Alexandre Lomsadze

20.2k total citations · 9 hit papers
27 papers, 10.8k citations indexed

About

Alexandre Lomsadze is a scholar working on Molecular Biology, Plant Science and Ecology. According to data from OpenAlex, Alexandre Lomsadze has authored 27 papers receiving a total of 10.8k indexed citations (citations by other indexed papers that have themselves been cited), including 25 papers in Molecular Biology, 5 papers in Plant Science and 4 papers in Ecology. Recurrent topics in Alexandre Lomsadze's work include Genomics and Phylogenetic Studies (21 papers), RNA and protein synthesis mechanisms (15 papers) and Machine Learning in Bioinformatics (9 papers). Alexandre Lomsadze is often cited by papers focused on Genomics and Phylogenetic Studies (21 papers), RNA and protein synthesis mechanisms (15 papers) and Machine Learning in Bioinformatics (9 papers). Alexandre Lomsadze collaborates with scholars based in United States, Russia and Germany. Alexandre Lomsadze's co-authors include Mark Borodovsky, Vyacheslav Chetvernin, Leonid Zaslavsky, Eric P. Nawrocki, Michael DiCuccio, Tatiana Tatusova, James Ostell, Azat Badretdin, Kim D. Pruitt and Katharina J. Hoff and has published in prestigious journals such as Nucleic Acids Research, SHILAP Revista de lepidopterología and Bioinformatics.

In The Last Decade

Alexandre Lomsadze

26 papers receiving 10.7k citations

Hit Papers

5 papers align trajectories

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

NCBI prokaryotic genome annotation pipeline

2016 4.6k citations Tatiana Tatusova, Michael DiCuccio et al. Nucleic Acids Research profile →
Ab initio gene identification in metagenomic sequences

2010 1.3k citations Wenhan Zhu, Alexandre Lomsadze et al. Nucleic Acids Research profile →
BRAKER2: automatic eukaryotic genome annotation with GeneMark-EP+ and AUGUSTUS supported by a protein database

2021 803 citations Tomáš Brůna, Katharina J. Hoff et al. NAR Genomics and Bioinformatics profile →
BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS

2015 717 citations Katharina J. Hoff, Simone Lange et al. Bioinformatics profile →
Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training

2008 689 citations Alexandre Lomsadze, Yury O. Chernoff et al. Genome Research profile →
Gene identification in novel eukaryotic genomes by self-training algorithm

2005 640 citations Alexandre Lomsadze Nucleic Acids Research profile →
Whole-Genome Annotation with BRAKER

2019 443 citations Katharina J. Hoff, Alexandre Lomsadze et al. Methods in molecular biology profile →
GeneMark-EP+: eukaryotic gene prediction with self-training in the space of genes and proteins

2020 315 citations Tomáš Brůna, Alexandre Lomsadze et al. NAR Genomics and Bioinformatics profile →
BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS, and TSEBRA

2024 172 citations Lars Gabriel, Tomáš Brůna et al. Genome Research profile →

Peers

Countries citing papers authored by Alexandre Lomsadze

Since Specialization

Citations

This map shows the geographic impact of Alexandre Lomsadze's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Alexandre Lomsadze with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Alexandre Lomsadze more than expected).

Fields of papers citing papers by Alexandre Lomsadze

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Alexandre Lomsadze. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Alexandre Lomsadze. The network helps show where Alexandre Lomsadze may publish in the future.

Co-authorship network of co-authors of Alexandre Lomsadze

This figure shows the co-authorship network connecting the top 25 collaborators of Alexandre Lomsadze. A scholar is included among the top collaborators of Alexandre Lomsadze based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Alexandre Lomsadze. Alexandre Lomsadze is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

