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Status
Public on May 13, 2006
Title
[Mapping250K_Sty] Affymetrix Mapping 250K Sty2 SNP Array
Technology type
in situ oligonucleotide
Distribution
commercial
Organism
Homo sapiens
Manufacturer
Affymetrix
Manufacture protocol
see manufacturer's web site
Description
Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html The GeneChipĀ® Human Mapping 500K Array Set provides consistently high coverage across different populations. It is comprised of two arrays, each capable of genotyping on average 250,000 SNPs (approximately 262,000 for Nsp arrays and 238,000 for Sty arrays).
Web link
http://www.affymetrix.com/support/technical/byproduct.affx?product=500k http://www.affymetrix.com/analysis/index.affx
Submission date
May 02, 2006
Last update date
Aug 21, 2013
Organization
Affymetrix, Inc.
E-mail(s)
geo@ncbi.nlm.nih.gov, support@affymetrix.com
Phone
888-362-2447
URL
http://www.affymetrix.com/index.affx
Street address
City
Santa Clara
State/province
CA
ZIP/Postal code
95051
Country
USA
Samples (9570)
GSM117201 , GSM117202 , GSM117203 , GSM117204 , GSM117206 , GSM117207
GSM117208 ,
GSM117209 ,
GSM117210 ,
GSM117211 ,
GSM117212 ,
GSM117213 ,
GSM117214 ,
GSM117215 ,
GSM117216 ,
GSM117217 ,
GSM117218 ,
GSM117219 ,
GSM117220 ,
GSM117221 ,
GSM117222 ,
GSM117223 ,
GSM117224 ,
GSM117225 ,
GSM117226 ,
GSM117227 ,
GSM117228 ,
GSM117229 ,
GSM117230 ,
GSM117234 ,
GSM117235 ,
GSM117236 ,
GSM117237 ,
GSM117238 ,
GSM117239 ,
GSM117240 ,
GSM117241 ,
GSM117242 ,
GSM117243 ,
GSM117244 ,
GSM117245 ,
GSM117246 ,
GSM117247 ,
GSM117248 ,
GSM117249 ,
GSM117250 ,
GSM117251 ,
GSM117252 ,
GSM117253 ,
GSM117254 ,
GSM117255 ,
GSM117256 ,
GSM117257 ,
GSM117258 ,
GSM117259 ,
GSM117260 ,
GSM117261 ,
GSM117262 ,
GSM117263 ,
GSM117264 ,
GSM117265 ,
GSM117266 ,
GSM117267 ,
GSM117268 ,
GSM117269 ,
GSM117270 ,
GSM117271 ,
GSM117272 ,
GSM117273 ,
GSM117274 ,
GSM117275 ,
GSM117276 ,
GSM117277 ,
GSM117278 ,
GSM117279 ,
GSM117280 ,
GSM117281 ,
GSM117282 ,
GSM117283 ,
GSM117284 ,
GSM117285 ,
GSM117286 ,
GSM117287 ,
GSM117288 ,
GSM117289 ,
GSM117290 ,
GSM117291 ,
GSM117292 ,
GSM117293 ,
GSM117294 ,
GSM117295 ,
GSM117296 ,
GSM117297 ,
GSM117298 ,
GSM117299 ,
GSM117300 ,
GSM117301 ,
GSM117302 ,
GSM117303 ,
GSM117304 ,
GSM117305 ,
GSM117306 ,
GSM117307 ,
GSM117308 ,
GSM117309 ,
GSM117310 ,
GSM117311 ,
GSM117312 ,
GSM117313 ,
GSM117314 ,
GSM117315 ,
GSM117316 ,
GSM117317 ,
GSM117318 ,
GSM117319 ,
GSM117320 ,
GSM117321 ,
GSM117322 ,
GSM117323 ,
GSM117324 ,
GSM117325 ,
GSM117326 ,
GSM117327 ,
GSM117328 ,
GSM117329 ,
GSM117330 ,
GSM117331 ,
GSM117332 ,
GSM117333 ,
GSM117334 ,
GSM117335 ,
GSM117336 ,
GSM117337 ,
GSM117338 ,
GSM117339 ,
GSM117340 ,
GSM117341 ,
GSM117342 ,
GSM117343 ,
GSM117344 ,
GSM117345 ,
GSM117346 ,
GSM117347 ,
GSM117348 ,
GSM117349 ,
GSM117350 ,
GSM117351 ,
GSM117387 ,
GSM117388 ,
GSM117389 ,
GSM117390 ,
GSM117391 ,
GSM117392 ,
GSM117393 ,
GSM117394 ,
GSM117395 ,
GSM117396 ,
GSM117397 ,
GSM117398 ,
GSM117399 ,
GSM117400 ,
GSM117401 ,
GSM117402 ,
GSM117403 ,
GSM117404 ,
GSM117405 ,
GSM117406 ,
GSM117407 ,
GSM117408 ,
GSM117409 ,
GSM117410 ,
GSM117411 ,
GSM117412 ,
GSM117413 ,
GSM117414 ,
GSM117415 ,
GSM117416 ,
GSM117417 ,
GSM117418 ,
GSM117419 ,
GSM117420 ,
GSM117421 ,
GSM117422 ,
GSM117423 ,
GSM117424 ,
GSM117425 ,
GSM117426 ,
GSM117427 ,
GSM117428 ,
GSM117429 ,
GSM117430 ,
GSM117431 ,
GSM117432 ,
GSM117433 ,
GSM117434 ,
GSM117435 ,
GSM117436 ,
GSM117437 ,
GSM117438 ,
GSM117439 ,
GSM117440 ,
GSM117441 ,
GSM117442 ,
GSM117443 ,
GSM117444 ,
GSM117445 ,
GSM117448 ,
GSM117449 ,
GSM117450 ,
GSM117451 ,
GSM117452 ,
GSM117453 ,
GSM117454 ,
GSM117455 ,
GSM117456 ,
GSM117457 ,
GSM117458 ,
GSM117459 ,
GSM117460 ,
GSM117461 ,
GSM117462 ,
GSM117463 ,
GSM117464 ,
GSM117465 ,
GSM117466 ,
GSM117467 ,
GSM117468 ,
GSM117469 ,
GSM117470 ,
GSM117471 ,
GSM117472 ,
GSM117473 ,
GSM117474 ,
GSM117475 ,
GSM117476 ,
GSM117477 ,
GSM117478 ,
GSM117479 ,
GSM117480 ,
GSM117481 ,
GSM117482 ,
GSM117483 ,
GSM117484 ,
GSM117485 ,
GSM117486 ,
GSM117487 ,
GSM117488 ,
GSM117489 ,
GSM117490 ,
GSM117491 ,
GSM117492 ,
GSM117493 ,
GSM117494 ,
GSM117495 ,
GSM117496 ,
GSM117497 ,
GSM117498 ,
GSM117499 ,
GSM117500 ,
GSM117501 ,
GSM117502 ,
GSM117503 ,
GSM117504 ,
GSM117505 ,
GSM117506 ,
GSM117509 ,
GSM117549 ,
GSM117550 ,
GSM117551 ,
GSM117552 ,
GSM127913 ,
GSM127914 ,
GSM127915 ,
GSM127916 ,
GSM127917 ,
GSM127918 ,
GSM127919 ,
GSM127920 ,
GSM127921 ,
GSM127922 ,
GSM127923 ,
GSM127924 ,
GSM127925 ,
GSM127926 ,
GSM127927 ,
GSM127928 ,
GSM127929 ,
GSM127930 ,
GSM127931 ,
GSM127932 ,
GSM127933 ,
GSM127934 ,
GSM127935 ,
GSM127936 ,
GSM127937 ,
GSM127938 ,
GSM127939 ,
GSM127940 ,
GSM127941 ,
GSM127942 ,
GSM127943 ,
GSM127944 ,
GSM127945 ,
GSM127946 ,
GSM127947 ,
GSM127948 ,
GSM127949 ,
GSM127950 ,
GSM127951 ,
GSM127952 ,
GSM127953 ,
GSM127954 ,
GSM127955 ,
GSM127956 ,
GSM127957 ,
GSM127958 ,
GSM127959 ,
GSM127960 ,
GSM127961 ,
GSM127962 ,
GSM127963 ,
GSM127964 ,
GSM127965 ,
GSM127966 ,
GSM127967 ,
GSM127968 ,
GSM127969 ,
GSM127970 ,
GSM127971 ,
GSM127972 ,
GSM127973 ,
GSM127974 ,
GSM127975 ,
GSM127976 ,
GSM127977 ,
GSM127978 ,
GSM127979 ,
GSM127980 ,
GSM127981 ,
GSM127982 ,
GSM127983 ,
GSM127984 ,
GSM127985 ,
GSM127986 ,
GSM127987 ,
GSM127988 ,
GSM127989 ,
GSM127990 ,
GSM127991 ,
GSM127992 ,
GSM127993 ,
GSM127994 ,
GSM127995 ,
GSM127996 ,
GSM127997 ,
GSM127998 ,
GSM127999 ,
GSM128000 ,
GSM128001 ,
GSM128002 ,
GSM128003 ,
GSM128004 ,
GSM128005 ,
GSM128006 ,
GSM128007 ,
GSM128008 ,
GSM128009 ,
GSM128010 ,
GSM128011 ,
GSM128012 ,
GSM128013 ,
GSM128014 ,
GSM128015 ,
GSM128016 ,
GSM128017 ,
GSM128018 ,
GSM128019 ,
GSM128020 ,
GSM128021 ,
GSM128022 ,
GSM128023 ,
GSM128024 ,
GSM128025 ,
GSM128026 ,
GSM128027 ,
GSM128028 ,
GSM128029 ,
GSM128030 ,
GSM128031 ,
GSM128032 ,
GSM128033 ,
GSM128034 ,
