SMC1A

Description

structural maintenance of chromosomes 1A

Summary

Proper cohesion of sister chromatids is a prerequisite for the correct segregation of chromosomes during cell division. The cohesin multiprotein complex is required for sister chromatid cohesion. This complex is composed partly of two structural maintenance of chromosomes (SMC) proteins, SMC3 and either SMC1B or the protein encoded by this gene. Most of the cohesin complexes dissociate from the chromosomes before mitosis, although those complexes at the kinetochore remain. Therefore, the encoded protein is thought to be an important part of functional kinetochores. In addition, this protein interacts with BRCA1 and is phosphorylated by ATM, indicating a potential role for this protein in DNA repair. This gene, which belongs to the SMC gene family, is located in an area of the X-chromosome that escapes X inactivation. Mutations in this gene result in Cornelia de Lange syndrome. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2013]

Location

Xp11.22

External Links
GeneCards , NCBI

Executive summary

  • SMC1A was screened in 216 cell lines with 5 shRNAs, and 285 cell lines with 5 shRNAs.
  • SMC1A was a six-sigma dependency in 74 cell lines.
  • The search for "Unbiased" MDPs resulted in the most predictive model for SMC1A which had an out-of-bag R^2 of 0.31 (FDR 2.88e-02). In addition, this gene had a significant model when searching for the following MDPs: "Unbiased", "Related features", "CYCLOPS".

Dependency profile

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Scatterplots of dependency vs Expression/Copy Number

Scatterplot Dependency vs Expression

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Scatterplot Dependency vs Copy Number

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Gene's correlated to SMC1A's dependency profile

Table genes' correlated

Correlated gene dependency Correlation (r) Z_score

Correlation graph for SMC1A

Biomarkers for dependency on SMC1A (ATLANTIS)

Context Dependency dataset Biomarker types Biomarker subset Score transform Top biomarker R^2 P-Value FDR Reports

ShRNA Hairpin level scores

55k shRNA library (v2.4.6)

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98k shRNA library (v2.19.2)

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ShRNA Quality

shRNA ID Gene Symbol Seed1 Sequence Seed2 Sequence Gene Rsquared Seed1 Rsquared Seed2 Rsquared Seeds Rsquared Other Gene Rsquared Total Rsquared Alpha1 Alpha2 Beta Other Gene Symbol