer.ista.ac.at/record/897
DOI: 10.1038/ng940
PMID: 12134150

F. Kondrashov, I. Rogozin, Y. Wolf, and E. Koonin, “Selection in the evolution of gene duplications ,” Genome Biology, vol. 3, no. 2. BioMed Central, 2002.
LibreCat: https://research-explorer.ista.ac.at/record/871
DOI: 10.1186/gb-2002-3-2-research0008
PMID: 11864370

A. Perelygin, F. Kondrashov, I. Rogozin, and M. Brinton, “Evolution of the mouse polyubiquitin C gene,” Journal of Molecular Evolution, vol. 55, no. 2. Springer, pp. 202–210, 2002.
LibreCat: https://research-explorer.ista.ac.at/record/859
DOI: 10.1007/s00239-002-2318-0
PMID: 12107596

I. Jordan, F. Kondrashov, I. Rogozin, R. Tatusov, Y. Wolf, and E. Koonin, “Constant relative rate of protein evolution and detection of functional diversification among bacterial, archaeal and eukaryotic proteins ,” Genome Biology, vol. 2, no. 12. BioMed Central, 2001.
LibreCat: https://research-explorer.ista.ac.at/record/888
DOI: 10.1186/gb-2001-2-12-research0053
PMID: 11790256

I. Rogozin, A. Kochetov, F. Kondrashov, E. Koonin, and L. Milanesi, “Presence of ATG triplets in 5 untranslated regions of eukaryotic cDNAs correlates with a ’weak’context of the start codon,” Bioinformatics, vol. 17, no. 10. Oxford University Press, pp. 890–900, 2001.
LibreCat: https://research-explorer.ista.ac.at/record/855
DOI: 10.1093/bioinformatics/17.10.890
PMID: 11673233

F. Kondrashov and A. Kondrashov, “Multidimensional epistasis and the disadvantage of sex,” PNAS, vol. 98, no. 21. National Academy of Sciences, pp. 12089–12092, 2001.
LibreCat: https://research-explorer.ista.ac.at/record/874
DOI: 10.1073/pnas.211214298
PMID: 11593020

F. Kondrashov and E. Koonin, “Origin of alternative splicing by tandem exon duplication,” Human Molecular Genetics, vol. 10, no. 23. Oxford University Press, pp. 2661–2669, 2001.
LibreCat: https://research-explorer.ista.ac.at/record/867
DOI: 10.1093/hmg/10.23.2661
PMID: 11726553

I. Rogozin, F. Kondrashov, and G. Glazko, “Use of mutation spectra analysis software,” Human Mutation, vol. 17, no. 2. Wiley-Blackwell, pp. 83–102, 2001.
LibreCat: https://research-explorer.ista.ac.at/record/851
DOI: 10.1002/1098-1004(200102)17:2&lt;83::AID-HUMU1&gt;3.0.CO;2-E
PMID: 11180592

Y. Wolf, F. Kondrashov, and E. Koonin, “Footprints of primordial introns on the eukaryotic genome: still no clear traces ,” Trends in Genetics, vol. 17, no. 9. Elsevier, pp. 499–501, 2001.
LibreCat: https://research-explorer.ista.ac.at/record/841
DOI: 10.1016/S0168-9525(01)02376-9
PMID: 11721681

Y. Wolf, F. Kondrashov, and E. Koonin, “No footprints of primordial introns in a eukaryotic genome,” Trends in Genetics, vol. 16, no. 8. Elsevier, pp. 333–334, 2000.
LibreCat: https://research-explorer.ista.ac.at/record/842
DOI: 10.1016/S0168-9525(00)02059-X
PMID: 10904260 

A. Kondrashov and F. Kondrashov, “Interactions among quantitative traits in the course of sympatric speciation,” Nature, vol. 400, no. 6742. Nature Publishing Group, pp. 351–354, 1999.
LibreCat: https://research-explorer.ista.ac.at/record/883
DOI: 10.1038/22514
PMID: 10432111