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Bimodal gene expression patterns in breast cancer.

Bessarabova M, Kirillov E, Shi W, Bugrim A, Nikolsky Y, Nikolskaya T - BMC Genomics (2010)

Bottom Line: We identified a set of genes with an unexpected bimodal distribution among breast cancer patients in multiple studies.The property of bimodality seems to be common, as these genes were found on multiple microarray platforms and in studies with different end-points and patient cohorts.Bimodal genes tend to cluster into small groups of four to six genes with synchronised expression within the group (but not between the groups), which makes them good candidates for robust conditional descriptors.

View Article: PubMed Central - HTML - PubMed

Affiliation: Russian Academy of Sciences, Vavilov Institute for General Genetics, ul. Gubkina, 3, Moscow, Russia. bessarabova@genego.com

ABSTRACT
We identified a set of genes with an unexpected bimodal distribution among breast cancer patients in multiple studies. The property of bimodality seems to be common, as these genes were found on multiple microarray platforms and in studies with different end-points and patient cohorts. Bimodal genes tend to cluster into small groups of four to six genes with synchronised expression within the group (but not between the groups), which makes them good candidates for robust conditional descriptors. The groups tend to form concise network modules underlying their function in cancerogenesis of breast neoplasms.

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Related in: MedlinePlus

Identification of the "close" groups of genes in the space of 295 samples (Sorlie295 data set). (A) No close group is found for HMGA1 as query gene. OX: relative distances from the query gene to all 10604 array genes. OY: the number of genes. (B) Clear close group around ERBB2/GRB7 (encircled). OX: relative distances from the query gene to all 10604 array genes. OY: the number of genes.
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Figure 7: Identification of the "close" groups of genes in the space of 295 samples (Sorlie295 data set). (A) No close group is found for HMGA1 as query gene. OX: relative distances from the query gene to all 10604 array genes. OY: the number of genes. (B) Clear close group around ERBB2/GRB7 (encircled). OX: relative distances from the query gene to all 10604 array genes. OY: the number of genes.

Mentions: The outliers to 0 were added to the candidate genes (Figure 7). This method allows us to identify groups of genes with similar expression profiles within the group and sufficiently different from other genes.


Bimodal gene expression patterns in breast cancer.

Bessarabova M, Kirillov E, Shi W, Bugrim A, Nikolsky Y, Nikolskaya T - BMC Genomics (2010)

Identification of the "close" groups of genes in the space of 295 samples (Sorlie295 data set). (A) No close group is found for HMGA1 as query gene. OX: relative distances from the query gene to all 10604 array genes. OY: the number of genes. (B) Clear close group around ERBB2/GRB7 (encircled). OX: relative distances from the query gene to all 10604 array genes. OY: the number of genes.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC2822536&req=5

Figure 7: Identification of the "close" groups of genes in the space of 295 samples (Sorlie295 data set). (A) No close group is found for HMGA1 as query gene. OX: relative distances from the query gene to all 10604 array genes. OY: the number of genes. (B) Clear close group around ERBB2/GRB7 (encircled). OX: relative distances from the query gene to all 10604 array genes. OY: the number of genes.
Mentions: The outliers to 0 were added to the candidate genes (Figure 7). This method allows us to identify groups of genes with similar expression profiles within the group and sufficiently different from other genes.

Bottom Line: We identified a set of genes with an unexpected bimodal distribution among breast cancer patients in multiple studies.The property of bimodality seems to be common, as these genes were found on multiple microarray platforms and in studies with different end-points and patient cohorts.Bimodal genes tend to cluster into small groups of four to six genes with synchronised expression within the group (but not between the groups), which makes them good candidates for robust conditional descriptors.

View Article: PubMed Central - HTML - PubMed

Affiliation: Russian Academy of Sciences, Vavilov Institute for General Genetics, ul. Gubkina, 3, Moscow, Russia. bessarabova@genego.com

ABSTRACT
We identified a set of genes with an unexpected bimodal distribution among breast cancer patients in multiple studies. The property of bimodality seems to be common, as these genes were found on multiple microarray platforms and in studies with different end-points and patient cohorts. Bimodal genes tend to cluster into small groups of four to six genes with synchronised expression within the group (but not between the groups), which makes them good candidates for robust conditional descriptors. The groups tend to form concise network modules underlying their function in cancerogenesis of breast neoplasms.

Show MeSH
Related in: MedlinePlus