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20 of 20 papers shown

#	Work	Indexed citations
1	GeneMark-ETP significantly improves the accuracy of automatic annotation of large eukaryotic genomes 2024 ·Genome Research ·Tomáš Brůna, Alexandre Lomsadze, Mark Borodovsky	35
2	BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS, and TSEBRA breakdown → 2024 ·Genome Research ·Lars Gabriel, Tomáš Brůna, Katharina J. Hoff, Matthis Ebel, Alexandre Lomsadze, Mark Borodovsky, Mario Stanke	172
3	MgCod: Gene Prediction in Phage Genomes with Multiple Genetic Codes 2023 ·Journal of Molecular Biology ·(unknown), Alexandre Lomsadze, Mark Borodovsky	7
4	BRAKER2: automatic eukaryotic genome annotation with GeneMark-EP+ and AUGUSTUS supported by a protein database breakdown → 2021 ·NAR Genomics and Bioinformatics ·Tomáš Brůna, Katharina J. Hoff, Alexandre Lomsadze, Mario Stanke, Mark Borodovsky	803
5	StartLink and StartLink+: Prediction of Gene Starts in Prokaryotic Genomes 2021 ·SHILAP Revista de lepidopterología ·(unknown), Alexandre Lomsadze, Mark Borodovsky	1
6	GeneMark-EP+: eukaryotic gene prediction with self-training in the space of genes and proteins breakdown → 2020 ·NAR Genomics and Bioinformatics ·Tomáš Brůna, Alexandre Lomsadze, Mark Borodovsky	315
7	Development of a workflow for identification of nuclear genotyping markers for Cyclospora cayetanensis 2020 ·Parasite ·(unknown), Alexandre Lomsadze, Subin Park, Fernanda S. Nascimento, Joel Barratt, Michael J. Arrowood, (unknown), Eldin Talundzic, Mark Borodovsky, Yvonne Qvarnström	13
8	Bioinformatics Pipeline for Human Papillomavirus Short Read Genomic Sequences Classification Using Support Vector Machine 2020 ·Viruses ·Alexandre Lomsadze, Tengguo Li, Mangalathu S. Rajeevan, Elizabeth R. Unger, Mark Borodovsky	5
9	Supporting data for "The genome sequence and transcriptome of Potentilla micrantha and their comparison to Fragaria vesca (the woodland strawberry)" 2018 ·CINECA IRIS Institutial research information system (University of Pisa) ·Matteo Buti, Marco Moretto, Elena Barghini, Flavia Mascagni, Lucia Natali, Matteo Brilli, Alexandre Lomsadze, Paolo Sonego, L. Giongo, (unknown), (unknown), (unknown), Nada Šurbanovski, (unknown), J. A. Ward, (unknown), (unknown), Andrea Cavallini, Daniel James Sargent	0
10	Modeling leaderless transcription and atypical genes results in more accurate gene prediction in prokaryotes 2018 ·Genome Research ·Alexandre Lomsadze, (unknown), Shiyuyun Tang, Mark Borodovsky	123
11	NCBI prokaryotic genome annotation pipeline breakdown → 2016 ·Nucleic Acids Research ·Tatiana Tatusova, Michael DiCuccio, Azat Badretdin, Vyacheslav Chetvernin, Eric P. Nawrocki, Leonid Zaslavsky, Alexandre Lomsadze, Kim D. Pruitt, Mark Borodovsky, James Ostell	4619
12	BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS breakdown → 2015 ·Bioinformatics ·Katharina J. Hoff, Simone Lange, Alexandre Lomsadze, Mark Borodovsky, Mario Stanke	717
13	Identification of protein coding regions in RNA transcripts 2015 ·Nucleic Acids Research ·Shiyuyun Tang, Alexandre Lomsadze, Mark Borodovsky	304
14	The Genome Sequence of the North-European Cucumber (Cucumis sativus L.) Unravels Evolutionary Adaptation Mechanisms in Plants 2011 ·PLoS ONE ·Rafał Wóycicki, (unknown), Piotr Gawroński, (unknown), Alexandre Lomsadze, Magdalena Pawełkowicz, (unknown), (unknown), Wojciech Pląder, (unknown), (unknown), (unknown), K. Niemirowicz‐Szczytt, Grzegorz Bartoszewski, Norikazu Tagashira, Yoshikazu Hoshi, Mark Borodovsky, Stanisław Karpiński, S. Malepszy, Zbigniew Przybecki	95
15	Ab initio gene identification in metagenomic sequences breakdown → 2010 ·Nucleic Acids Research ·Wenhan Zhu, Alexandre Lomsadze, Mark Borodovsky	1252
16	Frameshift detection in prokaryotic genomic sequences 2009 ·International Journal of Bioinformatics Research and Applications ·Andrey Kislyuk, Alexandre Lomsadze, Alla Lapidus, Mark Borodovsky	11
17	In Sffamily Identification of Genes in Bacteriophage DNA 2009 ·Methods in molecular biology ·Andrew M. Kropinski, Mark Borodovsky, Tim Carver, Ana Cerdeño-Tárraga, Aaron E. Darling, Alexandre Lomsadze, Padmanabhan Mahadevan, Paul Stothard, Donald Seto, Gary Van Domselaar, David S. Wishart	29
18	Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training breakdown → 2008 ·Genome Research ·(unknown), Alexandre Lomsadze, Yury O. Chernoff, Mark Borodovsky	689
19	Gene identification in novel eukaryotic genomes by self-training algorithm breakdown → 2005 ·Nucleic Acids Research ·Alexandre Lomsadze	640
20	Identification of Proteins Associated with Murine Cytomegalovirus Virions 2004 ·Journal of Virology ·Lisa Kattenhorn, Ryan E. Mills, Markus Wagner, Alexandre Lomsadze, Vsevolod J. Makeev, Mark Borodovsky, Hidde L. Ploegh, Benedikt M. Kessler	121

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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