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Results: 17

1.

Molecular dynamics simulations of the Nip7 proteins from the marine deep- and shallow-water Pyrococcus species.

Medvedev KE, Alemasov NA, Vorobjev YN, Boldyreva EV, Kolchanov NA, Afonnikov DA.

BMC Struct Biol. 2014 Oct 15;14(1):23. [Epub ahead of print]

PMID:
25315147
[PubMed - as supplied by publisher]
Free PMC Article
2.

Extraction of quantitative characteristics describing wheat leaf pubescence with a novel image-processing technique.

Genaev MA, Doroshkov AV, Pshenichnikova TA, Kolchanov NA, Afonnikov DA.

Planta. 2012 Dec;236(6):1943-54. doi: 10.1007/s00425-012-1751-6. Epub 2012 Sep 19.

PMID:
22990907
[PubMed - indexed for MEDLINE]
3.

[Morphological and genetic characteristics of leaf hairiness in wheat (Triticum aestivum L.) as analyzed by computer-aided phenotyping].

Doroshkov AV, Pshenichnikova TA, Afonnikov DA.

Genetika. 2011 Jun;47(6):836-41. Russian.

PMID:
21866865
[PubMed - indexed for MEDLINE]
4.

Molecular evolution of cyclin proteins in animals and fungi.

Gunbin KV, Suslov VV, Turnaev II, Afonnikov DA, Kolchanov NA.

BMC Evol Biol. 2011 Jul 28;11:224. doi: 10.1186/1471-2148-11-224.

PMID:
21798004
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Important role of hydrophobic interactions in high-pressure adaptation of proteins.

Afonnikov DA, Medvedev KE, Gunbin KV, Kolchanov NA.

Dokl Biochem Biophys. 2011 May-Jun;438:113-6. doi: 10.1134/S160767291103001X. Epub 2011 Jul 3. No abstract available.

PMID:
21725885
[PubMed - indexed for MEDLINE]
6.

Computer System for Analysis of Molecular Evolution Modes (SAMEM): analysis of molecular evolution modes at deep inner branches of the phylogenetic tree.

Gunbin KV, Suslov VV, Genaev MA, Afonnikov DA.

In Silico Biol. 2011-2012;11(3-4):109-23. doi: 10.3233/ISB-2012-0446.

PMID:
22935965
[PubMed - indexed for MEDLINE]
7.

Molecular evolution of the hyperthermophilic archaea of the Pyrococcus genus: analysis of adaptation to different environmental conditions.

Gunbin KV, Afonnikov DA, Kolchanov NA.

BMC Genomics. 2009 Dec 30;10:639. doi: 10.1186/1471-2164-10-639.

PMID:
20042074
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Isolation and sequence analysis of the wheat B genome subtelomeric DNA.

Salina EA, Sergeeva EM, Adonina IG, Shcherban AB, Afonnikov DA, Belcram H, Huneau C, Chalhoub B.

BMC Genomics. 2009 Sep 5;10:414. doi: 10.1186/1471-2164-10-414.

PMID:
19732459
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Adaptive evolution of genes of archaea belonging to the genus Pyrococcus associated with adaptation to life under high-pressure conditions.

Gunbin KV, Afonnikov DA, Boldyreva EV, Kolchanov NA.

Dokl Biochem Biophys. 2009 Mar-Apr;425:91-3. No abstract available.

PMID:
19496330
[PubMed - indexed for MEDLINE]
10.

The evolution of the Hh-signaling pathway genes: a computer-assisted study.

Gunbin KV, Afonnikov DA, Kolchanov NA.

In Silico Biol. 2007;7(3):333-54.

PMID:
18415981
[PubMed - indexed for MEDLINE]
11.

Web-based computational tools for the prediction and analysis of post-translational modifications of proteins.

Ivanisenko VA, Afonnikov DA, Kolchanov NA.

Methods Mol Biol. 2008;446:363-84. doi: 10.1007/978-1-60327-084-7_25.

PMID:
18373270
[PubMed - indexed for MEDLINE]
12.

CRASP: a program for analysis of coordinated substitutions in multiple alignments of protein sequences.

Afonnikov DA, Kolchanov NA.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W64-8.

PMID:
15215352
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

[Integrated computer system for regulating eukaryotic gene expression].

Kolchanov NA, Podkolodnaya OA, Ananko EA, Afonnikov DA, Vishnevsky OV, Vorobiev DG, Ignatieva EV, LevitskiÄ­ VG, LikhoshvaÄ­ VA, Omelyanchuk NA, Podkolodny NL, Ratushny AV, Suslov VV.

Mol Biol (Mosk). 2004 Jan-Feb;38(1):69-81. Review. Russian.

PMID:
15042837
[PubMed - indexed for MEDLINE]
14.

ASPD (Artificially Selected Proteins/Peptides Database): a database of proteins and peptides evolved in vitro.

Valuev VP, Afonnikov DA, Ponomarenko MP, Milanesi L, Kolchanov NA.

Nucleic Acids Res. 2002 Jan 1;30(1):200-2.

PMID:
11752292
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

The conserved characteristics of DNA-binding domains belonging to the homeodomain class that are associated with coadaptive substitutions of amino acid residues.

Afonnikov DA, Koichanov NA.

Dokl Biochem Biophys. 2001 Sep-Oct;380:352-5. No abstract available.

PMID:
11727564
[PubMed - indexed for MEDLINE]
16.

Detection of conserved physico-chemical characteristics of proteins by analyzing clusters of positions with co-ordinated substitutions.

Afonnikov DA, Oshchepkov DY, Kolchanov NA.

Bioinformatics. 2001 Nov;17(11):1035-46.

PMID:
11724732
[PubMed - indexed for MEDLINE]
Free Article
17.

[Detection of correlating DNA-binding positions in CREB and AP-1 family transcription factors].

Afonnikov DA, Kondrakhin IuV, Titov II.

Mol Biol (Mosk). 1997 Jul-Aug;31(4):741-8. Russian. No abstract available.

PMID:
9340500
[PubMed - indexed for MEDLINE]
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