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Nasze publikacje

  • Kaja E, Szcześniak MW, Jensen PJ, Axtell MJ, McNellis T, Makałowska I (2014) Identification of apple miRNAs and their potential role in fire blight resistance. Tree Genetics & Genomes 11:812. Springer
  • Kabza M., Ciomborowska J., Makałowska I. (2014) RetrogeneDB--A Database of Animal Retrogenes. Mol Biol Evol. 31(7):1646-8. PubMed
  • Szcześniak M.W., Makałowska I. (2014) miRNEST 2.0: a database of plant and animal microRNAs. Nucleic Acids Res., 2014 Jan;42(Database issue):D74-7. doi: 10.1093/nar/gkt1156. PubMed
  • Szcześniak M., Yoneda M., Sato H., Makałowska I., Kyuwa S., Sugano S., Suzuki S., Makałowski W., and Kai C., (2013) Characterization of the mitochondrial genome of Rousettus leschenaulti. Mitochondrial DNA, 2013 Jul 2, doi:10.3109/19401736.2013.809451. PubMed
  • Gudys A., Szczesniak MW., Sikora M., Makalowska I., HuntMi: an efficient and taxon-specific approach in pre-miRNA identification., BMC bioinformatics, 2013 Mar 5;14(1)83. PubMed
  • Ciomborowska J., Rosikiewicz W., Szklarczyk D., Makalowski W., Makalowska I., "Orphan" retrogenes in the human genome., Molecular biology and evolution, 2013 Feb;30(2)384-96. PubMed
  • Szczesniak MW., Kabza M., Pokrzywa R., Gudys A., Makalowska I., ERISdb: a database of plant splice sites and splicing signals., Plant & cell physiology, 2013 Feb;54(2)e10. PubMed
  • Ciomborowska J., Kubiak M., Makalowska I. "Functional Retrogenes in Animal Genomes", Evolutionary Biology - Mechanisms and Trends. Springer-Verlag Berlin Heidelberg, 2012, pp 283-300, ISBN: 978-3-642-30424-8
  • Jensen PJ., Halbrendt N., Fazio G., Makalowska I., et al., Rootstock-regulated gene expression patterns associated with fire blight, BMC genomics, 2012;13()9. PubMed
  • Makalowski W., Pande A., Gotea V., Makalowska I., Transposable elements and their identification., Methods in molecular biology (Clifton, N.J.), 2012;855()337-59. PubMed
  • Szczesniak MW., Deorowicz S., Gapski J., Kaczynski L., Makalowska I., miRNEST database: an integrative approach in microRNA search and annotation., Nucleic acids research, 2012 Jan;40(Database issue)D198-204. PubMed
  • Bielewicz D., Dolata J., Zielezinski A., Alaba S., Szarzynska B., Szczesniak MW., et al., mirEX: a platform for comparative exploration of plant pri-miRNA expression data., Nucleic acids research, 2012 Jan;40(Database issue)D191-7. PubMed
  • Szczesniak MW., Owczarkowska E., Gapski J., Makalowska I., [MicroRNA databases]., Postepy biochemii, 2012;58(1)91-9. PubMed
  • Szczesniak MW., Ciomborowska J., Nowak W., Rogozin IB., Makalowska I., Primate and rodent specific intron gains and the origin of retrogenes with splice, Molecular biology and evolution, 2011 Jan;28(1)33-7. PubMed
  • Makalowska I., Rogozin IB., Makalowski W., Genome evolution., Advances in bioinformatics, 2010;2010()643701. PubMed
  • Szcześniak M., Szweykowska-Kulińska Z (2009) Regulacja alternatywnego splicingu. Postępy Biologii Komórki 36: 3–22.