GSM128035 ,
GSM128036 ,
GSM128037 ,
GSM128038 ,
GSM128039 ,
GSM128040 ,
GSM128041 ,
GSM128042 ,
GSM128043 ,
GSM128044 ,
GSM128045 ,
GSM128046 ,
GSM128047 ,
GSM128048 ,
GSM128049 ,
GSM128050 ,
GSM128051 ,
GSM128052 ,
GSM128053 ,
GSM128054 ,
GSM128055 ,
GSM128056 ,
GSM128057 ,
GSM128058 ,
GSM128059 ,
GSM128060 ,
GSM128061 ,
GSM128062 ,
GSM128063 ,
GSM128064 ,
GSM128065 ,
GSM128066 ,
GSM128067 ,
GSM128068 ,
GSM128069 ,
GSM128070 ,
GSM128071 ,
GSM128072 ,
GSM128073 ,
GSM128074 ,
GSM128075 ,
GSM128076 ,
GSM128077 ,
GSM128078 ,
GSM128079 ,
GSM128080 ,
GSM128081 ,
GSM128082 ,
GSM128083 ,
GSM128084 ,
GSM128085 ,
GSM128086 ,
GSM128087 ,
GSM128088 ,
GSM128089 ,
GSM128090 ,
GSM128091 ,
GSM128092 ,
GSM128093 ,
GSM128094 ,
GSM128095 ,
GSM128096 ,
GSM128097 ,
GSM128098 ,
GSM128099 ,
GSM128100 ,
GSM128101 ,
GSM128102 ,
GSM128103 ,
GSM128104 ,
GSM128105 ,
GSM128106 ,
GSM128107 ,
GSM128108 ,
GSM128109 ,
GSM128110 ,
GSM128111 ,
GSM128112 ,
GSM128113 ,
GSM128114 ,
GSM128115 ,
GSM128116 ,
GSM128117 ,
GSM128118 ,
GSM128119 ,
GSM128120 ,
GSM128121 ,
GSM128122 ,
GSM128123 ,
GSM128124 ,
GSM128125 ,
GSM128126 ,
GSM128127 ,
GSM128128 ,
GSM128129 ,
GSM128130 ,
GSM128131 ,
GSM128132 ,
GSM128133 ,
GSM128134 ,
GSM128135 ,
GSM128136 ,
GSM128137 ,
GSM128138 ,
GSM128139 ,
GSM128140 ,
GSM128141 ,
GSM128142 ...
Accession list truncated, click here to browse through all related public accessions You can also download a list of all accessions here
Series (150)
GSE5173
Global variation of copy number in the human genome_COMM
GSE5511
Genes regulating B cell development are mutated in acute lymphoid leukaemia
GSE7545
Affymetrix 500K Mapping Array data from breast tumors
GSE7822
A comparison of DNA copy number profiling platforms using a panel of melanoma cell lines
GSE8164
Imatinib targeting of KIT-mutant oncoprotein in melanoma
GSE8649
High-resolution genetic analysis of cancer cell lines with near normal karyotypes
GSE9109
SNP array data for 304 pediatric and adult acute lymphoblastic leukemia cases
GSE9110
SNP array data for 56 chronic myeloid leukemia samples.
GSE9111
SNP array data for 50 leukemia remission samples
GSE9112
SNP array data for 36 acute myeloid and lymphoblastic leukemia cell lines
GSE9113
Affymetrix SNP array data for acute lymphoblastic leukemia samples
GSE9154
Optimizations of DNA isolation and copy number analysis identifies regions of genomic gain/loss in early breast cancer
GSE9222
Structural Variation of Chromosomes in Autism Spectrum Disorder.
GSE9585
Genome-wide DNA copy number predictors of lapatinib sensitivity in tumour-derived cell lines
GSE9611
Adult and adolescent acute lymphoblastic leukemia
GSE9637
X-inactivation in hESCs
GSE9829
Focal gains of VEGFA and molecular classification of hepatocellular carcinoma
GSE9845
Copy number alterations of 103 hepatocellular carcinomas with hepatitis C virus etiology
GSE10044
Identification of human minor H antigens based on genotyping of pooled DNA
GSE10668
The Complete Genome of a Single Individual by Massively Parallel DNA Sequencing
GSE10747
Analysis of genetic changes in MCF10A series cells and MCFDCIS derived xenografts
GSE11409
MSNP data for normal blood, normal bone marrow, CD34+ cells and placenta samples
GSE11948
Bisphosphonate related osteonecrosis of the jaw is associated with polymorphisms of the cytochrome P450 CYP2C8 in MM
GSE11960
Affymetrix 500K Mapping Array data from ovary tumors
GSE12019
Fine-scale mapping of copy-number alterations with massively parallel sequencing
GSE12370
Genome-wide molecular characterisation of CNS PNET and Pineoblastoma
GSE12476
Pancreatic endocrine tumour (PET)_Affymetrix 500K SNP arrays
GSE12629
Analysis of copy number change in cord lining epithelial cells after phage integrase mediated genomic integration.
GSE12702
Genomic profiling of prostate cancer in African-American patients
GSE12713
Definitive haplotypes from a collection of complete hydatidiform moles (CHMs)
GSE12896
Prognostic significance of copy-number alterations in multiple myeloma
GSE12906
SNP data from lymphoma samples
GSE13117
Genotyping data from 120 trios with unexplained mental retardation
GSE13373
Mapping of copy-number alterations with massively parallel sequencing
GSE14087
Genotype profiling of primitive neuroectodermal tumours (250K_Nsp_SNP and 250K_Sty_SNP)
GSE14437
High-resolution copy number analysis of medulloblastoma
GSE14845
A Whole Genome Approach to Characterising a Novel Immunodeficiency Disorder
GSE14994
Patterns of gene expression and copy-number alterations in VHL disease-associated and sporadic ccRCC
GSE15051
Nasopharyngeal carcinoma cell lines (copy number analysis)
GSE15098
Nasopharyngeal carcinoma cell lines (expression analysis and copy number analysis)
GSE15126
A gene expression signature associated with K-Ras addiction reveals regulators of EMT and tumor cell survival
GSE15347
Analysis of pediatric acute myeloid leukemia (AML) samples at diagnosis
GSE15526
Analysis of genomic instability in esophageal squamous cell carcinoma (ESCC)
GSE15695
Comprehensive Homozygous Deletion Mapping of Myeloma Defines a Poor Prognosis Cell Death Gene Expression Signature
GSE15731
Affymetrix SNP array data for pediatric acute myeloid leukemia (AML) samples at diagnosis: Sty2 SNP array
GSE15842
SNP array genomic profiling of PTCL NOS
GSE15931
WT1 mutations in T-ALL
GSE16619
Identification of novel gene amplification events in breast cancer
GSE17247
Predicting drug activity in non-small cell lung cancer based on genetic lesions
GSE17429
Affymetrix SNP array data for 30 NSCLC samples
GSE17534
Affymetrix 250K StyI SNP array data from PBMCs and cell lines of metastatic melanoma patients
GSE17958
Affymetrix SNP array data for 47 lung squamous cell carcinoma and 40 esophageal squamous cell carcinoma samples.
