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Items: 28

1.

Genetic Variation in Human Gene Regulatory Factors Uncovers Regulatory Roles in Local Adaptation and Disease.

Perdomo-Sabogal Á, Nowick K.

Genome Biol Evol. 2019 Aug 1;11(8):2178-2193. doi: 10.1093/gbe/evz131.

2.

SSS-test: a novel test for detecting positive selection on RNA secondary structure.

Walter Costa MB, Höner Zu Siederdissen C, Dunjić M, Stadler PF, Nowick K.

BMC Bioinformatics. 2019 Mar 21;20(1):151. doi: 10.1186/s12859-019-2711-y.

3.

Divergent evolution in the genomes of closely related lacertids, Lacerta viridis and L. bilineata, and implications for speciation.

Kolora SRR, Weigert A, Saffari A, Kehr S, Walter Costa MB, Spröer C, Indrischek H, Chintalapati M, Lohse K, Doose G, Overmann J, Bunk B, Bleidorn C, Grimm-Seyfarth A, Henle K, Nowick K, Faria R, Stadler PF, Schlegel M.

Gigascience. 2019 Feb 1;8(2). pii: giy160. doi: 10.1093/gigascience/giy160.

4.

wTO: an R package for computing weighted topological overlap and a consensus network with integrated visualization tool.

Gysi DM, Voigt A, Fragoso TM, Almaas E, Nowick K.

BMC Bioinformatics. 2018 Oct 24;19(1):392. doi: 10.1186/s12859-018-2351-7.

5.

Combined Experimental and System-Level Analyses Reveal the Complex Regulatory Network of miR-124 during Human Neurogenesis.

Kutsche LK, Gysi DM, Fallmann J, Lenk K, Petri R, Swiersy A, Klapper SD, Pircs K, Khattak S, Stadler PF, Jakobsson J, Nowick K, Busskamp V.

Cell Syst. 2018 Oct 24;7(4):438-452.e8. doi: 10.1016/j.cels.2018.08.011. Epub 2018 Oct 3.

6.
7.

Temporal ordering of substitutions in RNA evolution: Uncovering the structural evolution of the Human Accelerated Region 1.

Walter Costa MB, Höner Zu Siederdissen C, Tulpan D, Stadler PF, Nowick K.

J Theor Biol. 2018 Feb 7;438:143-150. doi: 10.1016/j.jtbi.2017.11.015. Epub 2017 Nov 23.

8.

A composite network of conserved and tissue specific gene interactions reveals possible genetic interactions in glioma.

Voigt A, Nowick K, Almaas E.

PLoS Comput Biol. 2017 Sep 28;13(9):e1005739. doi: 10.1371/journal.pcbi.1005739. eCollection 2017 Sep.

9.

Erratum to: Unity in defence: honeybee workers exhibit conserved molecular responses to diverse pathogens.

Doublet V, Poeschl Y, Gogol-Döring A, Alaux C, Annoscia D, Aurori C, Barribeau SM, Bedoya-Reina OC, Brown MJ, Bull JC, Flenniken ML, Galbraith DA, Genersch E, Gisder S, Grosse I, Holt HL, Hultmark D, Lattorff HM, Le Conte Y, Manfredini F, McMahon DP, Moritz RF, Nazzi F, Niño EL, Nowick K, van Rij RP, Paxton RJ, Grozinger CM.

BMC Genomics. 2017 Mar 23;18(1):256. doi: 10.1186/s12864-017-3624-7. No abstract available.

10.

Unity in defence: honeybee workers exhibit conserved molecular responses to diverse pathogens.

Doublet V, Poeschl Y, Gogol-Döring A, Alaux C, Annoscia D, Aurori C, Barribeau SM, Bedoya-Reina OC, Brown MJ, Bull JC, Flenniken ML, Galbraith DA, Genersch E, Gisder S, Grosse I, Holt HL, Hultmark D, Lattorff HM, Le Conte Y, Manfredini F, McMahon DP, Moritz RF, Nazzi F, Niño EL, Nowick K, van Rij RP, Paxton RJ, Grozinger CM.

BMC Genomics. 2017 Mar 2;18(1):207. doi: 10.1186/s12864-017-3597-6. Erratum in: BMC Genomics. 2017 Mar 23;18(1):256.

11.

A Consensus Network of Gene Regulatory Factors in the Human Frontal Lobe.

Berto S, Perdomo-Sabogal A, Gerighausen D, Qin J, Nowick K.

Front Genet. 2016 Mar 8;7:31. doi: 10.3389/fgene.2016.00031. eCollection 2016.

12.

Human Lineage-Specific Transcriptional Regulation through GA-Binding Protein Transcription Factor Alpha (GABPa).

Perdomo-Sabogal A, Nowick K, Piccini I, Sudbrak R, Lehrach H, Yaspo ML, Warnatz HJ, Querfurth R.

Mol Biol Evol. 2016 May;33(5):1231-44. doi: 10.1093/molbev/msw007. Epub 2016 Jan 26.

13.

The complete mitochondrial genome of Lacerta bilineata and comparison with its closely related congener L. Viridis.