  • Makalowska I, Kabza M, Ciomborowska J, „Evolution of gene structure”, KOSMOS Problemy Nauk Biologicznych tom 58 2009, nr 1-2 (282-283), page 5-16
  • Makalowska I., Comparative analysis of an unusual gene arrangement in the human chromosome 1., Gene, 2008 Nov 1;423(2)172-9. PubMed
  • Yamasaki C., Murakami K., Fujii Y., Sato Y., Harada E., Takeda J., Taniya T., Sakate R., Kikugawa S., Shimada M., Tanino M., Koyanagi KO., Barrero RA., Gough C., Chun HW., Habara T., Hanaoka H., Hayakawa Y., Hilton PB., Kaneko Y., Kanno M., Kawahara Y., Kawamura T., Matsuya A., Nagata N., Nishikata K., Noda AO., Nurimoto S., Saichi N., Sakai H., Sanbonmatsu R., Shiba R., Suzuki M., Takabayashi K., Takahashi A., Tamura T., Tanaka M., Tanaka S., Todokoro F., Yamaguchi K., Yamamoto N., Okido T., Mashima J., Hashizume A., Jin L., Lee KB., Lin YC., Nozaki A., Sakai K., Tada M., Miyazaki S., Makino T., Ohyanagi H., Osato N., Tanaka N., Suzuki Y., Ikeo K., Saitou N., Sugawara H., O'Donovan C., Kulikova T., Whitfield E., Halligan B., Shimoyama M., Twigger S., Yura K., Kimura K., Yasuda T., Nishikawa T., Akiyama Y., Motono C., Mukai Y., Nagasaki H., Suwa M., Horton P., Kikuno R., Ohara O., Lancet D., Eveno E., Graudens E., Imbeaud S., Debily MA., Hayashizaki Y., Amid C., Han M., Osanger A., Endo T., Thomas MA., Hirakawa M., Makalowski W., Nakao M., Kim NS., Yoo HS., De Souza SJ., Bonaldo Mde F., Niimura Y., Kuryshev V., Schupp I., Wiemann S., Bellgard M., Shionyu M., Jia L., Thierry-Mieg D., Thierry-Mieg J., Wagner L., Zhang Q., Go M., Minoshima S., Ohtsubo M., Hanada K., Tonellato P., Isogai T., Zhang J., Lenhard B., Kim S., Chen Z., Hinz U., Estreicher A., Nakai K., Makalowska I., et al., The H-Invitational Database (H-InvDB), a comprehensive annotation resource for, Nucleic acids research, 2008 Jan;36(Database issue)D793-9. PubMed
  • Makalowska I., Lin CF., Hernandez K., Birth and death of gene overlaps in vertebrates., BMC evolutionary biology, 2007;7()193. PubMed
  • Kang S., Blair JE., Geiser DM., Khang CH., Park SY., Gahegan M., O'Donnell K., Luster DG., Kim SH., Ivors KL., Lee YH., Lee YW., Grunwald NJ., Martin FM., Coffey MD., Veeraraghavan N., Makalowska I., et al., Plant pathogen culture collections: it takes a village to preserve these, Phytopathology, 2006 Sep;96(9)920-5. PubMed
  • Brzezicha B., Schmidt M., Makalowska I., Jarmolowski A., Pienkowska J., Szweykowska-Kulinska Z., Identification of human tRNA:m5C methyltransferase catalysing intron-dependent, Nucleic acids research, 2006;34(20)6034-43. PubMed
  • Cui L., Veeraraghavan N., Richter A., Wall K., Jansen RK., Leebens-Mack J., Makalowska I., et al., ChloroplastDB: the Chloroplast Genome Database., Nucleic acids research, 2006 Jan 1;34(Database issue)D692-6. PubMed
  • Lamason RL., Mohideen MA., Mest JR., Wong AC., Norton HL., Aros MC., Jurynec MJ., Mao X., Humphreville VR., Humbert JE., Sinha S., Moore JL., Jagadeeswaran P., Zhao W., Ning G., Makalowska I., et al., SLC24A5, a putative cation exchanger, affects pigmentation in zebrafish and, Science (New York, N.Y.), 2005 Dec 16;310(5755)1782-6. PubMed
  • Nikolaidis N., Makalowska I., Chalkia D., Makalowski W., Klein J., Nei M., Origin and evolution of the chicken leukocyte receptor complex., Proceedings of the National Academy of Sciences of the United States of America, 2005 Mar 15;102(11)4057-62. PubMed
  • Makalowska I., Lin CF., Makalowski W., Overlapping genes in vertebrate genomes., Computational biology and chemistry, 2005 Feb;29(1)1-12. PubMed