GSE18197
High-resolution SNP-array profiling in myeloproliferative neoplasms
GSE18797
Affymetrix SNP array data for non-small cell lung cancer cell line samples
GSE19101
Identification of Acquired Copy Number Alterations and Uniparental Disomies in Cytogenetically Normal AML
GSE19388
Affymetrix SNP array data for non-small cell lung cancer cell line samples, PC-9
GSE19399
Affymetrix 250K StyI SNP array data across multiple human cancer types
GSE19578
Integrated molecular genetic profiling of pediatric-high grade gliomas reveals key differences with adult disease
GSE19612
A Hierarchy of Self-Renewing Tumor-Initiating Cell Types in Glioblastoma
GSE19920
Affymetrix SNP array analysis of the breast cell lines MCF10A, MCF10AT, MCF10CA1h and MCF10CA1a
GSE19996
Affy SNP-array data for 23 ETV6/RUNX1-positive ALL patient samples and one cell line
GSE20123
Affymetrix SNP array data for esophageal squamous cell carcinoma (ESCC) samples
GSE20206
Acquired chromosome abnormalities in the lungs of patients with Pulmonary Arterial Hypertension
GSE20306
A genome-wide screen for microdeletions reveals disruption of polarity complex genes in diverse human cancers
GSE20356
Evaluation of copy number alterations in the Ewing's Sarcoma cell line SKES1 with Affymetrix 500k SNP microarray
GSE20368
1q gain clinical impact in Ewing's Sarcoma: role of DTL
GSE20939
Genetic and Epigenetic Somatic Alterations in Head and Neck Squamous Cell Carcinomas Are Globally Coordinated but Not Locally Targeted (Affymetrix Copy Number)
GSE21057
Copy number alterations in pleural mesothelioma
GSE21058
Integrated profiling reveals a global correlation between epigenetic and genetic alterations in mesothelioma
GSE21123
Affymetrix SNP array data for soft tissue sarcoma samples
GSE21124
Subtype-specific genomic alterations define new targets for soft tissue sarcoma therapy
GSE21347
An integrative multi-dimensional genetic and epigenetic strategy to identify aberrant genes and pathways in cancer: allelic status
GSE21349
A compendium of myeloma associated chromosomal copy number abnormalities and their prognostic value
GSE21541
An integrative multi-dimensional genetic and epigenetic strategy to identify aberrant genes and pathways in cancer
GSE21597
Affymetrix SNP array data for Burkitt lymphoma samples
GSE21672
Affymetrix SNP array for CSES1, CSES8, CSES1 maternal, and CSES8 maternal
GSE22082
Genomic Profiling of NHL Entities
GSE22839
Integration of transcript expression, copy number and LOH analysis of infiltrating ductal carcinoma of the breast: copy number analysis
GSE22840
Integration of transcript expression, copy number and LOH analysis of infiltrating ductal carcinoma of the breast
GSE24412
Genetic variegation of clonal architecture and stem cells in leukaemia
GSE24481
Pooled genome-wide analysis to identify novel risk loci for pediatric allergic asthma
GSE24715
Amplification in alveolar rhabdomyosarcoma
GSE24947
Genome-wide connection between DNA methylation and DNA replication timing
GSE25170
MYC drives resistance to PI3K/mTOR targeted inhibition (Sty SNP array)
GSE25173
PI3K-targeted therapy can be evaded by gene amplification along the MYC-eukaryotic translation initiation factor 4E (eIF4E) axis
GSE25262
Genetic adaptability of cancer cells under treatment selection pressure in multiple myeloma patients.
GSE25589
Affymetrix SNP array data for Pediatric malignant glioma samples
GSE26075
Copy number profiling of 36 ovarian tumors on Affymetrix 100K SNP arrays and 16 ovarian tumors on 500K SNP arrays
GSE26792
The HDAC inhibitor panobinostat (LBH589) inhibits Acute Lymphoblastic leukemia (ALL) in vitro and in vivo in a new characterized human ALL mice model (SNP)
GSE26807
The HDAC inhibitor panobinostat (LBH589) inhibits Acute Lymphoblastic leukemia (ALL) in vitro and in vivo in a new characterized human ALL mice model
GSE27216
Prospective comparison of genome-wide aCGH platforms for the detection of CNVs in MR (Mapping250K_Nsp and Mapping250K_Sty)
GSE27367
Prospective comparison of genome-wide aCGH platforms for the detection of CNVs in MR
GSE27910
Overexpression of NUCKS1 in colorectal cancer correlates with recurrence after curative surgery (copy number analysis)
GSE27913
Overexpression of NUCKS1 in colorectal cancer correlates with recurrence after curative surgery
GSE28684
Affymetrix 500K SNP array data for Primary Effusion Lymphoma samples
GSE30255
Activation of ERBB2 signaling causes resistance to the EGFR-directed therapeutic antibody cetuximab
GSE31984
Genome-wide copy number analysis for occult lymph node metastasis in oral squamous cell carcinoma
GSE32101
Affymetrix SNP array data for paediatric ependymoma and constitutional DNA
GSE32264
NCI60 Affy500K Profiling
GSE33732
Affymetrix SNP array data for short-segment Hirschsprung trios
GSE34005
Affymetrix SNP array data for recurrent deletion in 19p in DLBCLs and BLs
GSE34507
Affymetrix SNP array data for oral squamous cell carcinoma samples
GSE34542
Affymetrix SNP array data for acute myeloid leukemia (AML) samples with complex karyotype
GSE34573
A Global View of the Oncogenic Landscape in Nasopharyngeal Carcinoma:An Integrated Analysis at the Genetic and Expression Levels
GSE35052
Affymetrix SNP array data for DNA copy number analysis of supernatant DNA
GSE35099
Allele specific RNA polymerase occupancy and gene expression analysis for 8 CEPH lymphoblastoid cell lines.
GSE35329
INTEGRATIVE ONCOGENOMIC AND HIGH-THROUGHPUT SEQUENCING ANALYSES OF THE COMMONLY DELETED REGION IN CHROMOSOME 7q32 IN SPLENIC MARGINAL ZONE LYMPHOMA (SNP data)
GSE35383
INTEGRATIVE ONCOGENOMIC AND HIGH-THROUGHPUT SEQUENCING ANALYSES OF THE COMMONLY DELETED REGION IN CHROMOSOME 7q32 IN SPLENIC MARGINAL ZONE LYMPHOMA
GSE36363
Human lung adenocarcinoma DNA copy number profiling
GSE36438
Human lung adenocarcinoma DNA methylation profiling by MSNP
GSE36459
Affymetrix 250K StyI SNP array data for gastric and esophageal adenocarcinoma cancer types
GSE36460
Gastrointestinal Adenocarcinomas of the Esophagus, Stomach, and Colon Exhibit Distinct Patterns of Genome Instability and Oncogenesis.
