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["In this study, we implement a rank difference analysis by settingquantile normalization as the reference."]
[]
["All the ranks are inverse ranks, that saying, the largest absolute t-statistic (the most significant) has rank 1, and so forth."]
[]
["Probe set name",null,"Gene symbol",null,"Quantile Rank",null,"Super-delta Rank",null,"Rank Difference",null,null,"Number of genesNOT significant for super-delta"]
[]
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["210058_at",null,"MAPK13",null,{"$f":"E942+1","v":937},null,877,null,{"$f":"G943-E943","v":-60},null,{"$f":"IF(G943>1000,\"Yes\",\" \")","v":" "}]
["219460_s_at",null,"TMEM127",null,{"$f":"E943+1","v":938},null,2967,null,{"$f":"G944-E944","v":2029},null,{"$f":"IF(G944>1000,\"Yes\",\" \")","v":"Yes"}]
["203632_s_at",null,"GPRC5B",null,{"$f":"E944+1","v":939},null,259,null,{"$f":"G945-E945","v":-680},null,{"$f":"IF(G945>1000,\"Yes\",\" \")","v":" "}]
["209420_s_at",null,"SMPD1",null,{"$f":"E945+1","v":940},null,2774,null,{"$f":"G946-E946","v":1834},null,{"$f":"IF(G946>1000,\"Yes\",\" \")","v":"Yes"}]
["200011_s_at",null,"ARF3",null,{"$f":"E946+1","v":941},null,3299,null,{"$f":"G947-E947","v":2358},null,{"$f":"IF(G947>1000,\"Yes\",\" \")","v":"Yes"}]
["207122_x_at",null,"SULT1A2",null,{"$f":"E947+1","v":942},null,1678,null,{"$f":"G948-E948","v":736},null,{"$f":"IF(G948>1000,\"Yes\",\" \")","v":"Yes"}]
["201177_s_at",null,"UBA2",null,{"$f":"E948+1","v":943},null,618,null,{"$f":"G949-E949","v":-325},null,{"$f":"IF(G949>1000,\"Yes\",\" \")","v":" "}]
["212912_at",null,"RPS6KA2",null,{"$f":"E949+1","v":944},null,1010,null,{"$f":"G950-E950","v":66},null,{"$f":"IF(G950>1000,\"Yes\",\" \")","v":"Yes"}]
["213838_at",null,"NOL7",null,{"$f":"E950+1","v":945},null,2214,null,{"$f":"G951-E951","v":1269},null,{"$f":"IF(G951>1000,\"Yes\",\" \")","v":"Yes"}]
["214177_s_at",null,"PBXIP1",null,{"$f":"E951+1","v":946},null,2825,null,{"$f":"G952-E952","v":1879},null,{"$f":"IF(G952>1000,\"Yes\",\" \")","v":"Yes"}]
["208868_s_at",null,"GABARAPL1",null,{"$f":"E952+1","v":947},null,1457,null,{"$f":"G953-E953","v":510},null,{"$f":"IF(G953>1000,\"Yes\",\" \")","v":"Yes"}]
["215833_s_at",null,"SPPL2B",null,{"$f":"E953+1","v":948},null,2717,null,{"$f":"G954-E954","v":1769},null,{"$f":"IF(G954>1000,\"Yes\",\" \")","v":"Yes"}]
["209091_s_at",null,"SH3GLB1",null,{"$f":"E954+1","v":949},null,669,null,{"$f":"G955-E955","v":-280},null,{"$f":"IF(G955>1000,\"Yes\",\" \")","v":" "}]
["205420_at",null,"PEX7",null,{"$f":"E955+1","v":950},null,933,null,{"$f":"G956-E956","v":-17},null,{"$f":"IF(G956>1000,\"Yes\",\" \")","v":" "}]
["217741_s_at",null,"ZFAND5",null,{"$f":"E956+1","v":951},null,743,null,{"$f":"G957-E957","v":-208},null,{"$f":"IF(G957>1000,\"Yes\",\" \")","v":" "}]
["218604_at",null,"LEMD3",null,{"$f":"E957+1","v":952},null,3329,null,{"$f":"G958-E958","v":2377},null,{"$f":"IF(G958>1000,\"Yes\",\" \")","v":"Yes"}]
["212404_s_at",null,"UBE3B",null,{"$f":"E958+1","v":953},null,2682,null,{"$f":"G959-E959","v":1729},null,{"$f":"IF(G959>1000,\"Yes\",\" \")","v":"Yes"}]
["202249_s_at",null,"DCAF8",null,{"$f":"E959+1","v":954},null,2862,null,{"$f":"G960-E960","v":1908},null,{"$f":"IF(G960>1000,\"Yes\",\" \")","v":"Yes"}]
["218298_s_at",null,"C14orf159",null,{"$f":"E960+1","v":955},null,1245,null,{"$f":"G961-E961","v":290},null,{"$f":"IF(G961>1000,\"Yes\",\" \")","v":"Yes"}]
["214732_at",null,"SP1",null,{"$f":"E961+1","v":956},null,2398,null,{"$f":"G962-E962","v":1442},null,{"$f":"IF(G962>1000,\"Yes\",\" \")","v":"Yes"}]
["201321_s_at",null,"SMARCC2",null,{"$f":"E962+1","v":957},null,2104,null,{"$f":"G963-E963","v":1147},null,{"$f":"IF(G963>1000,\"Yes\",\" \")","v":"Yes"}]
["211967_at",null,"TMEM123",null,{"$f":"E963+1","v":958},null,348,null,{"$f":"G964-E964","v":-610},null,{"$f":"IF(G964>1000,\"Yes\",\" \")","v":" "}]
["41660_at",null,"CELSR1",null,{"$f":"E964+1","v":959},null,824,null,{"$f":"G965-E965","v":-135},null,{"$f":"IF(G965>1000,\"Yes\",\" \")","v":" "}]
["209513_s_at",null,"HSDL2",null,{"$f":"E965+1","v":960},null,2217,null,{"$f":"G966-E966","v":1257},null,{"$f":"IF(G966>1000,\"Yes\",\" \")","v":"Yes"}]
["217939_s_at",null,"AFTPH",null,{"$f":"E966+1","v":961},null,2416,null,{"$f":"G967-E967","v":1455},null,{"$f":"IF(G967>1000,\"Yes\",\" \")","v":"Yes"}]
["203789_s_at",null,"SEMA3C",null,{"$f":"E967+1","v":962},null,472,null,{"$f":"G968-E968","v":-490},null,{"$f":"IF(G968>1000,\"Yes\",\" \")","v":" "}]
["202917_s_at",null,"S100A8",null,{"$f":"E968+1","v":963},null,287,null,{"$f":"G969-E969","v":-676},null,{"$f":"IF(G969>1000,\"Yes\",\" \")","v":" "}]
["208365_s_at",null,"GRK4",null,{"$f":"E969+1","v":964},null,2242,null,{"$f":"G970-E970","v":1278},null,{"$f":"IF(G970>1000,\"Yes\",\" \")","v":"Yes"}]
["218080_x_at",null,"FAF1",null,{"$f":"E970+1","v":965},null,882,null,{"$f":"G971-E971","v":-83},null,{"$f":"IF(G971>1000,\"Yes\",\" \")","v":" "}]
