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- Sulimova, GE, et al.
(författare)
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Human chromosome 3: integration of 60 NotI clones into a physical and gene map
- 2002
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Ingår i: Cytogenetic and genome research. - : S. Karger AG. - 1424-8581 .- 1424-859X. ; 98:2-3, s. 177-183
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Tidskriftsartikel (refereegranskat)abstract
- Sequence tagged sites generated for 60 <i>Not</i>I clones (<i>Not</i>I-STSs) from human chromosome 3-specific <i>Not</i>I-jumping and <i>Not</i>I-linking libraries were physically located using PCR screening of a radiation hybrid (RH) GeneBridge4 panel. The <i>Not</i>I map of chromosome 3 was generated using these RH-mapping data and those obtained earlier by FISH and sequencing of the corresponding <i>Not</i>I clones. The sequences of the <i>Not</i>I clones showed significant homologies with known genes and/or ESTs for 58 <i>Not</i>I-STSs (97%). These 58 <i>Not</i>I clones displayed 91–100% identity to 54 genes and 23 cDNA/EST clones. One known and two hypothetical protein-coding genes were localized for the first time and nine cDNA clones (unknown genes) were also carefully mapped only in this work. Three newly mapped genes are histone gene H1X (NR1-BK20C) and genes for hypothetical proteins THC1032178 and THC1024604 (NL1-243).
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- Dmitriev, AA, et al.
(författare)
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Epigenetic alterations of chromosome 3 revealed by NotI-microarrays in clear cell renal cell carcinoma
- 2014
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Ingår i: BioMed research international. - : Hindawi Limited. - 2314-6141 .- 2314-6133. ; 2014, s. 735292-
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Tidskriftsartikel (refereegranskat)abstract
- This study aimed to clarify epigenetic and genetic alterations that occur during renal carcinogenesis. The original method includes chromosome 3 specific NotI-microarrays containing 180 NotI-clones associated with 188 genes for hybridization with 23 paired normal/tumor DNA samples of primary clear cell renal cell carcinomas (ccRCC). Twenty-two genes showed methylation and/or deletion in 17–57% of tumors. These genes include tumor suppressors or candidates (VHL, CTDSPL, LRRC3B, ALDH1L1, andEPHB1) and genes that were not previously considered as cancer-associated (e.g.,LRRN1, GORASP1, FGD5, andPLCL2). Bisulfite sequencing analysis confirmed methylation as a frequent event in ccRCC. A set of six markers (NKIRAS1/RPL15, LRRN1, LRRC3B, CTDSPL, GORASP1/TTC21A, andVHL) was suggested for ccRCC detection in renal biopsies. The mRNA level decrease was shown for 6 NotI-associated genes in ccRCC using quantitative PCR:LRRN1, GORASP1, FOXP1, FGD5, PLCL2,andALDH1L1. The majority of examined genes showed distinct expression profiles in ccRCC and papillary RCC. The strongest extent and frequency of downregulation were shown forALDH1L1gene both in ccRCC and papillary RCC. Moreover, the extent ofALDH1L1mRNA level decrease was more pronounced in both histological types of RCC stage III compared with stages I and II (P=0.03). The same was observed forFGD5gene in ccRCC (P<0.06).
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