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Identification of differentiation status of human embryonic stem cell cultures.

ABSTRACT: Two stages of culture were tested. ESC is the pluripotent stage expressing SSEA4 and Oct4 but not SSEA1. NSC is a neural-committed stage expressing Nestin but not beta-tubulin. Three cell lines were tested: H1, HSF1, and HSF6. One sample was assayed from each cell line at each stage of culture. Clustering reveals primary grouping is by stage.

ORGANISM(S): Homo sapiens

SUBMITTER: Ronald Hart

PROVIDER: E-GEOD-15206 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Ago2 immunoprecipitation identifies predicted microRNAs in human embryonic stem cells and neural precursors.

Goff Loyal A LA Davila Jonathan J Swerdel Mavis R MR Moore Jennifer C JC Cohen Rick I RI Wu Hao H Sun Yi E YE Hart Ronald P RP

PloS one 20090928 9

<h4>Background</h4>MicroRNAs are required for maintenance of pluripotency as well as differentiation, but since more microRNAs have been computationally predicted in genome than have been found, there are likely to be undiscovered microRNAs expressed early in stem cell differentiation.<h4>Methodology/principal findings</h4>SOLiD ultra-deep sequencing identified >10(7) unique small RNAs from human embryonic stem cells (hESC) and neural-restricted precursors that were fit to a model of microRNA bi ...[more]

PMID: 19784364

Similar Datasets

Identification of differentiation status of human embryonic stem cell cultures.

Project description:Two stages of culture were tested. ESC is the pluripotent stage expressing SSEA4 and Oct4 but not SSEA1. NSC is a neural-committed stage expressing Nestin but not beta-tubulin. Three cell lines were tested: H1, HSF1, and HSF6.

2009-06-01 | GSE15206 | GEO

Molecular and functional features demarcate embryonic and induced pluripotent stem cells in rabbits

Project description:Little is known about the molecular and functional features of pluripotent stem cells (PSCs) in rabbits. To address this, we derived and characterized two types of rabbit PSCs from the same breed of New Zealand White rabbits: four lines of embryonic stem cells (rbESCs), and three lines of induced PSCs (rbiPSCs) that resulted from reprogramming adult skin fibroblasts. All lines were dependent on fibroblast growth factor 2. All rbESC lines exhibited molecular and functional properties typically associated with primed pluripotency. The rbESC lines also exhibited a cell cycle with a prolonged G1 phase and a DNA damage checkpoint prior to entry into the S phase, which are two features typically associated with the somatic cell cycle. In contrast, the rbiPSC lines exhibited some characteristics of naÃ¯ve pluripotency as defined in rodents, including resistance to single cell dissociation by trypsin, robust activity of the distal enhancer of the mouse Oct4 gene, and expression of naÃ¯ve-specific genes. According to gene expression profiles, rbiPSCs were closer to the rabbit inner cell mass than rbESCs. We propose that rbiPSCs self-renew in an intermediate state between naÃ¯ve and primed pluripotency, which represents a key step toward the generation of bona fide naÃ¯ve PSC lines in rabbits The patterns of stage specific embryonic antigen (SSEA) expression were also assessed between cell lines. All two rbiPSC lines exhibited heterogeneous expression of SSEA1 and SSEA4 that leads to obtain 3 different cell sub-populations (SSEA1+, SSEA1+/4+, SSEA1-/4-). All four rbESC lines expressed only SSEA1 and not SSEA4. Then, for this category of cell lines, we used 3 different cell sub-populations (SSEA1+, SSEA1-, and total which contained all cell types). Three independent experiments were performed for each line and for each cell sub-population.

2013-01-11 | E-GEOD-43403 | biostudies-arrayexpress

Derivation of authentic porcine embryonic stem cells using defined culture conditions

Project description:Pig embryonic stem cells (ESCs) have been considered as an important candidate for preclinical researches on human therapy. However, the lack of understanding of pig pluripotent networks has hampered establishment of authentic pig ESCs. Here, we report that FGF2, ACTVIN, and WNT signaling is essential for maintaining pig pluripotency in vitro. Pig ESC lines derived by stimulating three signlaings formed colonies of flattened monolayer morphology. Newly derived ESCs were stably maintained over an extended period, and were capable of forming teratomas comprising three germ layers. Immunostaining showed that the stem cells expressed pluripotency markers including OCT4, SOX2, NANOG, SSEA1, and SSEA4. Transcriptome analysis showed that pig ESCs were developmentally similar to late epiblasts of preimplantation embryos and in terms of biological functions resembled human rather than mouse ESCs. However, the pig ESCs had distinct features such as coexpression of SSEA1 and SSEA4, two active X chromosomes, and a unique transcriptional pattern. In conclusion, we successfully derived authentic pig ESCs using novel cell culture conditions. Our findings will facilitate both the development of large animal models for human stem cell therapy and the generation of pluripotent stem cells from other domestic animals for agricultural use.

