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Sugar Metabolism of the First Thermophilic Planctomycete Thermogutta terrifontis: Comparative Genomic and Transcriptomic Approaches.

Elcheninov AG, Menzel P, Gudbergsdottir SR, Slesarev AI, Kadnikov VV, Krogh A, Bonch-Osmolovskaya EA, Peng X, Kublanov IV.

Front Microbiol. 2017 Nov 2;8:2140. doi: 10.3389/fmicb.2017.02140. eCollection 2017.


Highly accessible AU-rich regions in 3' untranslated regions are hotspots for binding of regulatory factors.

Plass M, Rasmussen SH, Krogh A.

PLoS Comput Biol. 2017 Apr 14;13(4):e1005460. doi: 10.1371/journal.pcbi.1005460. eCollection 2017 Apr.


RNA Sequencing of Trigeminal Ganglia in Rattus Norvegicus after Glyceryl Trinitrate Infusion with Relevance to Migraine.

Hougaard Pedersen S, Maretty L, Ramachandran R, Sibbesen JA, Yakimov V, Elgaard-Christensen R, Hansen TF, Krogh A, Olesen J, Jansen-Olesen I.

PLoS One. 2016 May 23;11(5):e0155039. doi: 10.1371/journal.pone.0155039. eCollection 2016.


Fast and sensitive taxonomic classification for metagenomics with Kaiju.

Menzel P, Ng KL, Krogh A.

Nat Commun. 2016 Apr 13;7:11257. doi: 10.1038/ncomms11257.


Assessment of headache characteristics in a general adolescent population: a comparison between retrospective interviews and prospective diary recordings.

Krogh AB, Larsson B, Salvesen Ø, Linde M.

J Headache Pain. 2016;17:14. doi: 10.1186/s10194-016-0602-4. Epub 2016 Feb 24.


Transcriptome dynamics of the microRNA inhibition response.

Wen J, Leucci E, Vendramin R, Kauppinen S, Lund AH, Krogh A, Parker BJ.

Nucleic Acids Res. 2016 May 19;44(9):4486. doi: 10.1093/nar/gkw091. Epub 2016 Feb 9. No abstract available.


Discovery, genotyping and characterization of structural variation and novel sequence at single nucleotide resolution from de novo genome assemblies on a population scale.

Liu S, Huang S, Rao J, Ye W; Genome Denmark ConsortiumII, Krogh A, Wang J.

Gigascience. 2015 Dec 24;4:64. doi: 10.1186/s13742-015-0103-4. eCollection 2015.


Transcriptome dynamics of the microRNA inhibition response.

Wen J, Leucci E, Vendramin R, Kauppinen S, Lund AH, Krogh A, Parker BJ.

Nucleic Acids Res. 2015 Jul 27;43(13):6207-21. doi: 10.1093/nar/gkv603. Epub 2015 Jun 18. Erratum in: Nucleic Acids Res. 2016 May 19;44(9):4486.


Drosophila Imp iCLIP identifies an RNA assemblage coordinating F-actin formation.

Hansen HT, Rasmussen SH, Adolph SK, Plass M, Krogh A, Sanford J, Nielsen FC, Christiansen J.

Genome Biol. 2015 Jun 9;16:123. doi: 10.1186/s13059-015-0687-0.


Cancers of unknown primary origin (CUP) are characterized by chromosomal instability (CIN) compared to metastasis of know origin.

Vikeså J, Møller AK, Kaczkowski B, Borup R, Winther O, Henao R, Krogh A, Perell K, Jensen F, Daugaard G, Nielsen FC.

BMC Cancer. 2015 Mar 19;15:151. doi: 10.1186/s12885-015-1128-x.


SHAPE Selection (SHAPES) enrich for RNA structure signal in SHAPE sequencing-based probing data.

Poulsen LD, Kielpinski LJ, Salama SR, Krogh A, Vinther J.

RNA. 2015 May;21(5):1042-52. doi: 10.1261/rna.047068.114. Epub 2015 Mar 24.


Rapid detection of structural variation in a human genome using nanochannel-based genome mapping technology.

Cao H, Hastie AR, Cao D, Lam ET, Sun Y, Huang H, Liu X, Lin L, Andrews W, Chan S, Huang S, Tong X, Requa M, Anantharaman T, Krogh A, Yang H, Cao H, Xu X.

