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NA04626 DNA from Fibroblast

Description:

ANEUPLOID CHROMOSOME NUMBER - TRISOMY

Affected:

No

Sex:

Female

Age:

21 FW (At Sampling)

  • Overview
  • Characterizations
  • Phenotypic Data
  • Publications
  • External Links
  • Images

Overview

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Repository NIGMS Human Genetic Cell Repository
Subcollection Chromosome Abnormalities
dbGaP
Quantity 10 µg
Quantitation Method Please see our FAQ
Biopsy Source Buttock
Cell Type Fibroblast
Tissue Type Skin
Transformant Untransformed
Sample Source DNA from Fibroblast
Race White
Relation to Proband proband
Confirmation Karyotypic analysis after cell line submission to CCR
ISCN 47,XXX[20]
Species Homo sapiens
Common Name Human
Remarks Abortus; clinically normal phenotype; initial chromosome analysis of 47,XXX on amniotic fluid and lymphoblast cell cultures; fibroblast culture verified to have same karyotype via in-house testing.

Characterizations

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PDL at Freeze 5.8
Passage Frozen 5
 
IDENTIFICATION OF SPECIES OF ORIGIN Species of Origin Confirmed by Chromosome Analysis
 
GENE MAPPING & DOSAGE STUDIES - Y CHROMOSOME PCR analysis of DNA from this cell culture gave a negative result with a primer for Yq11, DYS227.
 
Cytogenetics Chromosome X: ANEUPLOID Aneuploid Segment (+)Xpter>Xqter

Phenotypic Data

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Remarks Abortus; clinically normal phenotype; initial chromosome analysis of 47,XXX on amniotic fluid and lymphoblast cell cultures; fibroblast culture verified to have same karyotype via in-house testing.

Publications

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García-Pascual CM, Navarro-Sánchez L, Navarro R, Martínez L, Jiménez J, Rodrigo L, Simón C, Rubio C, Optimized NGS Approach for Detection of Aneuploidies and Mosaicism in PGT-A and Imbalances in PGT-SR Genes11: 2020
PubMed ID: 32610655
 
Hwang S, Williams JF, Kneissig M, Lioudyno M, Rivera I, Helguera P, Busciglio J, Storchova Z, King MC, Torres EM, Suppressing Aneuploidy-Associated Phenotypes Improves the Fitness of Trisomy 21 Cells Cell reports29:2473-2488.e5 2019
PubMed ID: 31747614
 
Treff NR, Zimmerman R, Bechor E, Hsu J, Rana B, Jensen J, Li J, Samoilenko A, Mowrey W, Van Alstine J, Leondires M, Miller K, Paganetti E, Lello L, Avery S, Hsu S, Melchior Tellier LCA, Validation of concurrent preimplantation genetic testing for polygenic and monogenic disorders, structural rearrangements, and whole and segmental chromosome aneuploidy with a single universal platform European journal of medical genetics62:103647 2019
PubMed ID: 31026593
 
Tang Z, Berlin DS, Toji L, Toruner GA, Beiswanger C, Kulkarni S, Martin CL, Emanuel BS, Christman M, Gerry NP, A dynamic database of microarray-characterized cell lines with various cytogenetic and genomic backgrounds G3 (Bethesda, Md)3:1143-9 2013
PubMed ID: 23665875
 
Treff NR, Su J, Tao X, Northrop LE, Scott RT, Single-cell whole-genome amplification technique impacts the accuracy of SNP microarray-based genotyping and copy number analyses Molecular human reproduction17:335-43 2010
PubMed ID: 21177337
 
Yim SH, Chung YJ, Jin EH, Shim SC, Kim JY, Kim YS, Hu HJ, Shin SH, Pae HO, Zouali M, Chung HT, The potential role of VPREB1 gene copy number variation in susceptibility to rheumatoid arthritis Molecular immunology48:1338-43 2010
PubMed ID: 21144590
 
Hostetter G, Kim SY, Savage S, Gooden GC, Barrett M, Zhang J, Alla L, Watanabe A, Einspahr J, Prasad A, Nickoloff BJ, Carpten J, Trent J, Alberts D, Bittner M, Random DNA fragmentation allows detection of single-copy, single-exon alterations of copy number by oligonucleotide array CGH in clinical FFPE samples Nucleic acids research38:e9 2009
PubMed ID: 19875416
 
Treff NR, Su J, Tao X, Levy B, Scott RT, Accurate single cell 24 chromosome aneuploidy screening using whole genome amplification and single nucleotide polymorphism microarrays Fertility and sterility94:2017-21 2009
PubMed ID: 20188357
 
Isaksson M, Stenberg J, Dahl F, Thuresson AC, Bondeson ML, Nilsson M, MLGA--a rapid and cost-efficient assay for gene copy-number analysis Nucleic acids research35:e115 2007
PubMed ID: 17823203
 
Peiffer DA, Le JM, Steemers FJ, Chang W, Jenniges T, Garcia F, Haden K, Li J, Shaw CA, Belmont J, Cheung SW, Shen RM, Barker DL, Gunderson KL, High-resolution genomic profiling of chromosomal aberrations using Infinium whole-genome genotyping Genome research16:1136-48 2006
PubMed ID: 16899659
 
