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OpenAlex Citation Counts

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OpenAlex is a bibliographic catalogue of scientific papers, authors and institutions accessible in open access mode, named after the Library of Alexandria. It's citation coverage is excellent and I hope you will find utility in this listing of citing articles!

If you click the article title, you'll navigate to the article, as listed in CrossRef. If you click the Open Access links, you'll navigate to the "best Open Access location". Clicking the citation count will open this listing for that article. Lastly at the bottom of the page, you'll find basic pagination options.

Requested Article:

Themisto: a scalable colored k-mer index for sensitive pseudoalignment against hundreds of thousands of bacterial genomes
Jarno Alanko, Jaakko Vuohtoniemi, Tommi Mäklin, et al.
Bioinformatics (2023) Vol. 39, Iss. Supplement_1, pp. i260-i269
Open Access | Times Cited: 31

Showing 1-25 of 31 citing articles:

Fulgor: a fast and compact k-mer index for large-scale matching and color queries
Jason Fan, Jamshed Khan, Noor Singh, et al.
Algorithms for Molecular Biology (2024) Vol. 19, Iss. 1
Open Access | Times Cited: 20
Extremely fast construction and querying of compacted and colored de Bruijn graphs with GGCAT
Andrea Cracco, Alexandru I. Tomescu
Genome Research (2023)
Open Access | Times Cited: 30
Indexing and searching petabase-scale nucleotide resources
Sergey Shiryev, Richa Agarwala
Nature Methods (2024) Vol. 21, Iss. 6, pp. 994-1002
Closed Access | Times Cited: 9
Seamless, rapid and accurate analyses of outbreak genomic data using Split K-mer Analysis (SKA)
Romain Derelle, Johanna von Wachsmann, Tommi Mäklin, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 7
Indexing All Life’s Known Biological Sequences
Mikhail Karasikov, Harun Mustafa, Daniel Danciu, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2020)
Open Access | Times Cited: 44
Centrifuger: lossless compression of microbial genomes for efficient and accurate metagenomic sequence classification
Li Song, Ben Langmead
Genome biology (2024) Vol. 25, Iss. 1
Open Access | Times Cited: 5
Meta-colored Compacted de Bruijn Graphs
Giulio Ermanno Pibiri, Jason Fan, Rob Patro
Lecture notes in computer science (2024), pp. 131-146
Closed Access | Times Cited: 5
Genetic strategies for sex-biased persistence of gut microbes across human life
Chiara Tarracchini, Giulia Alessandri, Federico Fontana, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 12
Indexing and real-time user-friendly queries in terabyte-sized complex genomic datasets with kmindex and ORA
Téo Lemane, Nolan Lezzoche, Julien Lecubin, et al.
Nature Computational Science (2024) Vol. 4, Iss. 2, pp. 104-109
Open Access | Times Cited: 4
Seamless, rapid, and accurate analyses of outbreak genomic data using splitk-mer analysis
Romain Derelle, Johanna von Wachsmann, Tommi Mäklin, et al.
Genome Research (2024) Vol. 34, Iss. 10, pp. 1661-1673
Open Access | Times Cited: 4
Within-host pneumococcal serotype 3 genetic diversity and evolution during a one-year prolonged carriage episode in a healthy adult
Lusako Sibale, Stephanie W. Lo, Newton Kalata, et al.
Research Square (Research Square) (2025)
Closed Access
Conway-Bromage-Lyndon (CBL): an exact, dynamic representation ofk-mer sets
Igor Martayan, Bastien Cazaux, Antoine Limasset, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 3
Conway–Bromage–Lyndon (CBL): an exact, dynamic representation of k-mer sets
Igor Martayan, Bastien Cazaux, Antoine Limasset, et al.
Bioinformatics (2024) Vol. 40, Iss. Supplement_1, pp. i48-i57
Open Access | Times Cited: 3
LexicMap: efficient sequence alignment against millions of prokaryotic genomes
Wei Shen, Zamin Iqbal
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 3
Deep sequencing of Escherichia coli exposes colonisation diversity and impact of antibiotics in Punjab, Pakistan
Tamim Khawaja, Tommi Mäklin, Teemu Kallonen, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 2
Scaling laws of plasmids across the microbial tree of life
Rohan Maddamsetti, Maggie L. Wilson, Hye-In Son, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 2
Fulgor: A fast and compactk-mer index for large-scale matching and color queries
Jason Fan, Noor Singh, Jamshed Khan, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 4
Function-Assigned Masked Superstrings as a Versatile and Compact Data Type fork-Mer Sets
Ondřej Sladký, Pavel Veselý, Karel Břinda
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 1
FroM Superstring to Indexing: a space-efficient index for unconstrained k-mer sets using the Masked Burrows-Wheeler Transform (MBWT)
Ondřej Sladký, Pavel Veselý, Karel Břinda
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 1
Pan-genome de Bruijn graph using the bidirectional FM-index
Lore Depuydt, Luca Renders, Thomas Abeel, et al.
BMC Bioinformatics (2023) Vol. 24, Iss. 1
Open Access | Times Cited: 3
Graph-based Nanopore Adaptive Sampling with GNASTy enables sensitive pneumococcal serotyping in complex samples
Samuel Horsfield, Basil C.T. Fok, Yuhan Fu, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access
Compression algorithm for colored de Bruijn graphs
Amatur Rahman, Yoann Dufresne, Paul Medvedev
Algorithms for Molecular Biology (2024) Vol. 19, Iss. 1
Open Access
Where the patterns are: repetition-aware compression for colored de Bruijn graphs
Alessio Campanelli, Giulio Ermanno Pibiri, Jason Fan, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Closed Access
Pan-pathogen deep sequencing of nosocomial bacterial pathogens in Italy in spring 2020: a prospective cohort study
Harry A. Thorpe, Maiju Pesonen, Marta Corbella, et al.
The Lancet Microbe (2024) Vol. 5, Iss. 10, pp. 100890-100890
Open Access
Where the Patterns Are: Repetition-Aware Compression for Colored de Bruijn Graphs*
Alessio Campanelli, Giulio Ermanno Pibiri, Jason Fan, et al.
Journal of Computational Biology (2024) Vol. 31, Iss. 10, pp. 1022-1044
Closed Access
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