GSE36471
Human lung adenocarcinoma
GSE37469
Minor clone provides a reservoir for relapse in multiple myeloma
GSE37698
Reactivation of ERK signaling causes resistance to EGFR kinase inhibitors (SNP array)
GSE37700
Reactivation of ERK signaling causes resistance to EGFR kinase inhibitors
GSE38071
Genomic (in)stability of the breast tumor microenvironment
GSE39076
High-resolution genome-wide copy number analysis of pre-invasive mucinous ovarian tumours
GSE40787
Characterization of novel ovarian tumor cell lines that retain the phenotype of primary tumors [SNP]
GSE40788
Characterization of novel ovarian tumor cell lines that retain the phenotype of primary tumors
GSE42624
GeneChip Mapping 500K set and Genome-Wide Human SNP 6.0 Array in meningioma tumors
GSE42631
GeneChip Mapping 500K set and Genome-Wide Human SNP 6.0 Array for glioblastomas
GSE42854
CCND2 rearrangements are the most frequent genetic events in Cyclin D1-negative mantle cell lymphoma
GSE42935
CCND2 rearrangements are the most frequent genetic events in Cyclin D1-negative mantle cell lymphoma [Affymetrix]
GSE43060
Genomic analysis of relapsed Acute Lymphoblastic Leukaemia in children
GSE49317
Affymetrix SNP array data for hepatocellular carcinoma and their adjacent liver tissue samples
GSE51074
Genome-wide copy number profiling of 18 gastric cancer cell lines using 500K SNP arrays
GSE52788
DNA copy number changes in malignant mesothelioma
GSE52901
Impact of Gene Dosage on Gene Expression, Biological Processes and Survival in Cervical Cancer: a Genome-Wide Follow-Up Study [Mapping250K; copy number]
GSE52904
Impact of Gene Dosage on Gene Expression, Biological Processes and Survival in Cervical Cancer: a Genome-Wide Follow-Up Study
GSE54193
Proper genomic profiling of (BRCA1-mutated) basal-like breast carcinomas requires prior removal of tumor infiltrating lymphocytes
GSE54219
Molecular genomic and transcriptomic profiling of familial breast cancer.
GSE57277
Affymetrix SNP array data for diffuse large B cell lymphoma samples
GSE57612
Characterization of genomic imbalances in diffuse large B-cell lymphoma by high resolution SNP-chip analysis
GSE59105
Affymetrix SNP array data for esophageal squamous cell carcinoma samples
GSE62218
Affymetrix SNP array data for human prostate tumor samples
GSE62407
Affymetrix SNP array data for lung cancer samples
GSE64109
Patterns of somatic uniparental disomy identify novel tumor suppressor genes in colorectal cancer
GSE64114
Patterns of somatic uniparental disomy identify novel tumor suppressor genes in colorectal cancer
GSE64257
Prognostic significance of overexpression of Traf2- and Nck- interacting kinase (TNIK) in colorectal cancer [copy number analysis]
GSE64258
Prognostic significance of overexpression of Traf2- and Nck- interacting kinase (TNIK) in colorectal cancer
GSE72192
Combined clinical and genomic signatures for the prognosis of early stage non-small cell lung cancer based on gene copy number alterations [Affymetrix]
GSE72195
Combined clinical and genomic signatures for the prognosis of early stage non-small cell lung cancer based on gene copy number alterations
GSE72660
Integrated Analysis of Genome-Wide DNA Copy Number and Gene Expression with Patient Outcomes in Esophageal Adenocarcinoma [Copy Number]
GSE74704
CSMD1 shows complex somatic alterations in esophageal squamous cell carcinoma based on a pilot integrated analysis [Affy_500K]
GSE74705
CSMD1 shows complex somatic alterations in esophageal squamous cell carcinoma based on a pilot integrated analysis
GSE85814
MRPL53, a New Candidate Gene for Orofacial Clefting, Identified Using an eQTL Approach [SNP array]
GSE85817
MRPL53, a New Candidate Gene for Orofacial Clefting, Identified Using an eQTL Approach
GSE99667
SNP array data for adult T-cell leukemia (ATL)
GSE207762
Integrative Genomic Analysis of Medulloblastoma Identiļ¬es a Molecular Subgroup That Drives Poor Clinical Outcome [DNA copy number]
Data table header descriptions
ID
Affymetrix Probe Set ID
Affy SNP ID
dbSNP RS ID
refSNP ID
Chromosome
Genome Version
DB SNP Version
Physical Position
Strand
ChrX pseudo-autosomal region
Cytoband
SEQUENCE
Flanking sequence
Allele A
Allele B
Associated Gene
Genetic Map
Microsatellite
Fragment Length Start Stop
Freq Asian
Freq AfAm
Freq Cauc
Het Asian
Het AfAm
Het Cauc
af asian called
af afam called
af cauc called
Data table
ID
Affy SNP ID
dbSNP RS ID
Chromosome
Genome Version
DB SNP Version
Physical Position
Strand
ChrX pseudo-autosomal region
Cytoband
SEQUENCE
Allele A
Allele B
Associated Gene
Genetic Map
Microsatellite
Fragment Length Start Stop
Freq Asian
Freq AfAm
Freq Cauc
Het Asian
Het AfAm
Het Cauc
af asian called
af afam called
af cauc called
SNP_A-1780358
10001174
rs17325399
5
NCBI Build 35, May 2004
123, October 2004
54442707
+
0
q11.2
ggataatacatattca[A/G]accaataacatacagc
A
G
NM_152623 // downstream // 1873 // Hs.289044 // FLJ37927 // 166979 // Homo sapiens CDC20-like protein (FLJ37927), mRNA. /// NM_006144 // downstream // 898 // Hs.90708 // GZMA // 3001 // Homo sapiens granzyme A (granzyme 1, cytotoxic T-lymphocyte-associated serine esterase 3) (GZMA), mRNA. /// NM_001008397 // upstream // 49071 // Hs.586212 // LOC493869 // 493869 // Homo sapiens similar to RIKEN cDNA 2310016C16 (LOC493869), mRNA. /// ENST00000331730 // downstream // 26453 // --- // --- // --- // --- /// ENST00000322374 // downstream // 3026 // --- // --- // --- // --- /// ENST00000296733 // downstream // 1873 // --- // --- // --- // --- /// ENST00000274306 // downstream // 898 // --- // --- // --- // Granzyme A precursor (EC 3.4.21.78) (Cytotoxic T-lymphocyte proteinase 1) (Hanukkah factor) (H factor) (HF) (Granzyme-1) (CTL tr /// ENST00000334206 // downstream // 3026 // --- // --- // --- // --- /// ENST00000296734 // upstream // 49071 // --- // --- // --- // ---
70.1601759256984 // D5S2076 // D5S645 // --- // --- /// 62.4491689961378 // D5S2076 // D5S2068 // AFM329YB9 // AFM289ZG9 /// 62.8883024925915 // --- // --- // 529024 // 226185
D5S2546 // upstream // 393390 /// D5S1741 // downstream // 149692
511 // 54442325 // 54442835
1.0 // 0.0 // Chinese /// 1.0 // 0.0 // Japanese
0.81 // 0.19 // Yoruba
1.0 // 0.0 // Caucasian
0.0 // Chinese /// 0.0 // Japanese
0.3078 // Yoruba
0.0 // Caucasian
45.0 /// 45.0
50.0
50.0
SNP_A-1780551
10003881
rs12454921
18
NCBI Build 35, May 2004
