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Items: 1 to 50 of 129

1.

CRISPR/Cas9-mediated gene knockin in the hydroid Hydractinia symbiolongicarpus.

Sanders SM, Ma Z, Hughes JM, Riscoe BM, Gibson GA, Watson AM, Flici H, Frank U, Schnitzler CE, Baxevanis AD, Nicotra ML.

BMC Genomics. 2018 Sep 3;19(1):649. doi: 10.1186/s12864-018-5032-z.

2.

The maternal-zygotic transition and zygotic activation of the Mnemiopsis leidyi genome occurs within the first three cleavage cycles.

Davidson PL, Koch BJ, Schnitzler CE, Henry JQ, Martindale MQ, Baxevanis AD, Browne WE.

Mol Reprod Dev. 2017 Nov;84(11):1218-1229. doi: 10.1002/mrd.22926. Epub 2017 Nov 10.

3.

Functional studies on the role of Notch signaling in Hydractinia development.

Gahan JM, Schnitzler CE, DuBuc TQ, Doonan LB, Kanska J, Gornik SG, Barreira S, Thompson K, Schiffer P, Baxevanis AD, Frank U.

Dev Biol. 2017 Aug 1;428(1):224-231. doi: 10.1016/j.ydbio.2017.06.006. Epub 2017 Jun 7.

4.

Microevolution of the noble crayfish (Astacus astacus) in the Southern Balkan Peninsula.

Laggis A, Baxevanis AD, Charalampidou A, Maniatsi S, Triantafyllidis A, Abatzopoulos TJ.

BMC Evol Biol. 2017 May 30;17(1):122. doi: 10.1186/s12862-017-0971-6.

5.

BuddySuite: Command-Line Toolkits for Manipulating Sequences, Alignments, and Phylogenetic Trees.

Bond SR, Keat KE, Barreira SN, Baxevanis AD.

Mol Biol Evol. 2017 Jun 1;34(6):1543-1546. doi: 10.1093/molbev/msx089.

6.

An Evolutionarily Conserved SoxB-Hdac2 Crosstalk Regulates Neurogenesis in a Cnidarian.

Flici H, Schnitzler CE, Millane RC, Govinden G, Houlihan A, Boomkamp SD, Shen S, Baxevanis AD, Frank U.

Cell Rep. 2017 Feb 7;18(6):1395-1409. doi: 10.1016/j.celrep.2017.01.019.

7.

The cnidarian Hydractinia echinata employs canonical and highly adapted histones to pack its DNA.

Török A, Schiffer PH, Schnitzler CE, Ford K, Mullikin JC, Baxevanis AD, Bacic A, Frank U, Gornik SG.

Epigenetics Chromatin. 2016 Sep 6;9(1):36. doi: 10.1186/s13072-016-0085-1. eCollection 2016.

8.

The Importance of Biological Databases in Biological Discovery.

Baxevanis AD, Bateman A.

Curr Protoc Bioinformatics. 2015 Jun 19;50:1.1.1-8. doi: 10.1002/0471250953.bi0101s50.

PMID:
26094768
9.

SubmiRine: assessing variants in microRNA targets using clinical genomic data sets.

Maxwell EK, Campbell JD, Spira A, Baxevanis AD.

Nucleic Acids Res. 2015 Apr 30;43(8):3886-98. doi: 10.1093/nar/gkv256. Epub 2015 Mar 26.

10.

Evolutionary profiling reveals the heterogeneous origins of classes of human disease genes: implications for modeling disease genetics in animals.

Maxwell EK, Schnitzler CE, Havlak P, Putnam NH, Nguyen AD, Moreland RT, Baxevanis AD.

BMC Evol Biol. 2014 Oct 4;14:212. doi: 10.1186/s12862-014-0212-1.

11.

Expression of multiple Sox genes through embryonic development in the ctenophore Mnemiopsis leidyi is spatially restricted to zones of cell proliferation.

Schnitzler CE, Simmons DK, Pang K, Martindale MQ, Baxevanis AD.

Evodevo. 2014 Apr 24;5:15. doi: 10.1186/2041-9139-5-15. eCollection 2014.

12.

A customized Web portal for the genome of the ctenophore Mnemiopsis leidyi.