Kolora SR, Faria R, Weigert A, Schaffer S, Grimm A, Henle K, Sahyoun AH, Stadler PF, Nowick K, Bleidorn C, Schlegel M.

Mitochondrial DNA A DNA Mapp Seq Anal. 2017 Jan;28(1):116-118. doi: 10.3109/19401736.2015.1111349. Epub 2015 Dec 28.

PMID:
26709540
14.

The relativity of biological function.

Laubichler MD, Stadler PF, Prohaska SJ, Nowick K.

Theory Biosci. 2015 Dec;134(3-4):143-7. doi: 10.1007/s12064-015-0215-5. Epub 2015 Oct 8.

PMID:
26449352
15.

Gene-pseudogene evolution: a probabilistic approach.

Mahmudi O, Sennblad B, Arvestad L, Nowick K, Lagergren J.

BMC Genomics. 2015;16 Suppl 10:S12. doi: 10.1186/1471-2164-16-S10-S12. Epub 2015 Oct 2.

16.

Editorial overview: genetics of human evolution: the genetics of human origins.

Andrés AM, Nowick K.

Curr Opin Genet Dev. 2014 Dec;29:v-vii. No abstract available.

PMID:
25468516
17.

Multiple haplotype-resolved genomes reveal population patterns of gene and protein diplotypes.

Hoehe MR, Church GM, Lehrach H, Kroslak T, Palczewski S, Nowick K, Schulz S, Suk EK, Huebsch T.

Nat Commun. 2014 Nov 26;5:5569. doi: 10.1038/ncomms6569.

18.

The role of gene regulatory factors in the evolutionary history of humans.

Perdomo-Sabogal A, Kanton S, Walter MB, Nowick K.

Curr Opin Genet Dev. 2014 Dec;29:60-7. doi: 10.1016/j.gde.2014.08.007. Epub 2014 Sep 15. Review.

PMID:
25215414
19.

A prominent role of KRAB-ZNF transcription factors in mammalian speciation?

Nowick K, Carneiro M, Faria R.

Trends Genet. 2013 Mar;29(3):130-9. doi: 10.1016/j.tig.2012.11.007. Epub 2012 Dec 17.

PMID:
23253430
20.

A comprehensively molecular haplotype-resolved genome of a European individual.

Suk EK, McEwen GK, Duitama J, Nowick K, Schulz S, Palczewski S, Schreiber S, Holloway DT, McLaughlin S, Peckham H, Lee C, Huebsch T, Hoehe MR.

Genome Res. 2011 Oct;21(10):1672-85. doi: 10.1101/gr.125047.111. Epub 2011 Aug 3.

21.

Gain, loss and divergence in primate zinc-finger genes: a rich resource for evolution of gene regulatory differences between species.

Nowick K, Fields C, Gernat T, Caetano-Anolles D, Kholina N, Stubbs L.

PLoS One. 2011;6(6):e21553. doi: 10.1371/journal.pone.0021553. Epub 2011 Jun 29.

22.

Rapid sequence and expression divergence suggest selection for novel function in primate-specific KRAB-ZNF genes.

Nowick K, Hamilton AT, Zhang H, Stubbs L.

Mol Biol Evol. 2010 Nov;27(11):2606-17. doi: 10.1093/molbev/msq157. Epub 2010 Jun 23.

23.

Lineage-specific transcription factors and the evolution of gene regulatory networks.

Nowick K, Stubbs L.

Brief Funct Genomics. 2010 Jan;9(1):65-78. doi: 10.1093/bfgp/elp056. Epub 2010 Jan 16. Review.

24.

Differences in human and chimpanzee gene expression patterns define an evolving network of transcription factors in brain.

Nowick K, Gernat T, Almaas E, Stubbs L.

Proc Natl Acad Sci U S A. 2009 Dec 29;106(52):22358-63. doi: 10.1073/pnas.0911376106. Epub 2009 Dec 10.

25.

Insulinoma-associated 1 has a panneurogenic role and promotes the generation and expansion of basal progenitors in the developing mouse neocortex.

Farkas LM, Haffner C, Giger T, Khaitovich P, Nowick K, Birchmeier C, Pääbo S, Huttner WB.

Neuron. 2008 Oct 9;60(1):40-55. doi: 10.1016/j.neuron.2008.09.020.

26.

Structure of the forkhead domain of FOXP2 bound to DNA.

Stroud JC, Wu Y, Bates DL, Han A, Nowick K, Paabo S, Tong H, Chen L.

Structure. 2006 Jan;14(1):159-66.

27.

Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees.

Khaitovich P, Hellmann I, Enard W, Nowick K, Leinweber M, Franz H, Weiss G, Lachmann M, Pääbo S.

Science. 2005 Sep 16;309(5742):1850-4. Epub 2005 Sep 1.

28.

Pediatric follow-up of a randomized controlled trial of intrapartum fetal monitoring techniques.

Langendoerfer S, Haverkamp AD, Murphy J, Nowick KD, Orleans M, Pacosa F, van Doorninck W.

J Pediatr. 1980 Jul;97(1):103-7.

PMID:
6991659

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