123, October 2004
52924726
-
0
q21.31
ggatatcaaagttcca[A/G]gatgtcttttgaggtt
A
G
NM_052834 // downstream // 76707 // Hs.465213 // WDR7 // 23335 // Homo sapiens WD repeat domain 7 (WDR7), transcript variant 2, mRNA. /// NM_015879 // upstream // 244316 // Hs.565135 // ST8SIA3 // 51046 // Homo sapiens ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 3 (ST8SIA3), mRNA. /// NM_015285 // downstream // 76707 // Hs.465213 // WDR7 // 23335 // Homo sapiens WD repeat domain 7 (WDR7), transcript variant 1, mRNA. /// ENST00000357574 // downstream // 76707 // --- // --- // --- // WD-repeat protein 7 (TGF-beta resistance-associated protein TRAG) (Rabconnectin-3 beta). [Source:Uniprot/SWISSPROT;Acc:Q9Y4E6] /// ENST00000324000 // upstream // 244316 // --- // --- // --- // Sia-alpha-2,3-Gal-beta-1,4-GlcNAc-R:alpha 2,8-sialyltransferase (EC 2.4.99.-) (Alpha-2,8-sialyltransferase 8C) (ST8Sia III). [So /// ENST00000254442 // downstream // 76707 // --- // --- // --- // WD-repeat protein 7 (TGF-beta resistance-associated protein TRAG) (Rabconnectin-3 beta). [Source:Uniprot/SWISSPROT;Acc:Q9Y4E6]
77.6893686345296 // D18S1152 // D18S1144 // --- // --- /// 79.8578612782982 // D18S39 // D18S858 // MFD193 // ATA23G05 /// 79.9817673628658 // --- // --- // 46653 // 470145
D18S971 // upstream // 88587 /// D18S1152 // downstream // 57209
728 // 52924072 // 52924799
0.090909 // 0.909091 // Chinese /// 0.3 // 0.7 // Japanese
0.0 // 1.0 // Yoruba
0.05 // 0.95 // Caucasian
0.165289 // Chinese /// 0.42 // Japanese
0.0 // Yoruba
0.095 // Caucasian
44.0 /// 45.0
50.0
50.0
SNP_A-1780357
10001171
rs2713901
15
NCBI Build 35, May 2004
123, October 2004
54398617
-
0
q21.3
ggataatacagatgga[C/T]gatacagatttttaaa
C
T
NM_022841 // upstream // 139815 // Hs.282855 // RFXDC2 // 64864 // Homo sapiens regulatory factor X domain containing 2 (RFXDC2), mRNA. /// NM_198524 // upstream // 46319 // Hs.511476 // TEX9 // 374618 // Homo sapiens testis expressed sequence 9 (TEX9), mRNA. /// NM_018365 // downstream // 109682 // Hs.444483 // MNS1 // 55329 // Homo sapiens meiosis-specific nuclear structural 1 (MNS1), mRNA. /// ENST00000317318 // upstream // 139815 // --- // --- // --- // --- /// ENST00000352903 // upstream // 46319 // --- // --- // --- // testis expressed sequence 9 [Source:RefSeq_peptide;Acc:NP_940926] /// ENST00000260453 // downstream // 109682 // --- // --- // --- // meiosis-specific nuclear structural protein 1 [Source:RefSeq_peptide;Acc:NP_060835]
53.761971760522 // D15S1049 // D15S648 // --- // --- /// 47.7383118746007 // D15S1016 // D15S648 // AFMB324YH9 // ATA20E12 /// 49.8467793173013 // --- // D15S998 // 522616 // ---
D15S924 // upstream // 377401 /// D15S962 // downstream // 36302
646 // 54398503 // 54399148
0.090909 // 0.909091 // Chinese /// 0.102273 // 0.897727 // Japanese
0.104167 // 0.895833 // Yoruba
0.0 // 1.0 // Caucasian
0.165289 // Chinese /// 0.183626 // Japanese
0.186632 // Yoruba
0.0 // Caucasian
44.0 /// 44.0
48.0
50.0
SNP_A-1780550
10003871
rs7965238
12
NCBI Build 35, May 2004
123, October 2004
32113857
+
0
p11.21
ggatatattttcacag[C/T]agcttttagtgtagcc
C
T
NM_001714 // upstream // 37595 // Hs.505202 // BICD1 // 636 // Homo sapiens bicaudal D homolog 1 (Drosophila) (BICD1), transcript variant 1, mRNA. /// NM_001003398 // upstream // 37595 // Hs.505202 // BICD1 // 636 // Homo sapiens bicaudal D homolog 1 (Drosophila) (BICD1), transcript variant 2, mRNA. /// NM_018169 // downstream // 76551 // Hs.445129 // FLJ10652 // 55196 // Homo sapiens hypothetical protein FLJ10652 (FLJ10652), mRNA. /// ENST00000281474 // upstream // 37595 // --- // --- // --- // Cytoskeleton-like bicaudal D protein homolog 1. [Source:Uniprot/SWISSPROT;Acc:Q96G01] /// ENST00000312561 // downstream // 76551 // --- // --- // --- // ---
55.175075448246 // ATA73C05 // D12S345 // --- // --- /// 52.9182979022303 // UNKNOWN // D12S345 // ATA73C05 // AFM296YG5 /// 51.1236167924795 // D12S1621 // D12S1692 // --- // ---
D12S1308 // upstream // 50601 /// D12S1579 // downstream // 27848
747 // 32113382 // 32114128
0.966667 // 0.033333 // Chinese /// 0.988889 // 0.011111 // Japanese
0.8 // 0.2 // Yoruba
0.885417 // 0.114583 // Caucasian
0.064444 // Chinese /// 0.021975 // Japanese
0.32 // Yoruba
0.202908 // Caucasian
45.0 /// 45.0
50.0
48.0
SNP_A-1780352
10001080
rs17012816
4
NCBI Build 35, May 2004
123, October 2004
88805697
+
0
q22.1
ggataagtgaggacta[C/T]gtgcacttcagatctt
C
T
NM_004684 // intron // 0 // Hs.62886 // SPARCL1 // 8404 // Homo sapiens SPARC-like 1 (mast9, hevin) (SPARCL1), mRNA. /// ENST00000282470 // intron // 0 // --- // --- // --- // SPARC-like protein 1 precursor (High endothelial venule protein) (Hevin) (MAST 9). [Source:Uniprot/SWISSPROT;Acc:Q14515]
95.3514747314008 // D4S1542 // D4S2929 // --- // --- /// 95.869410402114 // D4S1534 // D4S2929 // AFM155XE11 // AFMA224WC5 /// 95.8435547202882 // --- // --- // 260346 // 260791
D4S564 // upstream // 61832 /// D4S3294 // downstream // 190516
461 // 88805510 // 88805970
0.344444 // 0.655556 // Chinese /// 0.238095 // 0.761905 // Japanese
0.521739 // 0.478261 // Yoruba
0.193878 // 0.806122 // Caucasian
0.451605 // Chinese /// 0.362812 // Japanese
0.499055 // Yoruba
0.312578 // Caucasian
45.0 /// 42.0
46.0
49.0
SNP_A-1780351
10001077
rs5995963
22
NCBI Build 35, May 2004
123, October 2004
39627473
-
0
q13.2
ggataagtgaccataa[A/T]ggggcttggtggagtg
A
T
NM_022098 // intron // 0 // Hs.558649 // LOC63929 // 63929 // Homo sapiens hypothetical protein LOC63929 (LOC63929), mRNA. /// ENST00000357137 // intron // 0 // --- // --- // --- // ---
49.219080954344 // D22S423 // D22S276 // --- // --- /// 46.637793465991 // D22S1156 // D22S1159 // AFMB001VH5 // AFMB029ZH9 /// 40.731821175824 // --- // D22S1157 // 242417 // ---
D22S1541 // upstream // 271987 /// D22S1256 // downstream // 29722
349 // 39627342 // 39627690
0.931818 // 0.068182 // Chinese /// 0.897727 // 0.102273 // Japanese
0.56383 // 0.43617 // Yoruba
0.49 // 0.51 // Caucasian
0.127066 // Chinese /// 0.183626 // Japanese
0.491852 // Yoruba
0.4998 // Caucasian
44.0 /// 44.0
47.0
50.0
SNP_A-1780350
10001072
rs7785921
7
NCBI Build 35, May 2004
123, October 2004
36535963
-
0
p14.2
ggataagtctgatggc[C/T]acatgctgcaaatgga
C
T