Moreland RT, Nguyen AD, Ryan JF, Schnitzler CE, Koch BJ, Siewert K, Wolfsberg TG, Baxevanis AD.

BMC Genomics. 2014 Apr 28;15:316. doi: 10.1186/1471-2164-15-316.

13.

MLV integration site selection is driven by strong enhancers and active promoters.

LaFave MC, Varshney GK, Gildea DE, Wolfsberg TG, Baxevanis AD, Burgess SM.

Nucleic Acids Res. 2014 Apr;42(7):4257-69. doi: 10.1093/nar/gkt1399. Epub 2014 Jan 23.

14.

The genome of the ctenophore Mnemiopsis leidyi and its implications for cell type evolution.

Ryan JF, Pang K, Schnitzler CE, Nguyen AD, Moreland RT, Simmons DK, Koch BJ, Francis WR, Havlak P; NISC Comparative Sequencing Program, Smith SA, Putnam NH, Haddock SH, Dunn CW, Wolfsberg TG, Mullikin JC, Martindale MQ, Baxevanis AD.

Science. 2013 Dec 13;342(6164):1242592. doi: 10.1126/science.1242592.

15.

Genomic organization, evolution, and expression of photoprotein and opsin genes in Mnemiopsis leidyi: a new view of ctenophore photocytes.

Schnitzler CE, Pang K, Powers ML, Reitzel AM, Ryan JF, Simmons D, Tada T, Park M, Gupta J, Brooks SY, Blakesley RW, Yokoyama S, Haddock SH, Martindale MQ, Baxevanis AD.

BMC Biol. 2012 Dec 21;10:107. doi: 10.1186/1741-7007-10-107.

16.

MicroRNAs and essential components of the microRNA processing machinery are not encoded in the genome of the ctenophore Mnemiopsis leidyi.

Maxwell EK, Ryan JF, Schnitzler CE, Browne WE, Baxevanis AD.

BMC Genomics. 2012 Dec 20;13:714. doi: 10.1186/1471-2164-13-714.

17.

Association between health-service use and multiplex genetic testing.

Reid RJ, McBride CM, Alford SH, Price C, Baxevanis AD, Brody LC, Larson EB.

Genet Med. 2012 Oct;14(10):852-9. doi: 10.1038/gim.2012.52. Epub 2012 May 17.

18.

Patients' understanding of and responses to multiplex genetic susceptibility test results.

Kaphingst KA, McBride CM, Wade C, Alford SH, Reid R, Larson E, Baxevanis AD, Brody LC.

Genet Med. 2012 Jul;14(7):681-7.

19.

Searching Online Mendelian Inheritance in Man (OMIM) for information on genetic loci involved in human disease.

Baxevanis AD.

Curr Protoc Hum Genet. 2012 Apr;Chapter 9:Unit 9.13.1-10. doi: 10.1002/0471142905.hg0913s73.

PMID:
22470145
20.

The diversification of the LIM superclass at the base of the metazoa increased subcellular complexity and promoted multicellular specialization.

Koch BJ, Ryan JF, Baxevanis AD.

PLoS One. 2012;7(3):e33261. doi: 10.1371/journal.pone.0033261. Epub 2012 Mar 15.

21.

The Histone Database: an integrated resource for histones and histone fold-containing proteins.

Mariño-Ramírez L, Levine KM, Morales M, Zhang S, Moreland RT, Baxevanis AD, Landsman D.

Database (Oxford). 2011 Oct 23;2011:bar048. doi: 10.1093/database/bar048. Print 2011.

22.

Extreme mitochondrial evolution in the ctenophore Mnemiopsis leidyi: Insight from mtDNA and the nuclear genome.

Pett W, Ryan JF, Pang K, Mullikin JC, Martindale MQ, Baxevanis AD, Lavrov DV.

Mitochondrial DNA. 2011 Aug;22(4):130-42. doi: 10.3109/19401736.2011.624611. Epub 2011 Oct 10.

23.

Searching NCBI Databases Using Entrez.

Gibney G, Baxevanis AD.

Curr Protoc Hum Genet. 2011 Oct;Chapter 6:Unit6.10. doi: 10.1002/0471142905.hg0610s71.