["210563_x_at",null,"CFLAR",null,{"$f":"E971+1","v":966},null,616,null,{"$f":"G972-E972","v":-350},null,{"$f":"IF(G972>1000,\"Yes\",\" \")","v":" "}]
["204624_at",null,"ATP7B",null,{"$f":"E972+1","v":967},null,1661,null,{"$f":"G973-E973","v":694},null,{"$f":"IF(G973>1000,\"Yes\",\" \")","v":"Yes"}]
["37005_at",null,"NBL1",null,{"$f":"E973+1","v":968},null,1267,null,{"$f":"G974-E974","v":299},null,{"$f":"IF(G974>1000,\"Yes\",\" \")","v":"Yes"}]
["216565_x_at",null,null,null,{"$f":"E974+1","v":969},null,885,null,{"$f":"G975-E975","v":-84},null,{"$f":"IF(G975>1000,\"Yes\",\" \")","v":" "}]
["214658_at",null,"TMED7",null,{"$f":"E975+1","v":970},null,421,null,{"$f":"G976-E976","v":-549},null,{"$f":"IF(G976>1000,\"Yes\",\" \")","v":" "}]
["221874_at",null,"KIAA1324",null,{"$f":"E976+1","v":971},null,644,null,{"$f":"G977-E977","v":-327},null,{"$f":"IF(G977>1000,\"Yes\",\" \")","v":" "}]
["200071_at",null,"SMNDC1",null,{"$f":"E977+1","v":972},null,827,null,{"$f":"G978-E978","v":-145},null,{"$f":"IF(G978>1000,\"Yes\",\" \")","v":" "}]
["219000_s_at",null,"DSCC1",null,{"$f":"E978+1","v":973},null,922,null,{"$f":"G979-E979","v":-51},null,{"$f":"IF(G979>1000,\"Yes\",\" \")","v":" "}]
["205480_s_at",null,"UGP2",null,{"$f":"E979+1","v":974},null,438,null,{"$f":"G980-E980","v":-536},null,{"$f":"IF(G980>1000,\"Yes\",\" \")","v":" "}]
["215471_s_at",null,"MAP7",null,{"$f":"E980+1","v":975},null,2002,null,{"$f":"G981-E981","v":1027},null,{"$f":"IF(G981>1000,\"Yes\",\" \")","v":"Yes"}]
["212247_at",null,"NUP205",null,{"$f":"E981+1","v":976},null,645,null,{"$f":"G982-E982","v":-331},null,{"$f":"IF(G982>1000,\"Yes\",\" \")","v":" "}]
["220500_s_at",null,"RABL2A /// RABL2B",null,{"$f":"E982+1","v":977},null,1900,null,{"$f":"G983-E983","v":923},null,{"$f":"IF(G983>1000,\"Yes\",\" \")","v":"Yes"}]
["201234_at",null,"ILK",null,{"$f":"E983+1","v":978},null,4696,null,{"$f":"G984-E984","v":3718},null,{"$f":"IF(G984>1000,\"Yes\",\" \")","v":"Yes"}]
["204547_at",null,"RAB40B",null,{"$f":"E984+1","v":979},null,525,null,{"$f":"G985-E985","v":-454},null,{"$f":"IF(G985>1000,\"Yes\",\" \")","v":" "}]
["221599_at",null,"C11orf67",null,{"$f":"E985+1","v":980},null,1564,null,{"$f":"G986-E986","v":584},null,{"$f":"IF(G986>1000,\"Yes\",\" \")","v":"Yes"}]
["210691_s_at",null,"CACYBP",null,{"$f":"E986+1","v":981},null,850,null,{"$f":"G987-E987","v":-131},null,{"$f":"IF(G987>1000,\"Yes\",\" \")","v":" "}]
["218532_s_at",null,"FAM134B",null,{"$f":"E987+1","v":982},null,535,null,{"$f":"G988-E988","v":-447},null,{"$f":"IF(G988>1000,\"Yes\",\" \")","v":" "}]
["205221_at",null,"HGD",null,{"$f":"E988+1","v":983},null,636,null,{"$f":"G989-E989","v":-347},null,{"$f":"IF(G989>1000,\"Yes\",\" \")","v":" "}]
["218038_at",null,"ATP5SL",null,{"$f":"E989+1","v":984},null,3118,null,{"$f":"G990-E990","v":2134},null,{"$f":"IF(G990>1000,\"Yes\",\" \")","v":"Yes"}]
["213228_at",null,"PDE8B",null,{"$f":"E990+1","v":985},null,1679,null,{"$f":"G991-E991","v":694},null,{"$f":"IF(G991>1000,\"Yes\",\" \")","v":"Yes"}]
["214011_s_at",null,"NOP16",null,{"$f":"E991+1","v":986},null,951,null,{"$f":"G992-E992","v":-35},null,{"$f":"IF(G992>1000,\"Yes\",\" \")","v":" "}]
["204917_s_at",null,"MLLT3",null,{"$f":"E992+1","v":987},null,1520,null,{"$f":"G993-E993","v":533},null,{"$f":"IF(G993>1000,\"Yes\",\" \")","v":"Yes"}]
["200047_s_at",null,"YY1",null,{"$f":"E993+1","v":988},null,632,null,{"$f":"G994-E994","v":-356},null,{"$f":"IF(G994>1000,\"Yes\",\" \")","v":" "}]
["221436_s_at",null,"CDCA3",null,{"$f":"E994+1","v":989},null,611,null,{"$f":"G995-E995","v":-378},null,{"$f":"IF(G995>1000,\"Yes\",\" \")","v":" "},null,null,null,"Rank Difference Analysis"]
["205241_at",null,"SCO2",null,{"$f":"E995+1","v":990},null,1428,null,{"$f":"G996-E996","v":438},null,{"$f":"IF(G996>1000,\"Yes\",\" \")","v":"Yes"},{"$nulls":4},"Difference","Probe set","Gene symbol","(Pooled) variance"]
["220299_at",null,"SPATA6",null,{"$f":"E996+1","v":991},null,1685,null,{"$f":"G997-E997","v":694},null,{"$f":"IF(G997>1000,\"Yes\",\" \")","v":"Yes"},null,null,null,1,{"$f":"LARGE(I$7:J$1006,O997)","v":4732},"215963_x_at","RPL3",1.1456,"Mean of variance"]
["221734_at",null,"PRRC1",null,{"$f":"E997+1","v":992},null,2603,null,{"$f":"G998-E998","v":1611},null,{"$f":"IF(G998>1000,\"Yes\",\" \")","v":"Yes"},null,null,null,2,{"$f":"LARGE(I$7:J$1006,O998)","v":3718},"201234_at","ILK",0.9163,1.1431]
["218051_s_at",null,"NT5DC2",null,{"$f":"E998+1","v":993},null,386,null,{"$f":"G999-E999","v":-607},null,{"$f":"IF(G999>1000,\"Yes\",\" \")","v":" "},null,null,null,3,{"$f":"LARGE(I$7:J$1006,O999)","v":3709},"200053_at","SPAG7",0.75,"Median of variance"]
["AFFX-HSAC07/X00351_5_at",null,"ACTB",null,{"$f":"E999+1","v":994},null,748,null,{"$f":"G1000-E1000","v":-246},null,{"$f":"IF(G1000>1000,\"Yes\",\" \")","v":" "},null,null,null,4,{"$f":"LARGE(I$7:J$1006,O1000)","v":3451},"46256_at","SPSB3",0.671,0.994]
["219489_s_at",null,"NXN",null,{"$f":"E1000+1","v":995},null,349,null,{"$f":"G1001-E1001","v":-646},null,{"$f":"IF(G1001>1000,\"Yes\",\" \")","v":" "},null,null,null,5,{"$f":"LARGE(I$7:J$1006,O1001)","v":3434},"35671_at","GTF3C1",0.828]