NM_001637 // intron // 0 // Hs.488007 // AOAH // 313 // Homo sapiens acyloxyacyl hydrolase (neutrophil) (AOAH), mRNA. /// ENST00000258749 // intron // 0 // --- // --- // --- // Acyloxyacyl hydrolase precursor (EC 3.1.1.77) [Contains: Acyloxyacyl hydrolase small subunit; Acyloxyacyl hydrolase large subuni
57.3089132783688 // D7S2250 // D7S2209 // --- // --- /// 55.5977319643468 // D7S2251 // D7S2846 // AFMA040YH1 // GATA31A10 /// 46.802163927909 // D7S656 // --- // --- // 51248
D7S704 // upstream // 97739 /// D7S781 // downstream // 112152
533 // 36535544 // 36536076
0.955556 // 0.044444 // Chinese /// 0.988889 // 0.011111 // Japanese
0.99 // 0.01 // Yoruba
0.73 // 0.27 // Caucasian
0.084938 // Chinese /// 0.021975 // Japanese
0.0198 // Yoruba
0.3942 // Caucasian
45.0 /// 45.0
50.0
50.0
SNP_A-1780748
10007663
rs2776928
10
NCBI Build 35, May 2004
123, October 2004
33614411
-
0
p11.22
ggatcctaatgatcac[A/G]aaaaaatttctcatca
A
G
NM_001024628 // intron // 0 // Hs.131704 // NRP1 // 8829 // Homo sapiens neuropilin 1 (NRP1), transcript variant 2, mRNA. /// NM_003873 // intron // 0 // Hs.131704 // NRP1 // 8829 // Homo sapiens neuropilin 1 (NRP1), transcript variant 1, mRNA. /// NM_001024629 // intron // 0 // Hs.131704 // NRP1 // 8829 // Homo sapiens neuropilin 1 (NRP1), transcript variant 3, mRNA. /// ENST00000265371 // intron // 0 // --- // --- // --- // Neuropilin-1 precursor (Vascular endothelial cell growth factor 165 receptor) (CD304 antigen). [Source:Uniprot/SWISSPROT;Acc:O14 /// ENST00000309510 // intron // 0 // --- // --- // --- // Neuropilin-1 precursor (Vascular endothelial cell growth factor 165 receptor) (CD304 antigen). [Source:Uniprot/SWISSPROT;Acc:O14
60.4928479365128 // D10S1654 // D10S1768 // --- // --- /// 61.7584623335165 // D10S199 // D10S1208 // AFM137XH4 // ATA5A04 /// 56.4684096635241 // --- // --- // 52779 // 829553
D10S1666 // upstream // 118039 /// D10S1654 // downstream // 46758
376 // 33614246 // 33614621
0.944444 // 0.055556 // Chinese /// 0.966667 // 0.033333 // Japanese
0.69 // 0.31 // Yoruba
0.93 // 0.07 // Caucasian
0.104938 // Chinese /// 0.064444 // Japanese
0.4278 // Yoruba
0.1302 // Caucasian
45.0 /// 45.0
50.0
50.0
SNP_A-1780747
10007639
rs1108543
19
NCBI Build 35, May 2004
123, October 2004
62191356
+
0
q13.43
ggatccgtgcttgata[C/T]gtgttaatgattttga
C
T
NM_015363 // upstream // 147469 // Hs.201776 // ZIM2 // 23619 // Homo sapiens zinc finger, imprinted 2 (ZIM2), mRNA. /// NM_006210 // upstream // 147480 // Hs.201776 // PEG3 // 5178 // Homo sapiens paternally expressed 3 (PEG3), mRNA. /// NM_020903 // upstream // 140467 // Hs.515632 // USP29 // 57663 // Homo sapiens ubiquitin specific peptidase 29 (USP29), mRNA. /// ENST00000221722 // upstream // 147469 // --- // --- // --- // Zinc finger imprinted 2. [Source:Uniprot/SWISSPROT;Acc:Q9NZV7] /// ENST00000326441 // upstream // 147480 // --- // --- // --- // Zinc finger imprinted 2. [Source:Uniprot/SWISSPROT;Acc:Q9NZV7] /// ENST00000254181 // upstream // 140467 // --- // --- // --- // Ubiquitin carboxyl-terminal hydrolase 29 (EC 3.1.2.15) (Ubiquitin thiolesterase 29) (Ubiquitin-specific processing protease 29) /// ENST00000338157 // upstream // 163528 // --- // --- // --- // Zinc finger imprinted 2. [Source:Uniprot/SWISSPROT;Acc:Q9NZV7] /// ENST00000292074 // upstream // 147477 // --- // --- // --- // Zinc finger imprinted 2. [Source:Uniprot/SWISSPROT;Acc:Q9NZV7]
109.450869085802 // D19S573 // D19S214 // --- // --- /// 99.7457760797369 // D19S891 // D19S214 // AFMA357YH1 // AFM163XF8 /// 97.2102230102757 // --- // D19S404 // 49665 // ---
D19S404 // upstream // 33478 /// D19S725 // downstream // 71533
402 // 62191108 // 62191509
0.311111 // 0.688889 // Chinese /// 0.233333 // 0.766667 // Japanese
0.63 // 0.37 // Yoruba
0.23 // 0.77 // Caucasian
0.428642 // Chinese /// 0.357778 // Japanese
0.4662 // Yoruba
0.3542 // Caucasian
45.0 /// 45.0
50.0
50.0
SNP_A-1780746
10007631
rs3815760
19
NCBI Build 35, May 2004
123, October 2004
38026255
+
0
q13.11
ggatccggtgacttct[C/T]aatcattagagcataa
C
T
NM_014270 // intron // 0 // Hs.408567 // SLC7A9 // 11136 // Homo sapiens solute carrier family 7 (cationic amino acid transporter, y+ system), member 9 (SLC7A9), mRNA. /// ENST00000023064 // intron // 0 // --- // --- // --- // B(0,+)-type amino acid transporter 1 (B(0,+)AT) (Glycoprotein- associated amino acid transporter b0,+AT1). [Source:Uniprot/SWISS
55.8547415683681 // D19S113 // D19S719 // --- // --- /// 56.0543230033569 // D19S414 // D19S208 // AFM295XG9 // AFM116XC7 /// 45.7814467904507 // --- // D19S868 // 57475 // ---
D19S1056 // upstream // 31781 /// D19S607 // downstream // 182363
647 // 38025899 // 38026545
0.822222 // 0.177778 // Chinese /// 0.888889 // 0.111111 // Japanese
0.755102 // 0.244898 // Yoruba
0.53 // 0.47 // Caucasian
0.292346 // Chinese /// 0.197531 // Japanese
0.369846 // Yoruba
0.4982 // Caucasian
45.0 /// 45.0
49.0
50.0
SNP_A-1780745
10007594
rs11207555
1
NCBI Build 35, May 2004
123, October 2004
60153798
+
0
p31.3
ggatccctttttctcc[A/G]aaccacacatgaaaca
A
G
NM_000775 // upstream // 49315 // Hs.152096 // CYP2J2 // 1573 // Homo sapiens cytochrome P450, family 2, subfamily J, polypeptide 2 (CYP2J2), mRNA. /// NM_152377 // downstream // 14290 // Hs.47385 // C1orf87 // 127795 // Homo sapiens chromosome 1 open reading frame 87 (C1orf87), mRNA. /// ENST00000257149 // upstream // 49315 // --- // --- // --- // Cytochrome P450 2J2 (EC 1.14.14.1) (CYPIIJ2) (Arachidonic acid epoxygenase). [Source:Uniprot/SWISSPROT;Acc:P51589] /// ENST00000294607 // downstream // 14290 // --- // --- // --- // ---
85.0492712609467 // D1S2770 // D1S2873 // --- // --- /// 89.4635224810647 // D1S2770 // D1S2873 // AFM256YH5 // AFMA054WA9 /// 78.772681176912 // --- // --- // 598847 // 322250
D1S2873 // upstream // 12029 /// D1S3556 // downstream // 100031
646 // 60153245 // 60153890
0.377778 // 0.622222 // Chinese /// 0.277778 // 0.722222 // Japanese
0.32 // 0.68 // Yoruba
0.52 // 0.48 // Caucasian
0.470123 // Chinese /// 0.401235 // Japanese
0.4352 // Yoruba
0.4992 // Caucasian
45.0 /// 45.0
50.0
50.0
SNP_A-1780743
10007516
rs926143
3
NCBI Build 35, May 2004
123, October 2004
60284581
-
0
p14.2
ggatcccttccggcta[C/G]agtttaatatcctttt
C
G
NM_002012 // intron // 0 // Hs.196981 // FHIT // 2272 // Homo sapiens fragile histidine triad gene (FHIT), mRNA. /// ENST00000341848 // intron // 0 // --- // --- // --- // Bis(5'-adenosyl)-triphosphatase (EC 3.6.1.29) (Diadenosine 5',5'''- P1,P3-triphosphate hydrolase) (Dinucleosidetriphosphatase) (
