(Q90295706)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31020842%20AND%20SRC:MED&resulttype=core&format=json

12 April 2020

title

Proteogenomic Annotation of Chinese Hamsters Reveals Extensive Novel Translation Events and Endogenous Retroviral Elements (English)

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12 April 2020

1

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12 April 2020

Paula Meleady

11

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12 April 2020

Susan T Sharfstein

12

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12 April 2020

Yue Zhang

13

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31020842%20AND%20SRC:MED&resulttype=core&format=json

12 April 2020

15

Nathan E Lewis

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12 April 2020

author name string

Seong Won Cha

2

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12 April 2020

Kelly Heffner

3

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12 April 2020

Deniz Baycin Hizal

4

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12 April 2020

Michael A Bowen

5

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12 April 2020

Raghothama Chaerkady

6

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12 April 2020

Robert N Cole

7

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12 April 2020

Vijay Tejwani

8

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12 April 2020

Prashant Kaushik

9

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12 April 2020

Michael Henry

10

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12 April 2020

Vineet Bafna

14

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12 April 2020

publication date

8 May 2019

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Journal of Proteome Research

12 April 2020

published in

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12 April 2020

volume

18

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12 April 2020

issue

6

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12 April 2020

page(s)

2433-2445

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Recent studies on retrovirus-like particles in Chinese hamster ovary cells

12 April 2020

cites work

1 reference

12 December 2020

Endogenous origin of defective retroviruslike particles from a recombinant Chinese hamster ovary cell line

1 reference

12 December 2020

Basic local alignment search tool

1 reference

12 December 2020

Cloning and expression of the human erythropoietin gene

1 reference

12 December 2020

Mammalian cells in culture frequently release type C viruses

1 reference

12 December 2020

Function of the retrovirus long terminal repeat

1 reference

12 December 2020

Chinese hamster ovary cells contain transcriptionally active full-length type C proviruses.

1 reference

12 December 2020

Identification of protein coding regions by database similarity search

1 reference

12 December 2020

Retrovirus classification and cell interactions

1 reference

12 December 2020

Real-time quantitative PCR for retrovirus-like particle quantification in CHO cell culture

1 reference

12 December 2020

Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies

1 reference

12 December 2020

UniProt: the Universal Protein knowledgebase

1 reference

12 December 2020

Proteogenomic mapping as a complementary method to perform genome annotation

1 reference

12 December 2020

GMAP: a genomic mapping and alignment program for mRNA and EST sequences

1 reference

12 December 2020

Regulation of recombinant monoclonal antibody production in chinese hamster ovary cells: a comparative study of gene copy number, mRNA level, and protein expression.

1 reference

12 December 2020

LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons

1 reference

12 December 2020

ProteoWizard: open source software for rapid proteomics tools development

1 reference

12 December 2020

Discovery and revision of Arabidopsis genes by proteogenomics

1 reference

12 December 2020

Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling

1 reference

12 December 2020

Universal sample preparation method for proteome analysis

1 reference

12 December 2020

Removal of endogenous retrovirus-like particles from CHO-cell derived products using Q sepharose fast flow chromatography

1 reference

12 December 2020

The Sequence Alignment/Map format and SAMtools

1 reference

12 December 2020

BEDTools: a flexible suite of utilities for comparing genomic features

1 reference

12 December 2020

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data

1 reference

12 December 2020

Proteogenomics to discover the full coding content of genomes: a computational perspective

1 reference

12 December 2020

Proteomics: challenges, techniques and possibilities to overcome biological sample complexity

1 reference

12 December 2020

The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line

1 reference

12 December 2020

Effects of clonal variation on growth, metabolism, and productivity in response to trophic factor stimulation: a study of Chinese hamster ovary cells producing a recombinant monoclonal antibody.

