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Items: 5

1.

Repeat-aware evaluation of scaffolding tools.

Mandric I, Knyazev S, Zelikovsky A.

Bioinformatics. 2018 Aug 1;34(15):2530-2537. doi: 10.1093/bioinformatics/bty131.

PMID:
29547882
2.

QUENTIN: reconstruction of disease transmissions from viral quasispecies genomic data.

Skums P, Zelikovsky A, Singh R, Gussler W, Dimitrova Z, Knyazev S, Mandric I, Ramachandran S, Campo D, Jha D, Bunimovich L, Costenbader E, Sexton C, O'Connor S, Xia GL, Khudyakov Y.

Bioinformatics. 2018 Jan 1;34(1):163-170. doi: 10.1093/bioinformatics/btx402.

3.

Fast bootstrapping-based estimation of confidence intervals of expression levels and differential expression from RNA-Seq data.

Mandric I, Temate-Tiagueu Y, Shcheglova T, Al Seesi S, Zelikovsky A, Mandoiu II.

Bioinformatics. 2017 Oct 15;33(20):3302-3304. doi: 10.1093/bioinformatics/btx365.

PMID:
28605502
4.

Inferring metabolic pathway activity levels from RNA-Seq data.

Temate-Tiagueu Y, Seesi SA, Mathew M, Mandric I, Rodriguez A, Bean K, Cheng Q, Glebova O, M─ândoiu I, Lopanik NB, Zelikovsky A.

BMC Genomics. 2016 Aug 31;17 Suppl 5:542. doi: 10.1186/s12864-016-2823-y.

5.

ScaffMatch: scaffolding algorithm based on maximum weight matching.

Mandric I, Zelikovsky A.

Bioinformatics. 2015 Aug 15;31(16):2632-8. doi: 10.1093/bioinformatics/btv211. Epub 2015 Apr 17.

PMID:
25890305

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