1. CrossHub: a tool for multi-way analysis of The Cancer Genome Atlas (TCGA) in the context of gene expression regulation mechanisms.

    Nucleic Acids Research 44(7):e62 (2016) PMID 26773058 PMCID PMC4838350

    The contribution of different mechanisms to the regulation of gene expression varies for different tissues and tumors. Complementation of predicted mRNA-miRNA and gene-transcription factor (TF) relationships with the results of expression correlation analyses derived for specific tumor types out...
  2. Tumor Suppressor Function of the SEMA3B Gene in Human Lung and Renal Cancers.

    PLoS ONE 10(5):e0123369 (2015) PMID 25961819 PMCID PMC4427300

    The SEMA3B gene is located in the 3p21.3 LUCA region, which is frequently affected in different types of cancer. The objective of our study was to expand our knowledge of the SEMA3B gene as a tumor suppressor and the mechanisms of its inactivation. In this study, several experimental approaches ...
  3. Identification of Novel Epigenetic Markers of Prostate Cancer by NotI-Microarray Analysis.

    Disease Markers 2015:241301 (2015) PMID 26491211 PMCID PMC4602334

    A significant need for reliable and accurate cancer diagnostics and prognosis compels the search for novel biomarkers that would be able to discriminate between indolent and aggressive tumors at the early stages of disease. The aim of this work was identification of potential diagnostic biomarke...
  4. Epigenetic alterations of chromosome 3 revealed by NotI-microarrays in clear cell renal cell carcinoma.

    BioMed Research International 2014:735292 (2014) PMID 24977159 PMCID PMC4054851

    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 cle...
  5. Novel tumor suppressor candidates on chromosome 3 revealed by NotI-microarrays in cervical cancer.

    Epigenetics 8(4):409 (2013) PMID 23478628 PMCID PMC3674050

    Genetic and epigenetic alterations in cervical carcinomas were investigated using NotI-microarrays containing 180 cloned sequences flanking all NotI-sites associated with genes on chromosome 3. In total, 48 paired normal/tumor DNA samples, specifically enriched in NotI-sites, were hybridized to ...
  6. LRRC3B gene is frequently epigenetically inactivated in several epithelial malignancies and inhibits cell growth and replication.

    Biochimie 94(5):1151 (2012) PMID 22321817

    Chromosome 3 specific NotI microarrays containing 180 NotI linking clones associated with 188 genes were hybridized to NotI representation probes prepared using matched tumor/normal samples from major epithelial cancers: breast (47 pairs), lung (40 pairs) cervical (43 pairs), kidney (34 pairs of...
  7. Genetic and epigenetic analysis of non-small cell lung cancer with NotI-microarrays.

    Epigenetics 7(5):502 (2012) PMID 22491060

    This study aimed to clarify genetic and epigenetic alterations that occur during lung carcinogenesis and to design perspective sets of newly identified biomarkers. The original method includes chromosome 3 specific NotI-microarrays containing 180 NotI clones associated with genes for hybridizati...
  8. NotI microarrays: novel epigenetic markers for early detection and prognosis of high grade serous ovarian cancer.

    International Journal of Molecular Sciences 13(10):13352 (2012) PMID 23202957 PMCID PMC3497331

    Chromosome 3-specific NotI microarray (NMA) containing 180 clones with 188 genes was used in the study to analyze 18 high grade serous ovarian cancer (HGSOC) samples and 7 benign ovarian tumors. We aimed to find novel methylation-dependent biomarkers for early detection and prognosis of HGSOC. T...
  9. Differential expression of CHL1 gene during development of major human cancers.

    PLoS ONE 6(3):e15612 (2011) PMID 21408220 PMCID PMC3049765

    CHL1 gene (also known as CALL) on 3p26.3 encodes a one-pass trans-membrane cell adhesion molecule (CAM). Previously CAMs of this type, including L1, were shown to be involved in cancer growth and metastasis. We used Clontech Cancer Profiling Arrays (19 different types of cancers, 395 samples) to...
  10. Simultaneous down-regulation of tumor suppressor genes RBSP3/CTDSPL, NPRL2/G21 and RASSF1A in primary non-small cell lung cancer.

    BMC Cancer 10:75 (2010) PMID 20193080 PMCID PMC2841140

    The short arm of human chromosome 3 is involved in the development of many cancers including lung cancer. Three bona fide lung cancer tumor suppressor genes namely RBSP3 (AP20 region),NPRL2 and RASSF1A (LUCA region) were identified in the 3p21.3 region. We have shown previously that homozygous d...
  11. HYAL1 and HYAL2 inhibit tumour growth in vivo but not in vitro.

    PLoS ONE 3(8):e3031 (2008) PMID 18725949 PMCID PMC2516603

    We identified two 3p21.3 regions (LUCA and AP20) as most frequently affected in lung, breast and other carcinomas and reported their fine physical and gene maps. It is becoming increasingly clear that each of these two regions contains several TSGs. Until now TSGs which were isolated from AP20 a...
  12. Discovery of frequent homozygous deletions in chromosome 3p21.3 LUCA and AP20 regions in renal, lung and breast carcinomas.

    Oncogene 23(34):5719 (2004) PMID 15208675

    We searched for chromosome 3p homo- and hemizygous losses in 23 lung cancer cell lines, 53 renal cell and 22 breast carcinoma biopsies using 31 microsatellite markers located in frequently deleted 3p regions. In addition, two sequence-tagged site markers (NLJ-003 and NL3-001) located in the Alu-...
  13. RBSP3 (HYA22) is a tumor suppressor gene implicated in major epithelial malignancies.

    PNAS 101(14):4906 (2004) PMID 15051889 PMCID PMC387347

    Chromosome 3p21.3 region is frequently (>90%) deleted in lung and other major human carcinomas. We subdivided 3p21.3 into LUCA and AP20 subregions and discovered frequent homozygous deletions (10-18%) in both subregions. This finding strongly implies that they harbor multiple tumor suppressor ge...