Analysis of NotI linking clones isolated from human chromosome 3 specific libraries

V. I. Kashuba, R. Z. Gizatullin, A. I. Protopopov, J. Li, N. V. Vorobieva, L. Fedorova, V. I. Zabarovska, O. V. Muravenko, M. Kost-Alimova, D. A. Domninsky, C. Kiss, R. Allikmets, V. M. Zakharyev, E. A. Braga, Janos Sumegi, M. Lerman, C. Wahlestedt, A. V. Zelenin, D. Sheer, G. Winberg & 4 others A. Grafodatsky, L. L. Kisselev, G. Klein, E. R. Zabarovsky

Research output: Contribution to journalArticle

35 Citations (Scopus)

Abstract

We have partially sequenced more than 1000 NotI linking clones isolated from human chromosome 3-specific libraries. Of these clones, 152 were unique chromosome 3-specific clones. The clones were precisely mapped using a combination of fluorescence in situ hybridization (FISH) and hybridization to somatic cell or radiation hybrids. Two- and three-color FISH was used to order the clones that mapped to the same chromosomal region, and in some cases, chromosome jumping was used to resolve ambiguous mapping. When this NotI restriction map was compared with the yeast artificial chromosome (YAC) based chromosome 3 map, significant differences in several chromosome 3 regions were observed. A search of the EMBL nucleotide database with these sequences revealed homologies (90-100%) to more than 100 different genes or expressed sequence tags (ESTs). Many of these homologies were used to map new genes to chromosome 3. These results suggest that sequencing NotI linking clones, and sequencing CpG islands in general, may complement the EST project and aid in the discovery of all human genes by sequencing random cDNAs. This method may also yield information that cannot be obtained by the EST project alone; namely, the identification of the 5' ends of genes, including potential promoter/enhancer regions and other regulatory sequences.

Original languageEnglish (US)
Pages (from-to)259-271
Number of pages13
JournalGene
Volume239
Issue number2
DOIs
StatePublished - Nov 1 1999

Fingerprint

Chromosomes, Human, Pair 3
Human Chromosomes
Libraries
Clone Cells
Expressed Sequence Tags
Fluorescence In Situ Hybridization
Genes
Color
Radiation Hybrid Mapping
Yeast Artificial Chromosomes
CpG Islands
Hybrid Cells
Sequence Homology
Genetic Promoter Regions
Nucleotides
Complementary DNA
Chromosomes
Databases

Keywords

  • CpG islands
  • Gene discovery
  • Gene mapping
  • NotI map

ASJC Scopus subject areas

  • Genetics

Cite this

Kashuba, V. I., Gizatullin, R. Z., Protopopov, A. I., Li, J., Vorobieva, N. V., Fedorova, L., ... Zabarovsky, E. R. (1999). Analysis of NotI linking clones isolated from human chromosome 3 specific libraries. Gene, 239(2), 259-271. https://doi.org/10.1016/S0378-1119(99)00411-4

Analysis of NotI linking clones isolated from human chromosome 3 specific libraries. / Kashuba, V. I.; Gizatullin, R. Z.; Protopopov, A. I.; Li, J.; Vorobieva, N. V.; Fedorova, L.; Zabarovska, V. I.; Muravenko, O. V.; Kost-Alimova, M.; Domninsky, D. A.; Kiss, C.; Allikmets, R.; Zakharyev, V. M.; Braga, E. A.; Sumegi, Janos; Lerman, M.; Wahlestedt, C.; Zelenin, A. V.; Sheer, D.; Winberg, G.; Grafodatsky, A.; Kisselev, L. L.; Klein, G.; Zabarovsky, E. R.

In: Gene, Vol. 239, No. 2, 01.11.1999, p. 259-271.

Research output: Contribution to journalArticle

Kashuba, VI, Gizatullin, RZ, Protopopov, AI, Li, J, Vorobieva, NV, Fedorova, L, Zabarovska, VI, Muravenko, OV, Kost-Alimova, M, Domninsky, DA, Kiss, C, Allikmets, R, Zakharyev, VM, Braga, EA, Sumegi, J, Lerman, M, Wahlestedt, C, Zelenin, AV, Sheer, D, Winberg, G, Grafodatsky, A, Kisselev, LL, Klein, G & Zabarovsky, ER 1999, 'Analysis of NotI linking clones isolated from human chromosome 3 specific libraries', Gene, vol. 239, no. 2, pp. 259-271. https://doi.org/10.1016/S0378-1119(99)00411-4
Kashuba VI, Gizatullin RZ, Protopopov AI, Li J, Vorobieva NV, Fedorova L et al. Analysis of NotI linking clones isolated from human chromosome 3 specific libraries. Gene. 1999 Nov 1;239(2):259-271. https://doi.org/10.1016/S0378-1119(99)00411-4
Kashuba, V. I. ; Gizatullin, R. Z. ; Protopopov, A. I. ; Li, J. ; Vorobieva, N. V. ; Fedorova, L. ; Zabarovska, V. I. ; Muravenko, O. V. ; Kost-Alimova, M. ; Domninsky, D. A. ; Kiss, C. ; Allikmets, R. ; Zakharyev, V. M. ; Braga, E. A. ; Sumegi, Janos ; Lerman, M. ; Wahlestedt, C. ; Zelenin, A. V. ; Sheer, D. ; Winberg, G. ; Grafodatsky, A. ; Kisselev, L. L. ; Klein, G. ; Zabarovsky, E. R. / Analysis of NotI linking clones isolated from human chromosome 3 specific libraries. In: Gene. 1999 ; Vol. 239, No. 2. pp. 259-271.
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AU - Kashuba, V. I.

AU - Gizatullin, R. Z.

AU - Protopopov, A. I.

AU - Li, J.

AU - Vorobieva, N. V.

AU - Fedorova, L.

AU - Zabarovska, V. I.

AU - Muravenko, O. V.

AU - Kost-Alimova, M.

AU - Domninsky, D. A.

AU - Kiss, C.

AU - Allikmets, R.

AU - Zakharyev, V. M.

AU - Braga, E. A.

AU - Sumegi, Janos

AU - Lerman, M.

AU - Wahlestedt, C.

AU - Zelenin, A. V.

AU - Sheer, D.

AU - Winberg, G.

AU - Grafodatsky, A.

AU - Kisselev, L. L.

AU - Klein, G.

AU - Zabarovsky, E. R.

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