2019-07-08 | GSE120031 | GEO

SSEA4 is a marker for chemotherapy resistance [miRNA]

2015-11-19 | GSE57704 | GEO

SSEA4 is a marker for chemotherapy resistance [mRNA]

2015-11-19 | GSE57703 | GEO

SSEA4 is a marker for chemotherapy resistance [miRNA]

Project description:By coupling PDX and cell surface marker screening technologies, we have identified distinct tumor cell sub-populations that are associated with tumor resistance to chemotherapy. In the majority of relapsed tumors, the percentage of the marker-positive cells shifted back to pretreatment levels. SSEA4 is one of the cell surface molecules tested that could distinguish enriched residual tumor cells in all the different TNBC PDX models analyzed. The expression of SSEA4 is associated with tumor resistance to chemotherapy and SSEA4+ cells show increased gene expression of genes involved in response to toxins, cellular import/export, cell migration and EMT. The dataset comprises four different sample groups including SSEA4- and SSEA4+ cell fractions isolated from mouse xenografts of human breast cancer cells. Two technical replicates were generated for each cell fraction. Microarray analysis was performed on the Agilent Whole Human Genome Oligo Microarray 8x60K (v2) platform.

2015-11-19 | E-GEOD-57704 | biostudies-arrayexpress

SSEA4 is a marker for chemotherapy resistance [mRNA]

2015-11-19 | E-GEOD-57703 | biostudies-arrayexpress

Comparative analysis of gene expression changes upon overexpression of activated Thickveins in the Drosophila wing at larval vs. pupal stages

Project description:Investigation of whole genome gene expression changes in dissected Drosophila wings at the wandering L3 larval stage and 24h after pupa formation, expressing UAS-activated Thickveins Q-D under control of apterous-gal4 with a tubulin driven temperature sensitive gal80 transgene, compared to the parental strain lacking the UAS-Thickveins transgene A 20 chip study using total RNA recovered from five independently isolated samples of 10 dissected Drosophila wings at the indicated developmental stages expressing UAS-activated thickveins or the non-UAS containing matched control strain.

2012-07-03 | E-GEOD-39056 | biostudies-arrayexpress

RNAseq for Nestin+ bone marrow stromal cells in normal and MLL-AF9 mice

Project description:Cumulative evidence points out to the importance of the bone microenvironment for leukaemic development. Our preliminary results show that bone marrow stem cells, identified by the expression of the intermediate filament protein nestin (Nestin+ cells), provide support and chemoresistance to leukaemic cells. The rationale for these experiments is that leukaemic/Nestin+ cells crosstalk might regulate Nestin+ cells genetic profile to become more supportive elements for leukaemia. Nestin expression level distinguish two different Nestin+ populations, which seem to possess distint characteristics. Therefore, we would like to separately study high-expressing (Nestin high) and low-expressing Nestin cells (Nestin low). From our in vitro results, Nestin+ cells seem to be providing detoxifying tools to leukaemic cells such as antioxidant aminoacids and enzymes. The aim of the project is to identify pathways and genes differentially regulated in Nestin+ high and/or low cells in a leukaemic background.

2020-11-24 | GSE140135 | GEO

Transcription profiling of heat stress response in Arabidopsis wild type and hsf1x3 double knockout mutant lines

Project description:The aim of the expression profiling was to define and to apply criteria that allow discrimination between the effects of heat stress (HS) and HSF-dependent gene expression in Arabidopsis. Therefore we determined and analyzed the expression profiles of wild type (WT) and homozygous hsf1--/hsf3-- double knock out mutant plants (abbreviated hsf1/3). Hsf1/3 plants are deficient in HSF1 and HSF3 activity and unable to induce the fast transient expression of mRNAs of a number of HS genes tested (Lohmann et al., 2004).<br> The effects of HS on gene expression were analyzed after one hour heat treatment (37C) of leaf tissue.

2004-12-15 | E-MEXP-98 | biostudies-arrayexpress

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