["218483_s_at",null,"IFT46",null,{"$f":"E1001+1","v":996},null,1702,null,{"$f":"G1002-E1002","v":706},null,{"$f":"IF(G1002>1000,\"Yes\",\" \")","v":"Yes"},null,null,null,6,{"$f":"LARGE(I$7:J$1006,O1002)","v":3326},"208759_at","NCSTN",0.7919]
["212622_at",null,"TMEM41B",null,{"$f":"E1002+1","v":997},null,2625,null,{"$f":"G1003-E1003","v":1628},null,{"$f":"IF(G1003>1000,\"Yes\",\" \")","v":"Yes"},null,null,null,7,{"$f":"LARGE(I$7:J$1006,O1003)","v":3237},"203050_at","TP53BP1",0.6539]
["211033_s_at",null,"PEX7",null,{"$f":"E1003+1","v":998},null,2299,null,{"$f":"G1004-E1004","v":1301},null,{"$f":"IF(G1004>1000,\"Yes\",\" \")","v":"Yes"},null,null,null,8,{"$f":"LARGE(I$7:J$1006,O1004)","v":3006},"200809_x_at","RPL12",1.2678]
["201916_s_at",null,"SEC63",null,{"$f":"E1004+1","v":999},null,464,null,{"$f":"G1005-E1005","v":-535},null,{"$f":"IF(G1005>1000,\"Yes\",\" \")","v":" "},null,null,null,9,{"$f":"LARGE(I$7:J$1006,O1005)","v":2818},"200814_at","PSME1",1.4058]
["201725_at",null,"CDC123",null,{"$f":"E1005+1","v":1000},null,596,null,{"$f":"G1006-E1006","v":-404},null,{"$f":"IF(G1006>1000,\"Yes\",\" \")","v":" "},null,null,null,10,{"$f":"LARGE(I$7:J$1006,O1006)","v":2615},"218089_at","C20orf4",0.6584]
[]
["201234_at","ILK"]
{"$rows_empty":24}
["200053_at","SPAG7"]
{"$rows_empty":24}
["46256_at","SPSB3"]
{"$rows_empty":24}
["35671_at","GTF3C1"]
{"$rows_empty":24}
["208759_at","NCSTN"]
{"$rows_empty":24}
["203050_at","TP53BP1"]
{"$rows_empty":24}
["200809_x_at","RPL12"]
{"$rows_empty":24}
["200814_at","PSME1"]
{"$rows_empty":24}
["218089_at","C20orf4"]

{"sheet":"Rank_Diff1_Annot","index":1,"n_rows":11,"n_cols":3,"rows_kept":11,"cut":false,"hidden":false,"merged":[]}
["Probe set","Gene symbol","Annotation"]
["215963_x_at","RPL3","Ribosomes, the complexes that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 60S subunit. The protein belongs to the L3P family of ribosomal proteins and it is located in the cytoplasm. The protein can bind to the HIV-1 TAR mRNA, and it has been suggested that the protein contributes to tat-mediated transactivation. This gene is co-transcribed with several small nucleolar RNA genes, which are located in several of this gene's introns. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. RPL3 (Ribosomal Protein L3) is a Protein Coding gene. Diseases associated with RPL3 include diamond-blackfan anemia and hiv-1. Among its related pathways are Infectious disease and Transport to the Golgi and subsequent modification. GO annotations related to this gene include poly(A) RNA binding and structural constituent of ribosome. An important paralog of this gene is RPL3L.                1. Hallett et. al. A Gene Signature for Predicting Outcome in Patients withBasal-like Breast Cancer; 2. Wang et. al. Essential role of cell cycle regulatory genes p21 and p27 expression in inhibition ofbreast cancer cells by arsenic trioxide"]
["201234_at","ILK","This gene encodes a protein with a kinase-like domain and four ankyrin-like repeats. The encoded protein associates at the cell membrane with the cytoplasmic domain of beta integrins, where it regulates integrin-mediated signal transduction. Activity of this protein is important in the epithelial to mesenchymal transition, and over-expression of this gene is implicated in tumor growth and metastasis. Alternative splicing results in multiple transcript variants. ILK (Integrin-Linked Kinase) is a Protein Coding gene. Diseases associated with ILK include scar contracture and bladder transitional cell carcinoma. Among its related pathways are Akt Signaling and ERK Signaling. GO annotations related to this gene includetransferase activity, transferring phosphorus-containing groupsandprotein tyrosine kinase activity. An important paralog of this gene is MAP3K9.            1. Dillon et. al. The phosphatidyl inositol 3-kinase signaling network: implications for humanbreast cancer; 2. Hannigan et. al. Integrin-linked kinase: a cancer therapeutic target unique among its ILK"]
["200053_at","SPAG7","SPAG7 (Sperm Associated Antigen 7) is a Protein Coding gene. Diseases associated with SPAG7 include chronic intestinal vascular insufficiency and pharyngitis. GO annotations related to this gene includenucleic acid binding.             1. Miller et. al. Gene Expression Profiles Differentiating BetweenBreast CancersClinically Responsive or Resistant to Letrozole; 2. Harada et. al. Genome-Wide Analysis ofPancreatic Cancer Using Microarray-Based Techniques"]
["46256_at","SPSB3","SPSB3 (SplA/Ryanodine Receptor Domain And SOCS Box Containing 3) is a Protein Coding gene. May be a substrate recognition component of a SCF-like ECS (Elongin BC-CUL2/5-SOCS-box protein) E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.          1. Zhang et. al. Identification and characterization of CCAAT/Enhancer Binding proteindelta (C/EBPdelta) target genes in G0 growth arrested mammary epithelial cells. Not much related literature."]