PMID:
21975942
24.

Evolution of the TGF-β signaling pathway and its potential role in the ctenophore, Mnemiopsis leidyi.

Pang K, Ryan JF, Baxevanis AD, Martindale MQ.

PLoS One. 2011;6(9):e24152. doi: 10.1371/journal.pone.0024152. Epub 2011 Sep 8.

25.

Searching NCBI databases using Entrez.

Gibney G, Baxevanis AD.

Curr Protoc Bioinformatics. 2011 Jun;Chapter 1:Unit 1.3. doi: 10.1002/0471250953.bi0103s34.

PMID:
21633942
26.

The importance of biological databases in biological discovery.

Baxevanis AD.

Curr Protoc Bioinformatics. 2011 Jun;Chapter 1:Unit 1.1. doi: 10.1002/0471250953.bi0101s34. Review.

PMID:
21633941
27.

Nuclear receptors from the ctenophore Mnemiopsis leidyi lack a zinc-finger DNA-binding domain: lineage-specific loss or ancestral condition in the emergence of the nuclear receptor superfamily?

Reitzel AM, Pang K, Ryan JF, Mullikin JC, Martindale MQ, Baxevanis AD, Tarrant AM.

Evodevo. 2011 Feb 3;2(1):3. doi: 10.1186/2041-9139-2-3.

28.

Is polyploidy a persevering accident or an adaptive evolutionary pattern? The case of the brine shrimp Artemia.

Maniatsi S, Baxevanis AD, Kappas I, Deligiannidis P, Triantafyllidis A, Papakostas S, Bougiouklis D, Abatzopoulos TJ.

Mol Phylogenet Evol. 2011 Feb;58(2):353-64. doi: 10.1016/j.ympev.2010.11.029. Epub 2010 Dec 9.

PMID:
21145977
29.

Genomic insights into Wnt signaling in an early diverging metazoan, the ctenophore Mnemiopsis leidyi.

Pang K, Ryan JF; NISC Comparative Sequencing Program, Mullikin JC, Baxevanis AD, Martindale MQ.

Evodevo. 2010 Oct 4;1(1):10. doi: 10.1186/2041-9139-1-10.

30.

The homeodomain complement of the ctenophore Mnemiopsis leidyi suggests that Ctenophora and Porifera diverged prior to the ParaHoxozoa.

Ryan JF, Pang K; NISC Comparative Sequencing Program, Mullikin JC, Martindale MQ, Baxevanis AD.

Evodevo. 2010 Oct 4;1(1):9. doi: 10.1186/2041-9139-1-9.

31.

Consumers' use of web-based information and their decisions about multiplex genetic susceptibility testing.

Kaphingst KA, McBride CM, Wade C, Alford SH, Brody LC, Baxevanis AD.

J Med Internet Res. 2010 Sep 29;12(3):e41. doi: 10.2196/jmir.1587.

32.

Participation in genetic testing research varies by social group.

Hensley Alford S, McBride CM, Reid RJ, Larson EB, Baxevanis AD, Brody LC.

Public Health Genomics. 2011;14(2):85-93. doi: 10.1159/000294277. Epub 2010 Mar 18.

33.
34.

Sharp phylogeographic breaks and patterns of genealogical concordance in the brine shrimp Artemia franciscana.

Maniatsi S, Kappas I, Baxevanis AD, Farmaki T, Abatzopoulos TJ.

Int J Mol Sci. 2009 Dec 18;10(12):5455-70. doi: 10.3390/ijms10125455.

35.

Searching Online Mendelian Inheritance in Man (OMIM) for information on genetic loci involved in human disease.

Borate B, Baxevanis AD.

Curr Protoc Bioinformatics. 2009 Sep;Chapter 1:Unit 1.2. doi: 10.1002/0471250953.bi0102s27.

PMID:
19728286
36.

The importance of biological databases in biological discovery.

Baxevanis AD.

Curr Protoc Bioinformatics. 2009 Sep;Chapter 1:Unit 1.1. doi: 10.1002/0471250953.bi0101s27.

PMID:
19728285
37.

Characteristics of users of online personalized genomic risk assessments: implications for physician-patient interactions.

McBride CM, Alford SH, Reid RJ, Larson EB, Baxevanis AD, Brody LC.

