Homo sapiens
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA237441 | ENA |
REPOSITORIES: ENA
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Project description:To elucidate frequencies of genomic structural alterations, we performed an analysis using a SNP genotyping array (Illumina HumanCytoSNP-12 v2.1 DNA Analysis BeadChip Kit) for three human ES cell lines, namely, SEES-1, SEES-2, and SEES-3. Samples were collected after 4 to 60 passages to detect structural mutations occurred during the cell cultivation processes. Our results suggested a higher genomic stability of the ES cells compared to some well-known normal cell lines.
2015-05-20 | GSE54576 | GEO
Project description:To elucidate frequencies of genomic structural alterations, we performed an analysis using a SNP genotyping array (Illumina HumanCytoSNP-12 v2.1 DNA Analysis BeadChip Kit) for three human ES cell lines, namely, SEES-1, SEES-2, and SEES-3. Samples were collected after 4 to 60 passages to detect structural mutations occurred during the cell cultivation processes. Our results suggested a higher genomic stability of the ES cells compared to some well-known normal cell lines. Several samples were collected after 4 to 60 passages and subjected to the SNP genotyping array. We searched for structural mutations occurred during the culture of the ES cells.
2015-05-20 | E-GEOD-54576 | biostudies-arrayexpress
Project description:Here we report the derivation of human ESCs from the polar body thansfer reconstructed embryos. We choose three cell lines from all the cell lines and compare the DNA methylation state. We use human methylation chip to compare genomic DNA methylation level among three PB1 transfer human ES cell lines and three PB2 transfer human ES cell lines.
2018-03-04 | GSE95761 | GEO
Project description:The International Stem Cell Initiative analyzed 127 human embryonic stem cell lines and 11 induced pluripotent cell lines, from 39 laboratories worldwide for genetic changes occurring during culture. Most cell lines were analyzed at an early and late passage. Population structure analysis from SNP detection revealed that the cell lines included representatives of all major ethnic groups. Most lines remained karyotypically normal, but there was a progressive tendency to acquire changes on prolonged culture, commonly affecting chromosomes 1, 12, 17 and 20. DNA methylation patterns changed but haphazardly with no link to time in culture. Structural variants (SVs), below the level of standard chromosome banding, determined from the SNP arrays, also appeared sporadically but no common variants related to culture were observed on chromosomes 1, 12 and 17. However, overlapping SV gains acquired in the chromosome 20q11.21 region during extended culture were identified in over 20% of the cell lines. Three genes within the minimal shared region, ID1, BCL2L1, and HM13, are expressed in human ES cells, with BCL2L1 a strong candidate for driving this culture adaptation of ES cells. In order to provide better insight into the frequency and types of genetic changes affecting human ES cells on prolonged passage, the ISCI has undertaken a survey by karyology and high resolution SNP array of one hundred twenty seven independent human ES cell lines, provided by thirty nine laboratories in twenty countries around the world, particularly to identify the common genetic changes that occur during prolonged culture. Here we append data from the SNP genotyping of the genomic DNA samples extracted from the human embryonic stem cells. A group of eleven human iPS cells from three laboratories was also included to provide a pilot comparison of these pluripotent cells derived by reprogramming.
2011-11-12 | E-GEOD-33522 | biostudies-arrayexpress
Project description:The International Stem Cell Initiative analyzed 127 human embryonic stem cell lines and 11 induced pluripotent cell lines, from 39 laboratories worldwide for genetic changes occurring during culture. Most cell lines were analyzed at an early and late passage. Population structure analysis from SNP detection revealed that the cell lines included representatives of all major ethnic groups. Most lines remained karyotypically normal, but there was a progressive tendency to acquire changes on prolonged culture, commonly affecting chromosomes 1, 12, 17 and 20. DNA methylation patterns changed but haphazardly with no link to time in culture. Structural variants (SVs), below the level of standard chromosome banding, determined from the SNP arrays, also appeared sporadically but no common variants related to culture were observed on chromosomes 1, 12 and 17. However, overlapping SV gains acquired in the chromosome 20q11.21 region during extended culture were identified in over 20% of the cell lines. Three genes within the minimal shared region, ID1, BCL2L1, and HM13, are expressed in human ES cells, with BCL2L1 a strong candidate for driving this culture adaptation of ES cells.
2011-11-12 | GSE33522 | GEO
Project description:Affymetrix SNP array data for various human ES cell lines
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Project description:Microarray gene expression analysis conducted from cell lines in each of three cohorts: (1) Resistant ES cell lines, (2) Sensitive parental ES cell lines treated with YK-4-279 for 72 hours, and (3) untreated sensitive parental ES cell lines (Three replicates from TC32 & TC71 original parental cell lines) We used microarrays to detail the global programme of gene expression underlying mechanism of resistance to YK-4-279 within parental sensitive and resistant selected Ewing's Sarcoma cell lines. We identified distinct classes of up-regulated genes during this process.
2014-09-04 | GSE61042 | GEO
Project description:High throughput analysis of three human adipose cell lines PAZ6, SGBS and SW872
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Project description:Characterization of structural genomic alteration in new-generated dasatinib and imatinib mouse BCR-ABL resistant cell line
2007-08-01 | E-MEXP-997 | biostudies-arrayexpress
Project description:2,4-dibencilaminoquinazoline induced apoptosis in three human cancer cell lines
| PRJNA93231 | ENA