  • Imanishi T., Itoh T., Suzuki Y., O'Donovan C., Fukuchi S., Koyanagi KO., Barrero RA., Tamura T., Yamaguchi-Kabata Y., Tanino M., Yura K., Miyazaki S., Ikeo K., Homma K., Kasprzyk A., Nishikawa T., Hirakawa M., Thierry-Mieg J., Thierry-Mieg D., Ashurst J., Jia L., Nakao M., Thomas MA., Mulder N., Karavidopoulou Y., Jin L., Kim S., Yasuda T., Lenhard B., Eveno E., Suzuki Y., Yamasaki C., Takeda J., Gough C., Hilton P., Fujii Y., Sakai H., Tanaka S., Amid C., Bellgard M., Bonaldo Mde F., Bono H., Bromberg SK., Brookes AJ., Bruford E., Carninci P., Chelala C., Couillault C., de Souza SJ., Debily MA., Devignes MD., Dubchak I., Endo T., Estreicher A., Eyras E., Fukami-Kobayashi K., Gopinath GR., Graudens E., Hahn Y., Han M., Han ZG., Hanada K., Hanaoka H., Harada E., Hashimoto K., Hinz U., Hirai M., Hishiki T., Hopkinson I., Imbeaud S., Inoko H., Kanapin A., Kaneko Y., Kasukawa T., Kelso J., Kersey P., Kikuno R., Kimura K., Korn B., Kuryshev V., Makalowska I., et al., Integrative annotation of 21,037 human genes validated by full-length cDNA, PLoS biology, 2004 Jun;2(6)e162. PubMed
  • Veeramachaneni V., Makalowski W., Galdzicki M., Sood R., Makalowska I., Mammalian overlapping genes: the comparative perspective., Genome research, 2004 Feb;14(2)280-6. PubMed
  • Cohen-Solal KA., Sood R., Marin Y., Crespo-Carbone SM., Sinsimer D., Martino JJ., Robbins C., Makalowska I., et al., Identification and characterization of mouse Rab32 by mRNA and protein expression, Biochimica et biophysica acta, 2003 Sep 23;1651(1-2)68-75. PubMed
  • Sood R., Makalowska I., et al., Cloning and characterization of a novel gene, SHPRH, encoding a conserved, Genomics, 2003 Aug;82(2)153-61. PubMed
  • Pollock PM., Cohen-Solal K., Sood R., Namkoong J., Martino JJ., Koganti A., Zhu H., Robbins C., Makalowska I., et al., Melanoma mouse model implicates metabotropic glutamate signaling in melanocytic, Nature genetics, 2003 May;34(1)108-12. PubMed
  • Giardine B., Elnitski L., Riemer C., Makalowska I., et al., GALA, a database for genomic sequence alignments and annotations., Genome research, 2003 Apr;13(4)732-41. PubMed
  • Rosenberg MJ., Agarwala R., Bouffard G., Davis J., Fiermonte G., Hilliard MS., Koch T., Kalikin LM., Makalowska I., et al., Mutant deoxynucleotide carrier is associated with congenital microcephaly., Nature genetics, 2002 Sep;32(1)175-9. PubMed
  • Makalowska I., et al., Identification of six novel genes by experimental validation of GeneMachine, Gene, 2002 Feb 6;284(1-2)203-13. PubMed
  • Carpten J., Nupponen N., Isaacs S., Sood R., Robbins C., Xu J., Faruque M., Moses T., Ewing C., Gillanders E., Hu P., Bujnovszky P., Makalowska I., et al., Germline mutations in the ribonuclease L gene in families showing linkage with, Nature genetics, 2002 Feb;30(2)181-4. PubMed
  • Stephan DA., Howell GR., Teslovich TM., Coffey AJ., Smith L., Bailey-Wilson JE., Malechek L., Gildea D., Smith JR., Gillanders EM., Schleutker J., Hu P., Steingruber HE., Dhami P., Robbins CM., Makalowska I., et al., Physical and transcript map of the hereditary prostate cancer region at xq27., Genomics, 2002 Jan;79(1)41-50. PubMed
  • Sullivan S., Sink DW., Trout KL., Makalowska I., et al., The Histone Database., Nucleic acids research, 2002 Jan 1;30(1)341-2. PubMed
  • Makalowska I., Ryan JF., Baxevanis AD., GeneMachine: gene prediction and sequence annotation., Bioinformatics (Oxford, England), 2001 Sep;17(9)843-4. PubMed
  • Wolfsberg TG., Makalowska I., Makalowski W., Web alert. Genetics of disease., Current opinion in genetics & development, 2001 Jun;11(3)237-8. PubMed
  • Sood R., Bonner TI., Makalowska I., et al., Cloning and characterization of 13 novel transcripts and the human RGS8 gene from, Genomics, 2001 Apr 15;73(2)211-22. PubMed
  • Slaugenhaupt SA., Blumenfeld A., Gill SP., Leyne M., Mull J., Cuajungco MP., Liebert CB., Chadwick B., Idelson M., Reznik L., Robbins C., Makalowska I., et al., Tissue-specific expression of a splicing mutation in the IKBKAP gene causes, American journal of human genetics, 2001 Mar;68(3)598-605. PubMed
  • Makalowska I., Wolfsberg T., Makalowski W., Web alert. Oncogenes and cell proliferation., Current opinion in genetics & development, 2001 Feb;11(1)9-10. PubMed
