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Evidence for human microRNA-offset RNAs in small RNA sequencing data.
Langenberger D, Bermudez-Santana C, Hertel J, Hoffmann S, Khaitovich P, Stadler PF. Langenberger D, et al. Among authors: stadler pf. Bioinformatics. 2009 Sep 15;25(18):2298-301. doi: 10.1093/bioinformatics/btp419. Epub 2009 Jul 6. Bioinformatics. 2009. PMID: 19584066
Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis.
Dalloul RA, Long JA, Zimin AV, Aslam L, Beal K, Blomberg Le Ann, Bouffard P, Burt DW, Crasta O, Crooijmans RP, Cooper K, Coulombe RA, De S, Delany ME, Dodgson JB, Dong JJ, Evans C, Frederickson KM, Flicek P, Florea L, Folkerts O, Groenen MA, Harkins TT, Herrero J, Hoffmann S, Megens HJ, Jiang A, de Jong P, Kaiser P, Kim H, Kim KW, Kim S, Langenberger D, Lee MK, Lee T, Mane S, Marcais G, Marz M, McElroy AP, Modise T, Nefedov M, Notredame C, Paton IR, Payne WS, Pertea G, Prickett D, Puiu D, Qioa D, Raineri E, Ruffier M, Salzberg SL, Schatz MC, Scheuring C, Schmidt CJ, Schroeder S, Searle SM, Smith EJ, Smith J, Sonstegard TS, Stadler PF, Tafer H, Tu ZJ, Van Tassell CP, Vilella AJ, Williams KP, Yorke JA, Zhang L, Zhang HB, Zhang X, Zhang Y, Reed KM. Dalloul RA, et al. Among authors: stadler pf. PLoS Biol. 2010 Sep 7;8(9):e1000475. doi: 10.1371/journal.pbio.1000475. PLoS Biol. 2010. PMID: 20838655 Free PMC article.
Fast local fragment chaining using sum-of-pair gap costs.
Otto C, Hoffmann S, Gorodkin J, Stadler PF. Otto C, et al. Among authors: stadler pf. Algorithms Mol Biol. 2011 Mar 18;6:4. doi: 10.1186/1748-7188-6-4. Algorithms Mol Biol. 2011. PMID: 21418573 Free PMC article.
deepBlockAlign: a tool for aligning RNA-seq profiles of read block patterns.
Langenberger D, Pundhir S, Ekstrøm CT, Stadler PF, Hoffmann S, Gorodkin J. Langenberger D, et al. Among authors: stadler pf. Bioinformatics. 2012 Jan 1;28(1):17-24. doi: 10.1093/bioinformatics/btr598. Epub 2011 Nov 3. Bioinformatics. 2012. PMID: 22053076 Free PMC article.
594 results