GEO DataSets

(Submitter supplied) Mammalian cells are critical hosts for the production of most therapeutic proteins and many proteins for biomedical research. While cell line engineering and bioprocess optimization have yielded high protein titers of some recombinant proteins, many proteins remain difficult to express. Here we use systems biology methods to deciper the factors influencing yields in Chinese hamster ovary (CHO) cells as they produce proteins from the human secretome.

Organism:

Cricetulus griseus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20904

96 Samples

Download data: CSV

(Submitter supplied) Background: Oral squamous cell carcinoma (OSCC) is a common malignant tumor associated with poor prognosis. MicroRNAs (miRNAs) play crucial regulatory roles in the cancer development. However, the role of miRNAs in OSCC development and progression is not well understood. Methods: We sought to establish a dynamic Chinese hamster OSCC animal model, construct miRNA differential expression profiles of its occurrence and development, predict its targets, and perform functional analysis and validation in vitro. more...

Organism:

Cricetulus griseus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL20904

12 Samples

Download data: CSV

(Submitter supplied) We analyzed the difference of gene expression between the isolates havested from long-term cultures (Ma et.al. 2020). In this study, the paradaux cell line were cultured for over 40 days under different population control conditions (uncontrolled, negative feedback and paradoxical feedback. Isolates of each culture were harvested at the end of the long-term culture and preped for whole genomic RNA sequencing.

Organism:

Cricetulus griseus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20904

19 Samples

Download data: TSV

(Submitter supplied) Gene expression is a key determinant of phenotypes that made Chinese Hamster Ovary (CHO) cells, with their human-like glycosylation profile and high protein titers, one of the most widely used cells for the production of therapeutic proteins and biopharmaceuticals. Engineering CHO gene expression thus holds a key to improve drug quality and cost effective production. However, the success of engineering gene expression or ectopic activation of silent genes to optimize desired pathways requires accurate annotation of the underlying regulatory elements and the transcription start site (TSS). more...

Organism:

Cricetulus griseus

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL22327 GPL20904

72 Samples

Download data: BED, BEDGRAPH, TSV

(Submitter supplied) mRNA degradation is a critical aspect of gene expression which dictates mRNA steady-state levels in conjunction with transcription rate. Previous studies in other model organisms have demonstrated that enrichment of specific codons within the open reading frame (ORF) can influence mRNA stability, primarily by modulating translation elongation speed. Despite advancements in our understanding of mRNA stability regulation by microRNAs and 3'UTR-based factors in mammalian systems, the importance of other mRNA regions such as the ORF sequence on dictating cellular mRNA levels are incompletely understood. more...

Organism:

Homo sapiens; Cricetulus griseus

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL21697 GPL20904

14 Samples

Download data: CSV, TXT

(Submitter supplied) Vitamin D3 metabolites are capable of controlling gene expression in mammalian cells through two independent pathways: vitamin D receptor (VDR) and sterol regulatory element-binding protein (SREBP) pathways. In the present study, we dissect the complex biological activity of vitamin D by designing synthetic vitamin D3 analogs specific for VDR or SREBP pathway, i.e., a VDR activator that lacks SREBP inhibitory activity, or an SREBP inhibitor devoid of VDR activity.

Organism:

Cricetulus griseus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20904

4 Samples

Download data: XLSX

(Submitter supplied) The development of next-generation sequencing technologies has opened new opportunities to better characterize complex eukaryotic cells. Chinese hamster ovary (CHO) cells play a primary role in therapeutic protein production, with currently five of the top ten blockbuster selling drugs produced in CHO. However, engineering superior CHO cells with improved production features has had limited results to date and cell lines are still developed through generation and screening of large strain pools. more...

Organism:

Cricetulus griseus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL20904 GPL19001

12 Samples

Download data: XLSX

(Submitter supplied) We present the first comprehensive genome-wide view of CHO translational activity during recombinant expression by the application of ribosome profiling. The distribution of translational power in CHO cells was analyzed in the context of the recombinant mRNAs and the endogenous mRNA pool. In an antibody-producing CHO cell line, the recombinant mRNAs were found to be the most abundant transcripts and also sequestered a substantial amount of translating ribosomes (up to 15%). more...

Organism:

Cricetulus griseus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20904

12 Samples

Download data: TXT

(Submitter supplied) Transcriptomic data from CHO-S cells were gathered from multiple time points during batch culture to provide information about gene presence/absence for generation of a CHO-S cell line specific model using the GIMME algorithm.

Organism:

Cricetulus griseus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20904

40 Samples

Download data: TXT

(Submitter supplied) We report a a large deletion in the gene encoding for laminin subunit α2 (Lama2) in CHO pgsA745.

Organism:

Cricetulus griseus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20904

6 Samples

Download data: TXT

(Submitter supplied) Fed-batch cultivation of recombinant Chinese hamster ovary (CHO) cell lines is one of the most widely used production mode for commercial manufacturing of recombinant protein therapeutics. Furthermore, fed-batch cultivations are often conducted as biphasic processes where culture temperature is decreased to maximize volumetric product yields. However, it still remains to be elucidated which intracellular regulatory elements actually control the observed pro-productive phenotypes. more...

Organism:

Cricetulus griseus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL20904

36 Samples

Download data: FA