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Alternative spliced genes inferred by applying Hu's method to our dataset: Comparison of normal cerebellum with medulloblastoma samples |
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| Affy Probe Set ID |
Gene Symbol |
Number of Affymetrix Probes in the Predicted Pseudo-exon |
Nucleotide Positions of Predicted Pseudo-exon in the Gene |
Description of the Genes |
|
|
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| X51362_s_at |
DRD2 |
2 |
(2541–2574) |
dopamine receptor D2 |
| M15517_cds5_at |
TTR |
3 |
(155–197) |
transthyretin (prealbumin, amyloidosis type I) |
| Y10141_s_at |
SLC6A3 |
2 |
(96–125) |
solute carrier family 6 (neurotransmitter transporter, dopamine), member 3 |
| Z14982_rna1_at |
PSMB8 |
2 |
(820–850) |
proteasome (prosome, macropain) subunit, beta type, 8 (large multifunctional protease 7) |
| X69654_at |
RPS26 |
2 |
(9–35) |
ribosomal protein S26 |
| U63842_at |
NEUROG1 |
2 |
(834–891) |
neurogenin 1 |
| M97815_at |
CRABP2 |
2 |
(524–554) |
cellular retinoic acid binding protein 2 |
| D00017_at |
ANXA2 |
2 |
(1229–1265) |
annexin A2 |
| U13021_s_at |
CASP2 |
3 |
(844–913) |
caspase 2, apoptosis-related cysteine protease (neural precursor cell expressed, developmentally down-regulated 2) |
| U30999_at |
ALCAM |
2 |
(373–403) |
activated leukocyte cell adhesion molecule |
| X04828_at |
GNAI2 |
3 |
(1668–1701) |
guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 2 |
| U14971_at |
RPS9 |
2 |
(319–373) |
ribosomal protein S9 |
| U79299_at |
OLFM1 |
2 |
(1342–1372) |
olfactomedin 1 |
| L20298_at |
CBFB |
2 |
(2298–2334) |
core-binding factor, beta subunit |
| X93017_at |
SLC8A3 |
2 |
(1725–1821) |
solute carrier family 8 (sodium-calcium exchanger), member 3 |
| M17886_at |
RPLP1 |
2 |
(127–163) |
ribosomal protein, large, P1 |
| D16480_at |
HADHA |
2 |
(2335–2365) |
hydroxyacyl-Coenzyme A dehydrogenase/3-ketoacyl-Coenzyme A thiolase/enoyl-Coenzyme A hydratase (trifunctional protein), alpha subunit |
| D38305_at |
TOB1 |
2 |
(707–749) |
transducer of ERBB2, 1 |
| U32519_at |
G3BP |
2 |
(1534–1564) |
Ras-GTPase-activating protein SH3-domain-binding protein |
| U07919_at |
ALDH1A3 |
3 |
(3363–3411) |
aldehyde dehydrogenase 1 family, member A3 |
| U29953_rna1_at |
SERPINF1 |
2 |
(1288–1324) |
serine (or cysteine) proteinase inhibitor, clade F (alpha-2 antiplasmin, pigment epithelium derived factor), member 1 |
| D55716_at |
MCM7 |
2 |
(2288–2396) |
MCM7 minichromosome maintenance deficient 7 (S. cerevisiae) |
| J05448_at |
POLR2C |
2 |
(1575–1605) |
polymerase (RNA) II (DNA directed) polypeptide C, 33 kDa |
| U46570_at |
TTC1 |
2 |
(1226–1262) |
tetratricopeptide repeat domain 1 |
| D87119_at |
TRB2 |
2 |
(4022–4136) |
tribbles homolog 2 |
| X69910_at |
CKAP4 |
2 |
(2543–2573) |
cytoskeleton-associated protein 4 |
| U50078_at |
HERC1 |
2 |
(14885–14915) |
hect (homologous to the E6-AP (UBE3A) carboxyl terminus) domain and RCC1 (CHC1)-like domain (RLD) 1 |
| J04164_at |
IFITM1 |
2 |
(798–828) |
interferon induced transmembrane protein 1 (9–27) |
| AFFX-HUMRGE/M10098_3_at |
N/A |
2 |
(1562–1613) |
N/A |
| HG2788-HT2896_at |
N/A |
2 |
(N/A-N/A) |
N/A |
| HG2994-HT4850_s_at |
N/A |
2 |
(N/A-N/A) |
N/A |
|
Number of Affymetrix Probes in the Predicted Pseudo-exon: number of probes that are contained in a predicted alternatively spliced pseudo-exon. Nucleotide Positions of Predicted Pseudo-exon in the Gene: nucleotide positions of the pseudo-exon from the beginning of the gene it resides. Mean difference: Mean difference of the expression values between the two tissue types being compared for each predicted pseudo-exon in the t-test in STEP 2. Standard Error: the standard error calculated in the same t-test. Z-score: the ratio of mean difference over standard error (noise), a measure of significance of the difference between the two tissues being compared. The sign of the Z-scores indicate direction of the difference. A negative Z-score means a lower expression in metastatic medulloblastomas than in non-metastatic medulloblastomas, and vice-versa for a positive Z-score. | ||||
Fan et al. Theoretical Biology and Medical Modelling 2006 3:19 doi:10.1186/1742-4682-3-19 |
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