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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of cell cycle in HeLa S3 cells, thymidine-nocodazole lock

ABSTRACT: HeLa S3 cells were synchronized in mitosis by arresting first in S phase with thymidine followed by arrest in mitosis with Nocodazole as described in Whitfield et al(2002)Mol.Biol.Cell. This experiment set contains the complete set of 43K arrays for the thymidine-nocodazole synchronization (Thy-Noc).

ORGANISM(S): Homo sapiens

SUBMITTER: Janos Demeter

PROVIDER: E-SMDB-904 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Identification of genes periodically expressed in the human cell cycle and their expression in tumors.

Whitfield Michael L ML Sherlock Gavin G Saldanha Alok J AJ Murray John I JI Ball Catherine A CA Alexander Karen E KE Matese John C JC Perou Charles M CM Hurt Myra M MM Brown Patrick O PO Botstein David D

Molecular biology of the cell 20020601 6

The genome-wide program of gene expression during the cell division cycle in a human cancer cell line (HeLa) was characterized using cDNA microarrays. Transcripts of >850 genes showed periodic variation during the cell cycle. Hierarchical clustering of the expression patterns revealed coexpressed groups of previously well-characterized genes involved in essential cell cycle processes such as DNA replication, chromosome segregation, and cell adhesion along with genes of uncharacterized function. ...[more]

PMID: 12058064

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Transcription profiling of cell cycle in HeLa S3 cells, double thymidine block, experiment 3

Project description:HeLa S3 cells were synchronized in early S phase with a double thymidine block as described in Whitfield et al(2002)Mol.Biol.Cell. This experiment set contains the complete set of 43K arrays for the third double thymidine block synchronization (Thy-Thy3).

2005-09-22 | E-SMDB-903 | biostudies-arrayexpress

Cell division cycle in a human cancer cell line (HeLa)

Project description:This experiment set contains the complete set of raw data for Whitfield et al. (2002)Mol.Biol.Cell. HeLa S3 cells were synchronized by three different methods (double thymidine block, thymidine-nocodazole block or mitotic shake-off)in five independent time courses. mRNA from the first and second double thymidine block experiments were converted to cDNA by standard methods using an oligo-dT/random hexamer mix and hybridized to 24K arrays; mRNA from the third double thymidine and thymidine-nocodazole block experiments were converted to cDNA using olido-dT alone and hybridized to 43K arrays; total RNA from the mitotic shake-off experiment was first amplified using a modified eberwine protocol, aRNA converted to cDNA by reverse transcription with random hexamer and hybridized to 43K arrays. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

2005-10-22 | GSE3497 | GEO

Cell division cycle in a human cancer cell line (HeLa)

2005-10-22 | E-GEOD-3497 | biostudies-arrayexpress

Transcription profiling of cell cycle in HeLa S3 cells, double thymidine Block, experiment 1

Project description:HeLa S3 cells were synchronized in early S phase with a double thymidine block as described in Whitfield et al(2002)Mol.Biol.Cell. This experiment set contains the complete set of 24K arrays for the first double thymidine block synchronization (Thy-Thy1).

2005-09-22 | E-SMDB-901 | biostudies-arrayexpress

Transcription profiling of cell cycle in HeLa S3 cells, double thymidine block, rxperiment 2

Project description:HeLa S3 cells were synchronized in early S phase with a double thymidine block as described in Whitfield et al(2002)Mol.Biol.Cell. This experiment set contains the complete set of 24K arrays for the second double thymidine block synchronization (Thy-Thy2).

2005-09-22 | E-SMDB-902 | biostudies-arrayexpress

RNA BS-seq of Nocodazole treated HeLa cells with NSUN family member deficiency

Project description:m5C accumulates on mRNAs in Nocodazole (Noc) treated cells. To figure out which m5C writer is responsible for these m5C sites, we generated three KO cell lines (NSUN2, NSUN5, and NSUN6) with CRISPR induced mutagenesis. We also used siRNA to suppress the expression of Nop2 (NSUN1) in wild-type HeLa cells. Then we performed mRNA BS-seq on the cells harvested after 48 hours Noc-treatment (for siRNA experiments, cells were treated with siRNA for 48 hours first).

2023-08-20 | GSE197650 | GEO

cdr2 siRNA knockdown during passage through mitosis: HeLa cells, Rat1 wild type and c-myc null cells

Project description:[Hela cells]: We performed cdr2 knockdown with a pool of 4 cdr2-specific siRNAs to test whether cdr2 may regulate c-myc target genes as cells passage through mitosis. [Rat1a wild type and myc null cells]: We performed cdr2 knockdown using a pool of 4 cdr2-specific siRNAs to test whether cdr2 may regulate c-myc target genes as cells passage through mitosis. [HeLa cells]: Cells were transfected with control or cdr2 siRNAs and then cells were synchronized in mitosis using a sequential thymidine/nocodazole block. Cells were subsequently released from nocodazole block and after 3 hours RNA was harvested for microarray analysis [Rat-1 wild type (TGR) and c-myc null (15.19) cells]: Cells were transfected with control or cdr2 siRNAs and then cells were synchronized in mitosis using a sequential thymidine/nocodazole block. Cells were then subsequently released from nocodazole block and after 3 hours RNA was harvested for microarray analysis

2010-04-07 | E-GEOD-20037 | biostudies-arrayexpress

Transcription profiling of cell cycle in HeLa S3, mitotic selection, experiment 1

Project description:HeLa S3 cells in mitosis were selected by mitotic shake-off using an automated cell shaker (Eliassen et al. 2000, MCB)by Beth Alexander and Myra Hurt at Florida State University. This experiment set contains the complete set of 43K arrays for the first mitotic shake-off experiment described in Whitfield et al.(2002), (Shake).

2005-09-22 | E-SMDB-905 | biostudies-arrayexpress

Thymidine starvation

Project description:Thymidine starvation

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Transcription profiling of human synchronized HTC116 cells treated with DMSO or Nocodazole time course

Project description:Analysis of synchronized HCT116 cells at various time points up to 10 hours following treatment with DMSO or Nocodazole. Experiment Overall Design: HCT116 colorectal cancer cell line was obtained from the American Type Culture Collection (ATCC) and grown in McCOYâS 5A MEDIUM MODIFIED (SIGMA) with 10% FBS (JBS). It was maintained at 37Â°C and 5% CO2. Synchronous culture was obtained by incubating cells for 19 h in 2 mM of thymidine, followed by a 9 h-incubation in normal medium and a second 16 h-incubation in thymidine (2 mM). Cells were washed with normal medium followed by treatment with DMSO for 0, 2, 4, 6, 7, 8, 9 and 10 h as a control or 0.1 mg/ml Nocodazole (Sigma) for 7, 8, 9 and 10 h.

2009-04-04 | E-GEOD-14103 | biostudies-arrayexpress

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