81.7272294029239 // D3S1234 // D3S1300 // --- // --- /// 79.4837832292042 // D3S1234 // D3S1300 // MFD76 // AFM220YH4 /// 72.4832657472101 // --- // --- // 945055 // 61867
D3S3367 // upstream // 12747 /// D3S2977 // downstream // 49819
392 // 60284354 // 60284745
0.733333 // 0.266667 // Chinese /// 0.777778 // 0.222222 // Japanese
0.276596 // 0.723404 // Yoruba
0.4 // 0.6 // Caucasian
0.391111 // Chinese /// 0.345679 // Japanese
0.400181 // Yoruba
0.48 // Caucasian
45.0 /// 45.0
47.0
50.0
SNP_A-1780549
10003852
rs1423107
5
NCBI Build 35, May 2004
123, October 2004
75468493
+
0
q13.3
ggatatattgtgaaga[C/T]cttaatgccaagatag
C
T
NM_152408 // upstream // 419431 // Hs.432726 // FLJ35779 // 134359 // Homo sapiens hypothetical protein FLJ35779 (FLJ35779), mRNA. /// ENST00000282199 // upstream // 419431 // --- // --- // --- // --- /// ENST00000338626 // downstream // 33181 // --- // --- // --- // ---
89.7091712989519 // D5S2003 // D5S424 // --- // --- /// 78.7390220305634 // D5S1404 // D5S1977 // UT7783 // AFMA204ZF1 /// 79.8137043081195 // --- // --- // 49883 // 47629
D5S2432 // upstream // 570946 /// D5S1404 // downstream // 152480
751 // 75468239 // 75468989
0.875 // 0.125 // Chinese /// 0.966667 // 0.033333 // Japanese
1.0 // 0.0 // Yoruba
1.0 // 0.0 // Caucasian
0.21875 // Chinese /// 0.064444 // Japanese
0.0 // Yoruba
0.0 // Caucasian
44.0 /// 45.0
50.0
50.0
SNP_A-1780547
10003831
rs3771596
2
NCBI Build 35, May 2004
123, October 2004
159219047
+
0
q24.1
ggatatattagacctg[A/C]aataaatggttgttcg
A
C
NM_003628 // intron // 0 // Hs.407580 // PKP4 // 8502 // Homo sapiens plakophilin 4 (PKP4), transcript variant 1, mRNA. /// NM_001005476 // intron // 0 // Hs.407580 // PKP4 // 8502 // Homo sapiens plakophilin 4 (PKP4), transcript variant 2, mRNA. /// ENST00000354977 // intron // 0 // --- // --- // --- // Plakophilin-4 (p0071). [Source:Uniprot/SWISSPROT;Acc:Q99569] /// ENST00000337068 // intron // 0 // --- // --- // --- // Plakophilin-4 (p0071). [Source:Uniprot/SWISSPROT;Acc:Q99569] /// ENST00000272704 // intron // 0 // --- // --- // --- // Plakophilin-4 (p0071). [Source:Uniprot/SWISSPROT;Acc:Q99569] /// ENST00000336933 // intron // 0 // --- // --- // --- // Plakophilin-4 (p0071). [Source:Uniprot/SWISSPROT;Acc:Q99569] /// ENST00000342892 // intron // 0 // --- // --- // --- // Plakophilin-4 (p0071). [Source:Uniprot/SWISSPROT;Acc:Q99569] /// ENST00000318152 // intron // 0 // --- // --- // --- // Plakophilin-4 (p0071). [Source:Uniprot/SWISSPROT;Acc:Q99569]
167.167042522087 // D2S142 // D2S306 // --- // --- /// 162.47196925451 // D2S284 // D2S354 // AFM192YD2 // AFM296XA5 /// 157.894283401867 // --- // --- // 536454 // 65548
D2S1991 // upstream // 74694 /// D2S1410 // downstream // 14732
483 // 159219027 // 159219509
0.188889 // 0.811111 // Chinese /// 0.222222 // 0.777778 // Japanese
0.1 // 0.9 // Yoruba
0.26 // 0.74 // Caucasian
0.30642 // Chinese /// 0.345679 // Japanese
0.18 // Yoruba
0.3848 // Caucasian
45.0 /// 45.0
50.0
50.0
SNP_A-1780541
10003696
rs4503732
15
NCBI Build 35, May 2004
123, October 2004
44429555
-
0
q21.1
ggatatagctcaatga[G/T]tatgcagccttaaata
G
T
NM_021199 // downstream // 658785 // Hs.511251 // SQRDL // 58472 // Homo sapiens sulfide quinone reductase-like (yeast) (SQRDL), mRNA. /// NM_153616 // upstream // 1368423 // Hs.511265 // SEMA6D // 80031 // Homo sapiens sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D (SEMA6D), transcript variant 2, mRN /// NM_024966 // upstream // 1368423 // Hs.511265 // SEMA6D // 80031 // Homo sapiens sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D (SEMA6D), transcript variant 6, mRN /// NM_020858 // upstream // 1368423 // Hs.511265 // SEMA6D // 80031 // Homo sapiens sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D (SEMA6D), transcript variant 1, mRN /// NM_153617 // upstream // 1368423 // Hs.511265 // SEMA6D // 80031 // Homo sapiens sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D (SEMA6D), transcript variant 3, mRN /// NM_153619 // upstream // 1368423 // Hs.511265 // SEMA6D // 80031 // Homo sapiens sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D (SEMA6D), transcript variant 5, mRN /// NM_153618 // upstream // 1368423 // Hs.511265 // SEMA6D // 80031 // Homo sapiens sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D (SEMA6D), transcript variant 4, mRN /// ENST00000260324 // downstream // 658785 // --- // --- // --- // Sulfide:quinone oxidoreductase, mitochondrial precursor (EC 1.-.-.-). [Source:Uniprot/SWISSPROT;Acc:Q9Y6N5] /// ENST00000358066 // upstream // 1368423 // --- // --- // --- // Semaphorin-6D precursor. [Source:Uniprot/SWISSPROT;Acc:Q8NFY4] /// ENST00000354744 // upstream // 1368423 // --- // --- // --- // Semaphorin-6D precursor. [Source:Uniprot/SWISSPROT;Acc:Q8NFY4] /// ENST00000355997 // upstream // 1368423 // --- // --- // --- // Semaphorin-6D precursor. [Source:Uniprot/SWISSPROT;Acc:Q8NFY4] /// ENST00000316364 // upstream // 1368423 // --- // --- // --- // Semaphorin-6D precursor. [Source:Uniprot/SWISSPROT;Acc:Q8NFY4]
44.8866820461145 // D15S659 // D15S1006 // --- // --- /// 43.7971925005584 // D15S659 // D15S1006 // GATA63A03 // AFMB291YF1 /// 42.9025193575905 // --- // --- // 585384 // 955261
D15S933 // upstream // 498270 /// D15S830 // downstream // 37432
870 // 44429243 // 44430112
0.322222 // 0.677778 // Chinese /// 0.344444 // 0.655556 // Japanese
0.3 // 0.7 // Yoruba
0.03 // 0.97 // Caucasian
0.43679 // Chinese /// 0.451605 // Japanese
0.42 // Yoruba
0.0582 // Caucasian
45.0 /// 45.0
50.0
50.0
SNP_A-1780346
10001033
rs10203791
2
NCBI Build 35, May 2004
123, October 2004
6573293
-
0
p25.2
ggataaggttggtatc[A/G]ctattcaggcaggaat
A
G
ENST00000256722 // downstream // 365758 // --- // --- // --- // --- /// ENST00000360879 // downstream // 508319 // --- // --- // --- // ---
14.8269027090263 // D2S323 // D2S330 // --- // --- /// 13.86766914962 // D2S205 // D2S330 // AFM240YC3 // AFM269XD9 /// 13.1018022918146 // --- // D2S281 // 514233 // ---
D2S281 // upstream // 35505 /// D2S1377 // downstream // 135380
861 // 6572601 // 6573461
1.0 // 0.0 // Chinese /// 1.0 // 0.0 // Japanese
0.927083 // 0.072917 // Yoruba
1.0 // 0.0 // Caucasian
0.0 // Chinese /// 0.0 // Japanese
0.1352 // Yoruba
0.0 // Caucasian
45.0 /// 45.0
48.0
50.0
SNP_A-1780345
10001027
rs7921545
10
