Data set name: GSE412

Brief description:

The data set includes gene expression information on 110 childhood acute lymphoblastic leukemia samples. For this data set we induced models for two different classification problems. With the second model we try to distinguish between childhood acute lymphoblastic leukemia cells based on changes in gene expression after four different treatment types.

Platform: Affymetrix GeneChip Human Genome U95 Version [1 or 2] Set HG-U95A

Diagnostic classes:

- mercaptopurine alone (MP): 13 examples (21.7%)

- high-dose methotrexate (HDMTX): 21 examples (35.0%)

- mercaptopurine and low-dose methotrexate (LDMTX_MP): 16 examples (26.7%)

- mercaptopurine and high-dose methotrexate (HDMTX_MP): 10 examples (16.7%)

Predictive accuracy with 10-fold cross validation (classifying using the best projection with eight attributes):

Classification accuracy: 36.67%

Area under curve (AUC): 0.647

	Score: 69.61% Genes: 34510_at: DNA replication factor, CDT1 34525_at: T-cell leukemia/lymphoma 1B /// T-cell leukemia/lymphoma 6, TCL1B /// TCL6 31850_at: glutamate-cysteine ligase, catalytic subunit, GCLC 35942_at: GA binding protein transcription factor, beta subunit 2 /// hypothetical protein FLJ10038, GABPB2 /// FLJ10038 35940_at: POU domain, class 4, transcription factor 1, POU4F1 39927_at: Rho GTPase activating protein 5, ARHGAP5 31506_s_at: defensin, alpha 1, myeloid-related sequence /// defensin, alpha 3, neutrophil-specific, DEFA1 /// DEFA3 31793_at: defensin, alpha 3, neutrophil-specific, DEFA3
	Score: 66.27% Genes: 160042_s_at: homeo box B6, HOXB6 33270_i_at: Dmx-like 1, DMXL1 31506_s_at: defensin, alpha 1, myeloid-related sequence /// defensin, alpha 3, neutrophil-specific, DEFA1 /// DEFA3 41471_at: S100 calcium binding protein A9 (calgranulin B), S100A9 33353_at: adenylate cyclase 1 (brain), ADCY1 160022_at: colony stimulating factor 1 receptor, formerly McDonough feline sarcoma viral (v-fms) oncogene homolog, CSF1R
	Score: 65.70% Genes: 514_at: Cas-Br-M (murine) ecotropic retroviral transforming sequence b, CBLB 31850_at: glutamate-cysteine ligase, catalytic subunit, GCLC 31506_s_at: defensin, alpha 1, myeloid-related sequence /// defensin, alpha 3, neutrophil-specific, DEFA1 /// DEFA3 35169_at: collagen, type XVI, alpha 1, COL16A1

Attribute ranking

Following is the histogram of genes showing how often are they present in one of the top 100 radviz visualizations with 8 attributes.

Genes: 31506_s_at: defensin, alpha 1, myeloid-related sequence /// defensin, alpha 3, neutrophil-specific, DEFA1 /// DEFA3 33876_at: WW domain containing transcription regulator 1, WWTR1 31850_at: glutamate-cysteine ligase, catalytic subunit, GCLC 35158_at: v-myc myelocytomatosis viral related oncogene, neuroblastoma derived (avian), MYCN 160042_s_at: homeo box B6, HOXB6 35241_at: zinc finger protein 518, ZNF518 34525_at: T-cell leukemia/lymphoma 1B /// T-cell leukemia/lymphoma 6, TCL1B /// TCL6 514_at: Cas-Br-M (murine) ecotropic retroviral transforming sequence b, CBLB 1577_at: androgen receptor (dihydrotestosterone receptor; testicular feminization; spinal and bulbar muscular atrophy; Kennedy disease), AR 160022_at: colony stimulating factor 1 receptor, formerly McDonough feline sarcoma viral (v-fms) oncogene homolog, CSF1R 947_at: MCM7 minichromosome maintenance deficient 7 (S. cerevisiae), MCM7 37458_at: CDC45 cell division cycle 45-like (S. cerevisiae), CDC45L 1783_at: Ras and Rab interactor 2, RIN2 34510_at: DNA replication factor, CDT1 37781_at: neurexin 2, NRXN2 39927_at: Rho GTPase activating protein 5, ARHGAP5 40589_at: syntrophin, beta 2 (dystrophin-associated protein A1, 59kDa, basic component 2), SNTB2 1206_at: cyclin-dependent kinase 5, CDK5 31793_at: defensin, alpha 3, neutrophil-specific, DEFA3 1462_s_at: polymerase (DNA directed), delta 1, catalytic subunit 125kDa, POLD1