Kingsford C - Search Results

1

Assessing the benefits of using mate-pairs to resolve repeats in de novo short-read prokaryotic assemblies.

Wetzel J, Kingsford C, Pop M. Wetzel J, et al. Among authors: kingsford c. BMC Bioinformatics. 2011 Apr 13;12:95. doi: 10.1186/1471-2105-12-95. BMC Bioinformatics. 2011. PMID: 21486487 Free PMC article.

2

Detecting m6A RNA modification from nanopore sequencing using a semi-supervised learning framework.

Teng H, Stoiber M, Bar-Joseph Z, Kingsford C. Teng H, et al. Among authors: kingsford c. bioRxiv [Preprint]. 2024 Jan 7:2024.01.06.574484. doi: 10.1101/2024.01.06.574484. bioRxiv. 2024. Update in: Genome Res. 2024 Nov 20;34(11):1987-1999. doi: 10.1101/gr.278960.124 PMID: 38260359 Free PMC article. Updated. Preprint.

3

Revisiting the complexity of and algorithms for the graph traversal edit distance and its variants.

Qiu Y, Shen Y, Kingsford C. Qiu Y, et al. Among authors: kingsford c. Algorithms Mol Biol. 2024 Apr 29;19(1):17. doi: 10.1186/s13015-024-00262-6. Algorithms Mol Biol. 2024. PMID: 38679703 Free PMC article.

4

Assembly complexity of prokaryotic genomes using short reads.

Kingsford C, Schatz MC, Pop M. Kingsford C, et al. BMC Bioinformatics. 2010 Jan 12;11:21. doi: 10.1186/1471-2105-11-21. BMC Bioinformatics. 2010. PMID: 20064276 Free PMC article.

5

Alignment and clustering of phylogenetic markers--implications for microbial diversity studies.

White JR, Navlakha S, Nagarajan N, Ghodsi MR, Kingsford C, Pop M. White JR, et al. Among authors: kingsford c. BMC Bioinformatics. 2010 Mar 24;11:152. doi: 10.1186/1471-2105-11-152. BMC Bioinformatics. 2010. PMID: 20334679 Free PMC article.

6

Finding biologically accurate clusterings in hierarchical tree decompositions using the variation of information.

Navlakha S, White J, Nagarajan N, Pop M, Kingsford C. Navlakha S, et al. Among authors: kingsford c. J Comput Biol. 2010 Mar;17(3):503-16. doi: 10.1089/cmb.2009.0173. J Comput Biol. 2010. PMID: 20377460

7

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers.

Marçais G, Kingsford C. Marçais G, et al. Among authors: kingsford c. Bioinformatics. 2011 Mar 15;27(6):764-70. doi: 10.1093/bioinformatics/btr011. Epub 2011 Jan 7. Bioinformatics. 2011. PMID: 21217122 Free PMC article.

8

Graph rigidity reveals well-constrained regions of chromosome conformation embeddings.

Duggal G, Kingsford C. Duggal G, et al. Among authors: kingsford c. BMC Bioinformatics. 2012 Sep 21;13:241. doi: 10.1186/1471-2105-13-241. BMC Bioinformatics. 2012. PMID: 22998471 Free PMC article.

9

Reference-based compression of short-read sequences using path encoding.

Kingsford C, Patro R. Kingsford C, et al. Bioinformatics. 2015 Jun 15;31(12):1920-8. doi: 10.1093/bioinformatics/btv071. Epub 2015 Feb 2. Bioinformatics. 2015. PMID: 25649622 Free PMC article.

10

Data-dependent bucketing improves reference-free compression of sequencing reads.

Patro R, Kingsford C. Patro R, et al. Among authors: kingsford c. Bioinformatics. 2015 Sep 1;31(17):2770-7. doi: 10.1093/bioinformatics/btv248. Epub 2015 Apr 24. Bioinformatics. 2015. PMID: 25910696 Free PMC article.

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