Gigascience. 2014 Dec 30;3(1):34. doi: 10.1186/2047-217X-3-34. eCollection 2014.


Novel variation and de novo mutation rates in population-wide de novo assembled Danish trios.

Besenbacher S, Liu S, Izarzugaza JM, Grove J, Belling K, Bork-Jensen J, Huang S, Als TD, Li S, Yadav R, Rubio-García A, Lescai F, Demontis D, Rao J, Ye W, Mailund T, Friborg RM, Pedersen CN, Xu R, Sun J, Liu H, Wang O, Cheng X, Flores D, Rydza E, Rapacki K, Damm Sørensen J, Chmura P, Westergaard D, Dworzynski P, Sørensen TI, Lund O, Hansen T, Xu X, Li N, Bolund L, Pedersen O, Eiberg H, Krogh A, Børglum AD, Brunak S, Kristiansen K, Schierup MH, Wang J, Gupta R, Villesen P, Rasmussen S.

Nat Commun. 2015 Jan 19;6:5969. doi: 10.1038/ncomms6969.


Bayesian transcriptome assembly.

Maretty L, Sibbesen JA, Krogh A.

Genome Biol. 2014;15(10):501.


SNPest: a probabilistic graphical model for estimating genotypes.

Lindgreen S, Krogh A, Pedersen JS.

BMC Res Notes. 2014 Oct 7;7:698. doi: 10.1186/1756-0500-7-698.


Adaptations to a subterranean environment and longevity revealed by the analysis of mole rat genomes.

Fang X, Seim I, Huang Z, Gerashchenko MV, Xiong Z, Turanov AA, Zhu Y, Lobanov AV, Fan D, Yim SH, Yao X, Ma S, Yang L, Lee SG, Kim EB, Bronson RT, Šumbera R, Buffenstein R, Zhou X, Krogh A, Park TJ, Zhang G, Wang J, Gladyshev VN.

Cell Rep. 2014 Sep 11;8(5):1354-64. doi: 10.1016/j.celrep.2014.07.030. Epub 2014 Aug 28.


Alternative polyadenylation of tumor suppressor genes in small intestinal neuroendocrine tumors.

Rehfeld A, Plass M, Døssing K, Knigge U, Kjær A, Krogh A, Friis-Hansen L.

Front Endocrinol (Lausanne). 2014 Apr 15;5:46. doi: 10.3389/fendo.2014.00046. eCollection 2014.


Adaptable probabilistic mapping of short reads using position specific scoring matrices.

Kerpedjiev P, Frellsen J, Lindgreen S, Krogh A.

BMC Bioinformatics. 2014 Apr 9;15:100. doi: 10.1186/1471-2105-15-100.


Whole-genome sequencing of cultivated and wild peppers provides insights into Capsicum domestication and specialization.

Qin C, Yu C, Shen Y, Fang X, Chen L, Min J, Cheng J, Zhao S, Xu M, Luo Y, Yang Y, Wu Z, Mao L, Wu H, Ling-Hu C, Zhou H, Lin H, González-Morales S, Trejo-Saavedra DL, Tian H, Tang X, Zhao M, Huang Z, Zhou A, Yao X, Cui J, Li W, Chen Z, Feng Y, Niu Y, Bi S, Yang X, Li W, Cai H, Luo X, Montes-Hernández S, Leyva-González MA, Xiong Z, He X, Bai L, Tan S, Tang X, Liu D, Liu J, Zhang S, Chen M, Zhang L, Zhang L, Zhang Y, Liao W, Zhang Y, Wang M, Lv X, Wen B, Liu H, Luan H, Zhang Y, Yang S, Wang X, Xu J, Li X, Li S, Wang J, Palloix A, Bosland PW, Li Y, Krogh A, Rivera-Bustamante RF, Herrera-Estrella L, Yin Y, Yu J, Hu K, Zhang Z.

Proc Natl Acad Sci U S A. 2014 Apr 8;111(14):5135-40. doi: 10.1073/pnas.1400975111. Epub 2014 Mar 3.


Exercise induced hypercoagulability, increased von Willebrand factor and decreased thyroid hormone concentrations in sled dogs.

Krogh AK, Legind P, Kjelgaard-Hansen M, Bochsen L, Kristensen AT.

Acta Vet Scand. 2014 Feb 7;56:11. doi: 10.1186/1751-0147-56-11.

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