Genet Med. 2009 Aug;11(8):582-7. doi: 10.1097/GIM.0b013e3181b22c3a.

38.

Cumulative ligand activity of NODAL mutations and modifiers are linked to human heart defects and holoprosencephaly.

Roessler E, Pei W, Ouspenskaia MV, Karkera JD, Veléz JI, Banerjee-Basu S, Gibney G, Lupo PJ, Mitchell LE, Towbin JA, Bowers P, Belmont JW, Goldmuntz E, Baxevanis AD, Feldman B, Muenke M.

Mol Genet Metab. 2009 Sep-Oct;98(1-2):225-34. doi: 10.1016/j.ymgme.2009.05.005. Epub 2009 May 27.

39.

A single nucleotide polymorphism in the 3'UTR of the SNCA gene encoding alpha-synuclein is a new potential susceptibility locus for Parkinson disease.

Sotiriou S, Gibney G, Baxevanis AD, Nussbaum RL.

Neurosci Lett. 2009 Sep 18;461(2):196-201. doi: 10.1016/j.neulet.2009.06.034. Epub 2009 Jun 18.

40.

Glucocerebrosidase mutation H255Q appears to be exclusively in cis with D409H: structural implications.

Vithayathil J, Gibney G, Baxevanis AD, Stubblefield BK, Sidransky E, Tayebi N.

Clin Genet. 2009 May;75(5):503-4. doi: 10.1111/j.1399-0004.2009.01163.x. No abstract available.

41.

Porous genomes and species integrity in the branchiopod Artemia.

Kappas I, Baxevanis AD, Maniatsi S, Abatzopoulos TJ.

Mol Phylogenet Evol. 2009 Jul;52(1):192-204. doi: 10.1016/j.ympev.2009.03.012. Epub 2009 Mar 21.

PMID:
19306934
42.

Searching NCBI databases using Entrez.

Baxevanis AD.

Curr Protoc Bioinformatics. 2008 Dec;Chapter 1:Unit 1.3. doi: 10.1002/0471250953.bi0103s24.

PMID:
19085978
43.

Searching Online Mendelian Inheritance in Man (OMIM) for information for genetic loci involved in human disease.

Baxevanis AD.

Curr Protoc Bioinformatics. 2002 Aug;Chapter 1:Unit 1.2. doi: 10.1002/0471250953.bi0102s00.

PMID:
18792932
44.

Putting science over supposition in the arena of personalized genomics.

McBride CM, Alford SH, Reid RJ, Larson EB, Baxevanis AD, Brody LC.

Nat Genet. 2008 Aug;40(8):939-42. doi: 10.1038/ng0808-939.

45.

Internet basics.

Baxevanis AD, Ouellette BF.

Curr Protoc Protein Sci. 2001 May;Chapter 2:Unit2.4. doi: 10.1002/0471140864.ps0204s20.

PMID:
18429152
46.

Common file formats.

Leonard SA, Littlejohn TG, Baxevanis AD.

Curr Protoc Bioinformatics. 2007 Jan;Appendix 1:Appendix 1B. doi: 10.1002/0471250953.bia01bs16. Review.

PMID:
18428774
47.

Searching the NCBI databases using Entrez.

Baxevanis AD.

Curr Protoc Bioinformatics. 2006 Mar;Chapter 1:Unit 1.3. doi: 10.1002/0471250953.bi0103s13.

PMID:
18428756
48.

The importance of biological databases in biological discovery.

Baxevanis AD.

Curr Protoc Bioinformatics. 2006 Mar;Chapter 1:Unit 1.1. doi: 10.1002/0471250953.bi0101s13. Review.

PMID:
18428753
49.

An overview of gene identification: approaches, strategies, and considerations.

Baxevanis AD.

Curr Protoc Bioinformatics. 2004 Sep;Chapter 4:Unit4.1. doi: 10.1002/0471250953.bi0401s6. Review.

PMID:
18428724
50.

Searching the NCBI databases using Entrez.

Baxevanis AD.

Curr Protoc Hum Genet. 2006 Nov;Chapter 6:Unit 6.10. doi: 10.1002/0471142905.hg0610s51. Review.

PMID:
18428394

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