["35671_at","GTF3C1","GTF3C1 (General Transcription Factor IIIC, Polypeptide 1, Alpha 220kDa) is a Protein Coding gene. Among its related pathways are Gene Expression and RNA Polymerase III Transcription Initiation. Required for RNA polymerase III-mediated transcription. Component of TFIIIC that initiates transcription complex assembly on tRNA and is required for transcription of 5S rRNA and other stable nuclear and cytoplasmic RNAs. Binds to the box B promoter element.           1. Cleator et. al. Gene expression patterns for doxorubicin (Adriamycin) and cyclophosphamide (Cytoxan) (AC) response and resistance"]
["208759_at","NCSTN","This gene encodes a type I transmembrane glycoprotein that is an integral component of the multimeric gamma-secretase complex. The encoded protein cleaves integral membrane proteins, including Notch receptors and beta-amyloid precursor protein, and may be a stabilizing cofactor required for gamma-secretase complex assembly. The cleavage of beta-amyloid precursor protein yields amyloid beta peptide, the main component of the neuritic plaque and the hallmark lesion in the brains of patients with Alzheimer's disease; however, the nature of the encoded protein's role in Alzheimer's disease is not known for certain. Mutations in this gene are associated with familial acne inversa. A pseudogene of this gene is present on chromosome 21. Alternatively spliced transcript variants of this gene have been described, but the full-length nature of some of these variants has not been determined. NCSTN (Nicastrin) is a Protein Coding gene. Diseases associated with NCSTN include acne inversa, familial, 1 and acne. Among its related pathways are Signaling by GPCR and Downstream signaling events of B Cell Receptor (BCR). GO annotations related to this gene include peptidase activity and endopeptidase activity.           1. Zhang et. al. Biomarker and Pharmacologic Evaluation of the γ-Secretase Inhibitor PF-03084014 inBreast Cancer Models"]
["203050_at","TP53BP1","TP53BP1 (Tumor Protein P53 Binding Protein 1) is a Protein Coding gene. Diseases associated with TP53BP1 include riddle syndrome and ataxia-telangiectasia. Among its related pathways are Cell Cycle, Mitotic and DNA Damage. GO annotations related to this gene include sequence-specific DNA binding and p53 binding. Plays a key role in the response to DNA damage. May have a role in checkpoint signaling during mitosis. Enhances TP53-mediated transcriptional activation.          1. Gianni et. al. Gene Expression Profiles in Paraffin-Embedded Core Biopsy Tissue PredictResponse to Chemotherapyin Women With Locally AdvancedBreast Cancer; 2. Song et. al. An miR-502–Binding Site Single-Nucleotide Polymorphism in the 3′-Untranslated Region of the SET8 Gene Is Associated with Early Age ofBreast Cancer Onset"]
["200809_x_at","RPL12","Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 60S subunit. The protein belongs to the L11P family of ribosomal proteins. It is located in the cytoplasm. The protein binds directly to the 26S rRNA. This gene is co-transcribed with the U65 snoRNA, which is located in its fourth intron. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. RPL12 (Ribosomal Protein L12) is a Protein Coding gene. Among its related pathways are Infectious disease and Transport to the Golgi and subsequent modification. GO annotations related to this gene include poly(A) RNA binding and structural constituent of ribosome.               1. Aaroe et. al.Gene expression profilingof peripheral blood cells for early detection of breast cancer"]
["200814_at","PSME1","The 26S proteasome is a multicatalytic proteinase complex with a highly ordered structure composed of 2 complexes, a 20S core and a 19S regulator. The 20S core is composed of 4 rings of 28 non-identical subunits; 2 rings are composed of 7 alpha subunits and 2 rings are composed of 7 beta subunits. The 19S regulator is composed of a base, which contains 6 ATPase subunits and 2 non-ATPase subunits, and a lid, which contains up to 10 non-ATPase subunits. Proteasomes are distributed throughout eukaryotic cells at a high concentration and cleave peptides in an ATP/ubiquitin-dependent process in a non-lysosomal pathway. An essential function of a modified proteasome, the immunoproteasome, is the processing of class I MHC peptides. The immunoproteasome contains an alternate regulator, referred to as the 11S regulator or PA28, that replaces the 19S regulator. Three subunits (alpha, beta and gamma) of the 11S regulator have been identified. This gene encodes the alpha subunit of the 11S regulator, one of the two 11S subunits that is induced by gamma-interferon. Three alpha and three beta subunits combine to form a heterohexameric ring. Alternative splicing results in multiple transcript variants. PSME1 (Proteasome Activator Subunit 1) is a Protein Coding gene. Among its related pathways are Immune System and Signaling by GPCR. GO annotations related to this gene include endopeptidase activator activity. An important paralog of this gene is PSME3.            1. Jansen et. al. Molecular Classification ofTamoxifen-Resistant Breast Carcinomas by Gene Expression Profiling"]
["218089_at","C20orf4","C20orf4 has an aliase of AAR2. This gene encodes the homolog of the yeast A1-alpha2 repressin protein that is involved in mRNA splicing. Alternately spliced transcript variants have been found for this gene. AAR2 (AAR2 Splicing Factor Homolog) is a Protein Coding gene.            1. Lidereau et. al. Method for predicting the occurrence of metastasis inbreast cancer patients (only 1 cited)"]

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["In this study, we implement a rank difference analysis by settingsuper-delta as the reference."]
[]
["All the ranks are inverse ranks, that saying, the largest absolute t-statistic (the most significant) has rank 1, and so forth."]