  • Wolfsberg T., Makalowska I., Makalowski W., Web alert. Genomes and evolution., Current opinion in genetics & development, 2000 Dec;10(6)591. PubMed
  • Galdzicki M., Makalowska I., Wolfsberg TG., Web alert. Pattern formation and developmental mechanisms., Current opinion in genetics & development, 2000 Aug;10(4)345-6. PubMed
  • Sood R., Makalowska I., et al., The human RGL (RalGDS-like) gene: cloning, expression analysis and genomic, Biochimica et biophysica acta, 2000 Apr 25;1491(1-3)285-8. PubMed
  • Carpten JD., Makalowska I., et al., A 6-Mb high-resolution physical and transcription map encompassing the hereditary, Genomics, 2000 Feb 15;64(1)1-14. PubMed
  • Chadwick BP., Leyne M., Gill S., Liebert CB., Mull J., Mezey E., Robbins CM., Pinkett HW., Makalowska I., et al., Cloning, mapping, and expression of a novel brain-specific transcript in the, Mammalian genome : official journal of the International Mammalian Genome Society, 2000 Jan;11(1)81-3. PubMed
  • Appukuttan B., Sood R., Ott S., Makalowska I., et al., Isolation and characterization of the human homeobox gene HOX D1., Molecular biology reports, 2000;27(4)195-201. PubMed
  • Sullivan SA., Aravind L., Makalowska I., Baxevanis AD., Landsman D., The histone database: a comprehensive WWW resource for histones and histone, Nucleic acids research, 2000 Jan 1;28(1)320-2. PubMed
  • Wolfsberg TG., Makalowska I., Makalowski W., Genomes and evolution. Web alert., Current opinion in genetics & development, 1999 Dec;9(6)619. PubMed
  • Chadwick BP., Gill S., Leyne M., Mull J., Liebert CB., Robbins CM., Pinkett HW., Makalowska I., et al., Cloning, genomic organization and expression of a putative human transmembrane, Gene, 1999 Nov 15;240(1)67-73. PubMed
  • Marcelino J., Carpten JD., Suwairi WM., Gutierrez OM., Schwartz S., Robbins C., Sood R., Makalowska I., et al., CACP, encoding a secreted proteoglycan, is mutated in, Nature genetics, 1999 Nov;23(3)319-22. PubMed
  • Wolfsberg T., Makalowska I I., Pattern formation and developmental mechanisms, Current opinion in genetics & development, 1999 Aug;9(4)385-6. PubMed
  • Chadwick BP., Mull J., Helbling LA., Gill S., Leyne M., Robbins CM., Pinkett HW., Makalowska I., et al., Cloning, mapping, and expression of two novel actin genes, actin-like-7A (ACTL7A), Genomics, 1999 Jun 15;58(3)302-9. PubMed
  • Ferlanti ES., Ryan JF., Makalowska I., Baxevanis AD., WebBLAST 2.0: an integrated solution for organizing and analyzing sequence data., Bioinformatics (Oxford, England), 1999 May;15(5)422-3. PubMed
  • Wolfsberg TG., Makalowska I., Makalowski W., Oncogenes and cell proliferation. Web alert., Current opinion in genetics & development, 1999 Feb;9(1)9. PubMed
  • Makalowska I., Ferlanti ES., Baxevanis AD., Landsman D., Histone Sequence Database: sequences, structures, post-translational, Nucleic acids research, 1999 Jan 1;27(1)323-4. PubMed
  • Wolfsberg TG., Makalowska I., Makalowski W., Pattern formation and developmental mechanisms., Current opinion in genetics & development, 1998 Aug;8(4)381-2. PubMed
  • Makalowski W., Wolfsberg TG., Makalowska I., Genetics of diseases. Web alert., Current opinion in genetics & development, 1998 Jun;8(3)269-70. PubMed
  • Makalowska I., Makalowski W., Wolfsberg TG., Chromosomes and expression mechanisms. Web alert., Current opinion in genetics & development, 1998 Apr;8(2)135-6. PubMed
  • Lavedan C., Dehejia A., Pike B., Dutra A., Leroy E., Ide SE., Root H., Rubenstein J., Boyer RL., Chandrasekharappa S., Makalowska I., et al., Contig map of the Parkinson's disease region on 4q21-q23., DNA research : an international journal for rapid publication of reports on genes, 1998 Feb 28;5(1)19-23. PubMed
  • Wolfsberg TG., Makalowska I., Makalowski W., Web alert. Oncogenes and cell proliferation., Current opinion in genetics & development, 1998 Feb;8(1)9-10. PubMed