Warshawsky I, Chernova OB, Hübner CA, Stindl R, Henneke M, Gal A, Natowicz MR, Multiplex ligation-dependent probe amplification for rapid detection of proteolipid protein 1 gene duplications and deletions in affected males and carrier females with Pelizaeus-Merzbacher disease Clinical chemistry52:1267-75 2006
PubMed ID: 16644873
 
Garcia MJ, Pole JC, Chin SF, Teschendorff A, Naderi A, Ozdag H, Vias M, Kranjac T, Subkhankulova T, Paish C, Ellis I, Brenton JD, Edwards PA, Caldas C, A 1 Mb minimal amplicon at 8p11-12 in breast cancer identifies new candidate oncogenes Oncogene24:5235-45 2005
PubMed ID: 15897872
 
Wang Y, Moorhead M, Karlin-Neumann G, Falkowski M, Chen C, Siddiqui F, Davis RW, Willis TD, Faham M, Allele quantification using molecular inversion probes (MIP) Nucleic acids research33:e183 2005
PubMed ID: 16314297
 
Barrett MT, Scheffer A, Ben-Dor A, Sampas N, Lipson D, Kincaid R, Tsang P, Curry B, Baird K, Meltzer PS, Yakhini Z, Bruhn L, Laderman S, Comparative genomic hybridization using oligonucleotide microarrays and total genomic DNA. Proc Natl Acad Sci U S A101(51):17765-70 2004
PubMed ID: 15591353
 
Bignell GR, Huang J, Greshock J, Watt S, Butler A, West S, Grigorova M, Jones KW, Wei W, Stratton MR, Futreal PA, Weber B, Shapero MH, Wooster R, High-resolution analysis of DNA copy number using oligonucleotide microarrays. Genome Res14(2):287-95 2004
PubMed ID: 14762065
 
Ensminger AW, Chess A, Coordinated replication timing of monoallelically expressed genes along human autosomes. Hum Mol Genet13(6):651-8 2004
PubMed ID: 14734625
 
Ota A, Tagawa H, Karnan S, Tsuzuki S, Karpas A, Kira S, Yoshida Y, Seto M, Identification and characterization of a novel gene, C13orf25, as a target for 13q31-q32 amplification in malignant lymphoma. Cancer Res64(9):3087-95 2004
PubMed ID: 15126345
 
Zhao X, Li C, Paez JG, Chin K, Janne PA, Chen TH, Girard L, Minna J, Christiani D, Leo C, Gray JW, Sellers WR, Meyerson M, An integrated view of copy number and allelic alterations in the cancer genome using single nucleotide polymorphism arrays. Cancer Res64(9):3060-71 2004
PubMed ID: 15126342
 
Lage JM, Leamon JH, Pejovic T, Hamann S, Lacey M, Dillon D, Segraves R, Vossbrinck B, Gonzalez A, Pinkel D, Albertson DG, Costa J, Lizardi PM, Whole genome analysis of genetic alterations in small DNA samples using hyperbranched strand displacement amplification and array-CGH. Genome Res13(2):294-307 2003
PubMed ID: 12566408
 
Chadwick BP, Valley CM, Willard HF., Histone variant macroH2A contains two distinct macrochromatin domains capable of directing macroH2A to the inactive X chromosome. Nucleic Acids Res.29(13):2699-705 2001
PubMed ID: 11433014
 
Chadwick BP, Willard HF., A novel chromatin protein, distantly related to histone H2A, is largely excluded from the inactive X chromosome. J Cell Biol.152(2):375-84 2001
PubMed ID: 11266453
 
Chadwick BP1, Willard HF., Histone H2A variants and the inactive X chromosome: identification of a second macroH2A variant. Hum Mol Genet.10(10):1101-13 2001
PubMed ID: 11331621
 
Pinkel D, Segraves R, Sudar D, Clark S, Poole I, Kowbel D, Collins C, Kuo WL, Chen C, Zhai Y, Dairkee SH, Ljung BM, Gray JW, Albertson DG, High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays. Nat Genet20:207-11 1998
PubMed ID: 9771718
 
Kallioniemi A, Kallioniemi OP, Sudar D, Rutovitz D, Gray JW, Waldman F, Pinkel D, Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors. Science258:818-21 1992
PubMed ID: 1359641
 
Trask B, van den Engh G, Nussbaum R, Schwartz C, Gray J., Quantification of the DNA content of structurally abnormal X chromosomes and X chromosome aneuploidy using high resolution bivariate flow karyotyping. Cytometry11(1):184-95 1990
PubMed ID: 2106419
 
Zacksenhaus E, Sheinin R, Molecular cloning, primary structure and expression of the human X linked A1S9 gene cDNA which complements the ts A1S9 mouse L cell defect in DNA replication. EMBO J9:2923-9 1990
PubMed ID: 2390975

External Links

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dbSNP dbSNP ID: 10746
GEO GEO Accession No: GSM282120
GEO Accession No: GSM282142
GEO Accession No: GSM282147
GEO Accession No: GSM282343
GEO Accession No: GSM282354
GEO Accession No: GSM282359

Images

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View karyotype 
Pricing
International/Commercial/For-profit:
$281.00USD
U.S. Academic/Non-profit/Government:
$139.00USD
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