[]
["Probe set name",null,"Gene symbol",null,"Super-delta Rank",null,"Quantile Rank",null,"Rank Difference",null,null,"Number of genesNOT significant for quantile normalization"]
[]
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["201201_at",null,"CSTB",null,{"$f":"E947+1","v":942},null,1461,null,{"$f":"G948-E948","v":519},null,{"$f":"IF(G948>1000,\"Yes\",\" \")","v":"Yes"}]
["217820_s_at",null,"ENAH",null,{"$f":"E948+1","v":943},null,2166,null,{"$f":"G949-E949","v":1223},null,{"$f":"IF(G949>1000,\"Yes\",\" \")","v":"Yes"}]
["208874_x_at",null,"PPP2R4",null,{"$f":"E949+1","v":944},null,255,null,{"$f":"G950-E950","v":-689},null,{"$f":"IF(G950>1000,\"Yes\",\" \")","v":" "}]
["201518_at",null,"CBX1",null,{"$f":"E950+1","v":945},null,1743,null,{"$f":"G951-E951","v":798},null,{"$f":"IF(G951>1000,\"Yes\",\" \")","v":"Yes"}]
["201515_s_at",null,"TSN",null,{"$f":"E951+1","v":946},null,1100,null,{"$f":"G952-E952","v":154},null,{"$f":"IF(G952>1000,\"Yes\",\" \")","v":"Yes"}]
["204070_at",null,"RARRES3",null,{"$f":"E952+1","v":947},null,1776,null,{"$f":"G953-E953","v":829},null,{"$f":"IF(G953>1000,\"Yes\",\" \")","v":"Yes"}]
["212514_x_at",null,"DDX3X",null,{"$f":"E953+1","v":948},null,1214,null,{"$f":"G954-E954","v":266},null,{"$f":"IF(G954>1000,\"Yes\",\" \")","v":"Yes"}]
["217802_s_at",null,"NUCKS1",null,{"$f":"E954+1","v":949},null,1686,null,{"$f":"G955-E955","v":737},null,{"$f":"IF(G955>1000,\"Yes\",\" \")","v":"Yes"}]
["219485_s_at",null,"PSMD10",null,{"$f":"E955+1","v":950},null,1109,null,{"$f":"G956-E956","v":159},null,{"$f":"IF(G956>1000,\"Yes\",\" \")","v":"Yes"}]
["214011_s_at",null,"NOP16",null,{"$f":"E956+1","v":951},null,986,null,{"$f":"G957-E957","v":35},null,{"$f":"IF(G957>1000,\"Yes\",\" \")","v":" "}]
["202487_s_at",null,"H2AFV",null,{"$f":"E957+1","v":952},null,1485,null,{"$f":"G958-E958","v":533},null,{"$f":"IF(G958>1000,\"Yes\",\" \")","v":"Yes"}]
["201877_s_at",null,"PPP2R5C",null,{"$f":"E958+1","v":953},null,1403,null,{"$f":"G959-E959","v":450},null,{"$f":"IF(G959>1000,\"Yes\",\" \")","v":"Yes"}]
["201409_s_at",null,"PPP1CB",null,{"$f":"E959+1","v":954},null,1133,null,{"$f":"G960-E960","v":179},null,{"$f":"IF(G960>1000,\"Yes\",\" \")","v":"Yes"}]
["211758_x_at",null,"TXNDC9",null,{"$f":"E960+1","v":955},null,1272,null,{"$f":"G961-E961","v":317},null,{"$f":"IF(G961>1000,\"Yes\",\" \")","v":"Yes"}]
["210933_s_at",null,"FSCN1",null,{"$f":"E961+1","v":956},null,1518,null,{"$f":"G962-E962","v":562},null,{"$f":"IF(G962>1000,\"Yes\",\" \")","v":"Yes"}]
["205011_at",null,"VWA5A",null,{"$f":"E962+1","v":957},null,573,null,{"$f":"G963-E963","v":-384},null,{"$f":"IF(G963>1000,\"Yes\",\" \")","v":" "}]
["201121_s_at",null,"PGRMC1",null,{"$f":"E963+1","v":958},null,1861,null,{"$f":"G964-E964","v":903},null,{"$f":"IF(G964>1000,\"Yes\",\" \")","v":"Yes"}]
["201490_s_at",null,"PPIF",null,{"$f":"E964+1","v":959},null,1669,null,{"$f":"G965-E965","v":710},null,{"$f":"IF(G965>1000,\"Yes\",\" \")","v":"Yes"}]
["212373_at",null,"FEM1B",null,{"$f":"E965+1","v":960},null,482,null,{"$f":"G966-E966","v":-478},null,{"$f":"IF(G966>1000,\"Yes\",\" \")","v":" "}]
["210108_at",null,"CACNA1D",null,{"$f":"E966+1","v":961},null,1764,null,{"$f":"G967-E967","v":803},null,{"$f":"IF(G967>1000,\"Yes\",\" \")","v":"Yes"}]
["217948_at",null,"FAM127B",null,{"$f":"E967+1","v":962},null,1374,null,{"$f":"G968-E968","v":412},null,{"$f":"IF(G968>1000,\"Yes\",\" \")","v":"Yes"}]
["51158_at",null,"FAM174B",null,{"$f":"E968+1","v":963},null,524,null,{"$f":"G969-E969","v":-439},null,{"$f":"IF(G969>1000,\"Yes\",\" \")","v":" "}]
["218921_at",null,"SIGIRR",null,{"$f":"E969+1","v":964},null,1664,null,{"$f":"G970-E970","v":700},null,{"$f":"IF(G970>1000,\"Yes\",\" \")","v":"Yes"}]
["203149_at",null,"PVRL2",null,{"$f":"E970+1","v":965},null,354,null,{"$f":"G971-E971","v":-611},null,{"$f":"IF(G971>1000,\"Yes\",\" \")","v":" "}]
["218164_at",null,"SPATA20",null,{"$f":"E971+1","v":966},null,926,null,{"$f":"G972-E972","v":-40},null,{"$f":"IF(G972>1000,\"Yes\",\" \")","v":" "}]
["208393_s_at",null,"RAD50",null,{"$f":"E972+1","v":967},null,116,null,{"$f":"G973-E973","v":-851},null,{"$f":"IF(G973>1000,\"Yes\",\" \")","v":" "}]
["209692_at",null,"EYA2",null,{"$f":"E973+1","v":968},null,1099,null,{"$f":"G974-E974","v":131},null,{"$f":"IF(G974>1000,\"Yes\",\" \")","v":"Yes"}]
["212095_s_at",null,"MTUS1",null,{"$f":"E974+1","v":969},null,790,null,{"$f":"G975-E975","v":-179},null,{"$f":"IF(G975>1000,\"Yes\",\" \")","v":" "}]
["201036_s_at",null,"HADH",null,{"$f":"E975+1","v":970},null,1542,null,{"$f":"G976-E976","v":572},null,{"$f":"IF(G976>1000,\"Yes\",\" \")","v":"Yes"}]
["218620_s_at",null,"HEMK1",null,{"$f":"E976+1","v":971},null,277,null,{"$f":"G977-E977","v":-694},null,{"$f":"IF(G977>1000,\"Yes\",\" \")","v":" "}]
["213902_at",null,"ASAH1",null,{"$f":"E977+1","v":972},null,496,null,{"$f":"G978-E978","v":-476},null,{"$f":"IF(G978>1000,\"Yes\",\" \")","v":" "}]
["1438_at",null,"EPHB3",null,{"$f":"E978+1","v":973},null,2489,null,{"$f":"G979-E979","v":1516},null,{"$f":"IF(G979>1000,\"Yes\",\" \")","v":"Yes"}]
["209167_at",null,"GPM6B",null,{"$f":"E979+1","v":974},null,2159,null,{"$f":"G980-E980","v":1185},null,{"$f":"IF(G980>1000,\"Yes\",\" \")","v":"Yes"}]