NCBI Build 35, May 2004
123, October 2004
14183642
-
0
p13
ggataaggtatgacat[A/C]agtagaacgtgtcatc
A
C
AB037715 // intron // 0 // Hs.330463 // FRMD4A // 55691 // Homo sapiens mRNA for KIAA1294 protein, partial cds. /// NM_018027 // intron // 0 // Hs.330463 // FRMD4A // 55691 // Homo sapiens FERM domain containing 4A (FRMD4A), mRNA. /// ENST00000358621 // intron // 0 // --- // --- // --- // FERM domain-containing protein 4A. [Source:Uniprot/SWISSPROT;Acc:Q9P2Q2] /// ENST00000357447 // intron // 0 // --- // --- // --- // FERM domain-containing protein 4A. [Source:Uniprot/SWISSPROT;Acc:Q9P2Q2]
35.1199541305775 // D10S1707 // D10S1664 // --- // --- /// 35.758909393639 // D10S527 // D10S1664 // UT1729 // AFMA210WE5 /// 35.2394684084589 // --- // D10S1664 // 599491 // ---
D10S1664 // upstream // 160226 /// D10S1707 // downstream // 311984
734 // 14183563 // 14184296
0.255556 // 0.744444 // Chinese /// 0.277778 // 0.722222 // Japanese
0.78125 // 0.21875 // Yoruba
0.38 // 0.62 // Caucasian
0.380494 // Chinese /// 0.401235 // Japanese
0.341797 // Yoruba
0.4712 // Caucasian
45.0 /// 45.0
48.0
50.0
SNP_A-1780342
10001011
rs2660228
16
NCBI Build 35, May 2004
123, October 2004
4868340
+
0
p13.3
ggataaggggagagcc[A/G]ctcgtatggaagccag
A
G
AF108461 // intron // 0 // Hs.440219 // UBN1 // 29855 // Homo sapiens ubinuclein (UBN1) mRNA, alternatively spliced, complete cds. /// NM_016936 // intron // 0 // Hs.440219 // UBN1 // 29855 // Homo sapiens ubinuclein 1 (UBN1), mRNA. /// ENST00000262376 // intron // 0 // --- // --- // --- // Ubinuclein (Ubiquitously expressed nuclear protein) (VT4). [Source:Uniprot/SWISSPROT;Acc:Q9NPG3] /// ENST00000338404 // intron // 0 // --- // --- // --- // Ubinuclein (Ubiquitously expressed nuclear protein) (VT4). [Source:Uniprot/SWISSPROT;Acc:Q9NPG3]
11.9488321676316 // D16S3072 // D16S423 // --- // --- /// 9.25572425754321 // D16S3065 // D16S423 // AFMA323YF5 // AFM249YC5 /// 12.8072219945032 // --- // --- // 505838 // 484657
D16S2903 // upstream // 2531 /// D16S2965 // downstream // 5409
623 // 4867839 // 4868461
0.988889 // 0.011111 // Chinese /// 1.0 // 0.0 // Japanese
0.377551 // 0.622449 // Yoruba
0.908163 // 0.091837 // Caucasian
0.021975 // Chinese /// 0.0 // Japanese
0.470012 // Yoruba
0.166805 // Caucasian
45.0 /// 45.0
49.0
49.0
SNP_A-1780341
10000992
rs16981668
20
NCBI Build 35, May 2004
123, October 2004
20124387
+
0
p11.23
ggataaggcccaatta[C/T]gcagttttatagcagg
C
T
NM_015585 // intron // 0 // Hs.176013 // C20orf26 // 26074 // Homo sapiens chromosome 20 open reading frame 26 (C20orf26), mRNA. /// ENST00000245957 // intron // 0 // --- // --- // --- // --- /// ENST00000343997 // intron // 0 // --- // --- // --- // --- /// ENST00000339482 // intron // 0 // --- // --- // --- // --- /// ENST00000344011 // intron // 0 // --- // --- // --- // ---
49.3476870142322 // D20S432 // D20S912 // --- // --- /// 44.2347392961788 // D20S860 // D20S54 // AFMA337ZH9 // D20S54 /// 46.9547154655615 // D20S471 // --- // --- // 48858
D20S1101 // upstream // 174057 /// D20S578E // downstream // 160705
861 // 20124101 // 20124961
0.544444 // 0.455556 // Chinese /// 0.5 // 0.5 // Japanese
0.94 // 0.06 // Yoruba
0.96 // 0.04 // Caucasian
0.496049 // Chinese /// 0.5 // Japanese
0.1128 // Yoruba
0.0768 // Caucasian
45.0 /// 45.0
50.0
50.0
SNP_A-1780340
10000983
rs11168370
12
NCBI Build 35, May 2004
123, October 2004
46721547
+
0
q13.11
ggataaggcaatctcc[A/C]gaagtaaggaattgat
A
C
NM_014554 // downstream // 1728 // Hs.371957 // SENP1 // 29843 // Homo sapiens SUMO1/sentrin specific peptidase 1 (SENP1), mRNA. /// M26066 // upstream // 64426 // Hs.75160 // PFKM // 5213 // Human muscle phosphofructokinase (PFKM) mRNA, complete cds. /// NM_000289 // upstream // 64609 // Hs.75160 // PFKM // 5213 // Homo sapiens phosphofructokinase, muscle (PFKM), mRNA. /// NM_001844 // upstream // 37019 // Hs.408182 // COL2A1 // 1280 // Homo sapiens collagen, type II, alpha 1 (primary osteoarthritis, spondyloepiphyseal dysplasia, congenital) (COL2A1), transcript /// NM_033150 // upstream // 37019 // Hs.408182 // COL2A1 // 1280 // Homo sapiens collagen, type II, alpha 1 (primary osteoarthritis, spondyloepiphyseal dysplasia, congenital) (COL2A1), transcript /// ENST00000004980 // downstream // 1728 // --- // --- // --- // Sentrin-specific protease 1 (EC 3.4.22.-) (Sentrin/SUMO-specific protease SENP1). [Source:Uniprot/SWISSPROT;Acc:Q9P0U3] /// ENST00000359794 // upstream // 64426 // --- // --- // --- // 6-phosphofructokinase, muscle type (EC 2.7.1.11) (Phosphofructokinase 1) (Phosphohexokinase) (Phosphofructo-1-kinase isozyme A) /// ENST00000354516 // upstream // 37019 // --- // --- // --- // Collagen alpha-1(II) chain precursor [Contains: Chondrocalcin]. [Source:Uniprot/SWISSPROT;Acc:P02458] /// ENST00000339976 // downstream // 1401 // --- // --- // --- // Sentrin-specific protease 1 (EC 3.4.22.-) (Sentrin/SUMO-specific protease SENP1). [Source:Uniprot/SWISSPROT;Acc:Q9P0U3] /// ENST00000282439 // upstream // 77881 // --- // --- // --- // 6-phosphofructokinase, muscle type (EC 2.7.1.11) (Phosphofructokinase 1) (Phosphohexokinase) (Phosphofructo-1-kinase isozyme A) /// ENST00000334441 // upstream // 43559 // --- // --- // --- // --- /// ENST00000340802 // upstream // 64609 // --- // --- // --- // 6-phosphofructokinase, muscle type (EC 2.7.1.11) (Phosphofructokinase 1) (Phosphohexokinase) (Phosphofructo-1-kinase isozyme A) /// ENST00000337299 // upstream // 37019 // --- // --- // --- // Collagen alpha-1(II) chain precursor [Contains: Chondrocalcin]. [Source:Uniprot/SWISSPROT;Acc:P02458] /// ENST00000360091 // upstream // 37176 // --- // --- // --- // Collagen alpha-1(II) chain precursor [Contains: Chondrocalcin]. [Source:Uniprot/SWISSPROT;Acc:P02458]
62.4953057794749 // D12S1701 // D12S2199 // --- // --- /// 63.5526859324791 // D12S1701 // D12S1661 // AFM345XF1 // AFMB314YH5 /// 59.9763293669542 // D12S1701 // --- // --- // 63309
D12S1814 // upstream // 46224 /// D12S2021 // downstream // 68531
848 // 46721232 // 46722079
0.693182 // 0.306818 // Chinese /// 0.8 // 0.2 // Japanese
0.84 // 0.16 // Yoruba
0.86 // 0.14 // Caucasian
0.425362 // Chinese /// 0.32 // Japanese
0.2688 // Yoruba
0.2408 // Caucasian
44.0 /// 45.0
50.0
50.0
Total number of rows: 238378 Table truncated, full table size 301208 Kbytes .
Supplementary data files not provided