["221452_s_at",null,"TMEM14B",null,{"$f":"E980+1","v":975},null,1494,null,{"$f":"G981-E981","v":519},null,{"$f":"IF(G981>1000,\"Yes\",\" \")","v":"Yes"}]
["213906_at",null,"MYBL1",null,{"$f":"E981+1","v":976},null,1837,null,{"$f":"G982-E982","v":861},null,{"$f":"IF(G982>1000,\"Yes\",\" \")","v":"Yes"}]
["200687_s_at",null,"SF3B3",null,{"$f":"E982+1","v":977},null,2868,null,{"$f":"G983-E983","v":1891},null,{"$f":"IF(G983>1000,\"Yes\",\" \")","v":"Yes"}]
["215983_s_at",null,"UBXN8",null,{"$f":"E983+1","v":978},null,395,null,{"$f":"G984-E984","v":-583},null,{"$f":"IF(G984>1000,\"Yes\",\" \")","v":" "}]
["211747_s_at",null,"LSM5",null,{"$f":"E984+1","v":979},null,1522,null,{"$f":"G985-E985","v":543},null,{"$f":"IF(G985>1000,\"Yes\",\" \")","v":"Yes"}]
["221825_at",null,"ANGEL2",null,{"$f":"E985+1","v":980},null,772,null,{"$f":"G986-E986","v":-208},null,{"$f":"IF(G986>1000,\"Yes\",\" \")","v":" "}]
["211946_s_at",null,"BAT2L2",null,{"$f":"E986+1","v":981},null,2065,null,{"$f":"G987-E987","v":1084},null,{"$f":"IF(G987>1000,\"Yes\",\" \")","v":"Yes"}]
["212276_at",null,"LPIN1",null,{"$f":"E987+1","v":982},null,1899,null,{"$f":"G988-E988","v":917},null,{"$f":"IF(G988>1000,\"Yes\",\" \")","v":"Yes"}]
["201726_at",null,"ELAVL1",null,{"$f":"E988+1","v":983},null,1116,null,{"$f":"G989-E989","v":133},null,{"$f":"IF(G989>1000,\"Yes\",\" \")","v":"Yes"}]
["210480_s_at",null,"MYO6",null,{"$f":"E989+1","v":984},null,624,null,{"$f":"G990-E990","v":-360},null,{"$f":"IF(G990>1000,\"Yes\",\" \")","v":" "}]
["202814_s_at",null,"HEXIM1",null,{"$f":"E990+1","v":985},null,1390,null,{"$f":"G991-E991","v":405},null,{"$f":"IF(G991>1000,\"Yes\",\" \")","v":"Yes"}]
["210283_x_at",null,"PAIP1",null,{"$f":"E991+1","v":986},null,1281,null,{"$f":"G992-E992","v":295},null,{"$f":"IF(G992>1000,\"Yes\",\" \")","v":"Yes"}]
["211755_s_at",null,"ATP5F1",null,{"$f":"E992+1","v":987},null,1580,null,{"$f":"G993-E993","v":593},null,{"$f":"IF(G993>1000,\"Yes\",\" \")","v":"Yes"}]
["218337_at",null,"FAM160B2",null,{"$f":"E993+1","v":988},null,402,null,{"$f":"G994-E994","v":-586},null,{"$f":"IF(G994>1000,\"Yes\",\" \")","v":" "}]
["201705_at",null,"PSMD7",null,{"$f":"E994+1","v":989},null,1474,null,{"$f":"G995-E995","v":485},null,{"$f":"IF(G995>1000,\"Yes\",\" \")","v":"Yes"},{"$nulls":4},"Rank Difference Analysis"]
["200045_at",null,"ABCF1",null,{"$f":"E995+1","v":990},null,2408,null,{"$f":"G996-E996","v":1418},null,{"$f":"IF(G996>1000,\"Yes\",\" \")","v":"Yes"},{"$nulls":5},"Difference","Probe set","Gene symbol","(Pooled) variance"]
["222035_s_at",null,"PAPOLA",null,{"$f":"E996+1","v":991},null,1787,null,{"$f":"G997-E997","v":796},null,{"$f":"IF(G997>1000,\"Yes\",\" \")","v":"Yes"},{"$nulls":4},1,{"$f":"LARGE(I$7:J$1006,P997)","v":2599},"210334_x_at","BIRC5",0.726,"Mean of variance"]
["211675_s_at",null,"MDFIC",null,{"$f":"E997+1","v":992},null,1638,null,{"$f":"G998-E998","v":646},null,{"$f":"IF(G998>1000,\"Yes\",\" \")","v":"Yes"},{"$nulls":4},2,{"$f":"LARGE(I$7:J$1006,P998)","v":2265},"208781_x_at","SNX3",0.8914,1.1431]
["220956_s_at",null,"EGLN2",null,{"$f":"E998+1","v":993},null,508,null,{"$f":"G999-E999","v":-485},null,{"$f":"IF(G999>1000,\"Yes\",\" \")","v":" "},{"$nulls":4},3,{"$f":"LARGE(I$7:J$1006,P999)","v":2028},"221923_s_at","NPM1",1.254,"Median of variance"]
["212010_s_at",null,"CDV3",null,{"$f":"E999+1","v":994},null,1256,null,{"$f":"G1000-E1000","v":262},null,{"$f":"IF(G1000>1000,\"Yes\",\" \")","v":"Yes"},{"$nulls":4},4,{"$f":"LARGE(I$7:J$1006,P1000)","v":1943},"204087_s_at","SLC5A6",1.0935,0.994]
["211937_at",null,"EIF4B",null,{"$f":"E1000+1","v":995},null,98,null,{"$f":"G1001-E1001","v":-897},null,{"$f":"IF(G1001>1000,\"Yes\",\" \")","v":" "},{"$nulls":4},5,{"$f":"LARGE(I$7:J$1006,P1001)","v":1918},"200896_x_at","HDGF",1.1882]
["201482_at",null,"QSOX1",null,{"$f":"E1001+1","v":996},null,530,null,{"$f":"G1002-E1002","v":-466},null,{"$f":"IF(G1002>1000,\"Yes\",\" \")","v":" "},{"$nulls":4},6,{"$f":"LARGE(I$7:J$1006,P1002)","v":1891},"200687_s_at","SF3B3",1.0588]
["200057_s_at",null,"NONO",null,{"$f":"E1002+1","v":997},null,1450,null,{"$f":"G1003-E1003","v":453},null,{"$f":"IF(G1003>1000,\"Yes\",\" \")","v":"Yes"},{"$nulls":4},7,{"$f":"LARGE(I$7:J$1006,P1003)","v":1846},"200822_x_at","TPI1",1.2399]
["211423_s_at",null,"SC5DL",null,{"$f":"E1003+1","v":998},null,581,null,{"$f":"G1004-E1004","v":-417},null,{"$f":"IF(G1004>1000,\"Yes\",\" \")","v":" "},{"$nulls":4},8,{"$f":"LARGE(I$7:J$1006,P1004)","v":1811},"204092_s_at","AURKA",0.9276]
["213049_at",null,"RALGAPA1",null,{"$f":"E1004+1","v":999},null,1185,null,{"$f":"G1005-E1005","v":186},null,{"$f":"IF(G1005>1000,\"Yes\",\" \")","v":"Yes"},{"$nulls":4},9,{"$f":"LARGE(I$7:J$1006,P1005)","v":1754},"211060_x_at","GPAA1",0.9747]
["203215_s_at",null,"MYO6",null,{"$f":"E1005+1","v":1000},null,893,null,{"$f":"G1006-E1006","v":-107},null,{"$f":"IF(G1006>1000,\"Yes\",\" \")","v":" "},{"$nulls":4},10,{"$f":"LARGE(I$7:J$1006,P1006)","v":1753},"215690_x_at","GPAA1",0.9842]
[]
["208781_x_at","SNX3"]
{"$rows_empty":24}
["221923_s_at","NPM1"]
{"$rows_empty":24}
["204087_s_at","SLC5A6"]
{"$rows_empty":24}
["200896_x_at","HDGF"]
{"$rows_empty":24}
["200687_s_at","SF3B3"]
{"$rows_empty":24}
["200822_x_at","TPI1"]
{"$rows_empty":24}
["204092_s_at","AURKA"]
{"$rows_empty":24}
["211060_x_at","GPAA1"]
{"$rows_empty":24}
["215690_x_at","GPAA1"]

{"sheet":"Rank_Diff2_Annot","index":3,"n_rows":11,"n_cols":3,"rows_kept":11,"cut":false,"hidden":false,"merged":[]}
["Probe set","Gene symbol","Annotation"]
["210334_x_at","BIRC5","This gene is a member of the inhibitor of apoptosis (IAP) gene family, which encode negative regulatory proteins that prevent apoptotic cell death. IAP family members usually contain multiple baculovirus IAP repeat (BIR) domains, but this gene encodes proteins with only a single BIR domain. The encoded proteins also lack a C-terminus RING finger domain. Gene expression is high during fetal development and in most tumors, yet low in adult tissues. Alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. Diseases associated with BIRC5 include childhood malignant schwannoma and cervical carcinosarcoma. Among its related pathways are Signaling by GPCR andPathways in cancer.1. Paik et. al. Gene Expression and Benefit ofChemotherapy in Women With Node-Negative, Estrogen Receptor–Positive Breast Cancer; 2. Sotiriou et. al. Gene Expression Profiling in Breast Cancer: Understanding the Molecular Basis of Histologic Grade To Improve Prognosis"]
["208781_x_at","SNX3","This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is a phosphoinositide binding domain, and are involved in intracellular trafficking. This protein does not contain a coiled coil region, like most family members. This protein interacts with phosphatidylinositol-3-phosphate, and is involved in protein trafficking. A pseudogene of this gene is present on the sex chromosomes. Alternative splicing results in multiple transcript variants encoding distinct isoforms. SNX3 (Sorting Nexin 3) is a Protein Coding gene. Diseases associated with SNX3 include microphthalmia, syndromic 8 and microphthalmia. Among its related pathways are Signaling by GPCR and Endocytosis. GO annotations related to this gene include phosphatidylinositol binding and phosphatidylinositol-3-phosphate binding. An important paralog of this gene is SNX12.            1. Adelaide et. al. Integrated Profiling ofBasal and Luminal Breast Cancers;"]
["221923_s_at","NPM1","This gene encodes a phosphoprotein which moves between the nucleus and the cytoplasm. The gene product is thought to be involved in several processes including regulation of the ARF/p53 pathway. A number of genes are fusion partners have been characterized, in particular the anaplastic lymphoma kinase gene on chromosome 2. Mutations in this gene are associated with acute myeloid leukemia. More than a dozen pseudogenes of this gene have been identified. Alternative splicing results in multiple transcript variants. NPM1 (Nucleophosmin (Nucleolar Phosphoprotein B23, Numatrin)) is a Protein Coding gene. Diseases associated with NPM1 include lymphomatoid papulosis and primary cutaneous anaplastic large cell lymphoma. Among its related pathways are Infectious disease and Cell Cycle, Mitotic. GO annotations related to this gene include nucleic acid binding and protein homodimerization activity. An important paralog of this gene is NPM2.             1. Xiong et. al. An estrogen receptor α suppressor, microRNA-22, is downregulated in estrogen receptor α-positivehuman breast cancer cell lines and clinical samples"]
["204087_s_at","SLC5A6","SLC5A6 (Solute Carrier Family 5 (Sodium/Multivitamin And Iodide Cotransporter), Member 6) is a Protein Coding gene. Diseases associated with SLC5A6 include thiamine metabolism dysfunction syndrome 2 and urinary tract obstruction. Among its related pathways are Metabolism and Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds. GO annotations related to this gene include transporter activity and sodium-dependent multivitamin transmembrane transporter activity. An important paralog of this gene is SLC5A10. Transports pantothenate, biotin and lipoate in the presence of sodium.            1. Riedel et. al. Journey of the iodide transporter NIS: from its molecular identification to its clinical role in cancer"]
["200896_x_at","HDGF","This gene encodes a member of the hepatoma-derived growth factor family. The encoded protein has mitogenic and DNA-binding activity and may play a role in cellular proliferation and differentiation. This gene was thought initially to be located on chromosome X, however, that location has been determined to correspond to a related pseudogene. Alternatively spliced transcript variants encoding distinct isoforms have been described. HDGF (Hepatoma-Derived Growth Factor) is a Protein Coding gene. Diseases associated with HDGF include intrahepatic cholangiocarcinoma and hepatocellular carcinoma. Among its related pathways are NF-KappaB Family Pathway and Apoptotic Pathways in Synovial Fibroblasts. GO annotations related to this gene include poly(A) RNA binding and growth factor activity. An important paralog of this gene is HDGFL1.               1. Signoretti et. al. Oncogenic role of the ubiquitin ligase subunit Skp2 in humanbreast cancer; 2. Chen et. al. Prognostic value of nuclear hepatoma-derived growth factor (HDGF) localization in patients withbreast cancer; 3. Chen et. al. Hepatoma-derived growth factor regulatesbreast cancer cell invasion by modulating epithelial–mesenchymal transition"]
["200687_s_at","SF3B3","This gene encodes subunit 3 of the splicing factor 3b protein complex. Splicing factor 3b, together with splicing factor 3a and a 12S RNA unit, forms the U2 small nuclear ribonucleoproteins complex (U2 snRNP). The splicing factor 3b/3a complex binds pre-mRNA upstream of the intron's branch site in a sequence independent manner and may anchor the U2 snRNP to the pre-mRNA. Splicing factor 3b is also a component of the minor U12-type spliceosome. Subunit 3 has also been identified as a component of the STAGA (SPT3-TAF(II)31-GCN5L acetylase) transcription coactivator-HAT (histone acetyltransferase) complex, and the TFTC (TATA-binding-protein-free TAF(II)-containing complex). These complexes may function in chromatin modification, transcription, splicing, and DNA repair. SF3B3 (Splicing Factor 3b, Subunit 3, 130kDa) is a Protein Coding gene. Among its related pathways are Development NOTCH1-mediated pathway for NF-KB activity modulation and Chromatin organization. GO annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is DDB1.               1. Hungermann et. al. Influence of whole arm loss of chromosome 16q on gene expression patterns inoestrogen receptor-positive, invasive breast cancer; 2. Loo et. al. Differential patterns of allelic loss inestrogen receptor-positiveinfiltrating lobular and ductalbreast cancer; 3. Gokmen-Polar et. al. Expression levels ofSF3B3correlate with prognosis and endocrine resistance in estrogen receptor-positive breast cancer"]
["200822_x_at","TPI1","This gene encodes an enzyme, consisting of two identical proteins, which catalyzes the isomerization of glyceraldehydes 3-phosphate (G3P) and dihydroxy-acetone phosphate (DHAP) in glycolysis and gluconeogenesis. Mutations in this gene are associated with triosephosphate isomerase deficiency. Pseudogenes have been identified on chromosomes 1, 4, 6 and 7. Alternative splicing results in multiple transcript variants. TPI1 (Triosephosphate Isomerase 1) is a Protein Coding gene. Diseases associated with TPI1 include hemolytic anemia due to triosephosphate isomerase deficiency and phosphoglycerate kinase deficiency. Among its related pathways are Metabolism and Glycosaminoglycan metabolism. GO annotations related to this gene include ubiquitin protein ligase binding and triose-phosphate isomerase activity.             1. Possemato et. al. Functional genomics reveal that the serine synthesis pathway is essential inbreast cancer; 2. Reis-Filho et. al. The impact of expression profiling on prognostic and predictive testing in breast cancer"]
["204092_s_at","AURKA","The protein encoded by this gene is a cell cycle-regulated kinase that appears to be involved in microtubule formation and/or stabilization at the spindle pole during chromosome segregation. The encoded protein is found at the centrosome in interphase cells and at the spindle poles in mitosis. This gene may play a role in tumor development and progression. A processed pseudogene of this gene has been found on chromosome 1, and an unprocessed pseudogene has been found on chromosome 10. Multiple transcript variants encoding the same protein have been found for this gene. AURKA (Aurora Kinase A) is a Protein Coding gene. Diseases associated with AURKA include postsurgical hypothyroidism and colorectal adenocarcinoma. Among its related pathways are ERK Signaling and Regulation of PLK1 Activity at G2/M Transition. GO annotations related to this gene include transferase activity, transferring phosphorus-containing groups and protein tyrosine kinase activity. An important paralog of this gene is AURKC.       1. Cox et. al. Polymorphisms of the AURKA (STK15/Aurora Kinase) Gene andBreast CancerRisk (United States); 2. Pujana et. al. Network modeling linksbreast cancersusceptibility and centrosome dysfunction; 3. Desmedt et. al. Biological Processes Associated withBreast Cancer Clinical Outcome Depend on the Molecular Subtypes"]
["211060_x_at","GPAA1","Posttranslational glycosylphosphatidylinositol (GPI) anchor attachment serves as a general mechanism for linking proteins to the cell surface membrane. The protein encoded by this gene presumably functions in GPI anchoring at the GPI transfer step. The mRNA transcript is ubiquitously expressed in both fetal and adult tissues. The anchor attachment protein 1 contains an N-terminal signal sequence, 1 cAMP- and cGMP-dependent protein kinase phosphorylation site, 1 leucine zipper pattern, 2 potential N-glycosylation sites, and 8 putative transmembrane domains. GPAA1 (Glycosylphosphatidylinositol Anchor Attachment 1) is a Protein Coding gene. Among its related pathways are Transport to the Golgi and subsequent modification and Metabolism. GO annotations related to this gene include tubulin binding and GPI-anchor transamidase activity.               1. Wu et. al. Overexpression of Glycosylphosphatidylinositol (GPI) Transamidase Subunits Phosphatidylinositol Glycan Class T and/or GPI Anchor Attachment 1 InducesTumorigenesisand Contributes to Invasion inHuman Breast Cancer; 2. Dutta et. al. A network-based, integrative study to identify core biological pathways that drive breast cancer clinical subtypes"]
["215690_x_at","GPAA1","Ditto"]