1 reference

12 December 2020

A beginner's guide to eukaryotic genome annotation

1 reference

12 December 2020

STAR: ultrafast universal RNA-seq aligner

1 reference

12 December 2020

Proteogenomic database construction driven from large scale RNA-seq data

1 reference

12 December 2020

Genome-wide annotation and quantitation of translation by ribosome profiling

1 reference

12 December 2020

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

1 reference

12 December 2020

Genomic landscapes of Chinese hamster ovary cell lines as revealed by the Cricetulus griseus draft genome

1 reference

12 December 2020

Chinese hamster genome sequenced from sorted chromosomes

1 reference

12 December 2020

Construction of a public CHO cell line transcript database using versatile bioinformatics analysis pipelines

1 reference

12 December 2020

Trimmomatic: a flexible trimmer for Illumina sequence data

1 reference

12 December 2020

A draft map of the human proteome

1 reference

12 December 2020

Measurement and control of host cell proteins (HCPs) in CHO cell bioprocesses

1 reference

12 December 2020

Ribosome profiling reveals pervasive translation outside of annotated protein-coding genes

1 reference

12 December 2020

LoRDEC: accurate and efficient long read error correction.

1 reference

12 December 2020

Proteogenomic strategies for identification of aberrant cancer peptides using large-scale next-generation sequencing data

1 reference

12 December 2020

Proteogenomics: concepts, applications and computational strategies

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12 December 2020

MS-GF+ makes progress towards a universal database search tool for proteomics

1 reference

12 December 2020

From FastQ data to high confidence variant calls: the Genome Analysis Toolkit best practices pipeline

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12 December 2020

PROTEOFORMER: deep proteome coverage through ribosome profiling and MS integration

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12 December 2020

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

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12 December 2020

HISAT: a fast spliced aligner with low memory requirements

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12 December 2020

CRISPR/Cas9-mediated genome engineering of CHO cell factories: Application and perspectives

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12 December 2020

Advanced Proteogenomic Analysis Reveals Multiple Peptide Mutations and Complex Immunoglobulin Peptides in Colon Cancer

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12 December 2020

Engineered CHO cells for production of diverse, homogeneous glycoproteins.

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12 December 2020

Elucidation of the CHO Super-Ome (CHO-SO) by Proteoinformatics.

1 reference

12 December 2020

Genome-wide inactivation of porcine endogenous retroviruses (PERVs).

1 reference

12 December 2020

The art of CHO cell engineering: A comprehensive retrospect and future perspectives

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12 December 2020

Proteogenomic Discovery of a Small, Novel Protein in Yeast Reveals a Strategy for the Detection of Unannotated Short Open Reading Frames.

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12 December 2020

Detecting actively translated open reading frames in ribosome profiling data

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12 December 2020

Human Proteomic Variation Revealed by Combining RNA-Seq Proteogenomics and Global Post-Translational Modification (G-PTM) Search Strategy

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12 December 2020

Quantitative feature extraction from the Chinese hamster ovary bioprocess bibliome using a novel meta-analysis workflow

1 reference

12 December 2020

Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 2.1.

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12 December 2020

Predictive glycoengineering of biosimilars using a Markov chain glycosylation model.

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12 December 2020

Whole-Genome Sequencing of Invasion-Resistant Cells Identifies Laminin α2 as a Host Factor for Bacterial Invasion

1 reference

12 December 2020

Ribosome profiling-guided depletion of an mRNA increases cell growth rate and protein secretion

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12 December 2020

Evaluation of two public genome references for chinese hamster ovary cells in the context of rna-seq based gene expression analysis.

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12 December 2020

Glycoengineering of CHO Cells to Improve Product Quality

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12 December 2020

Anti-Apoptosis Engineering for Improved Protein Production from CHO Cells

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12 December 2020

Beyond Read-Counts: Ribo-seq Data Analysis to Understand the Functions of the Transcriptome

1 reference

12 December 2020

CHO-Omics Review: The Impact of Current and Emerging Technologies on Chinese Hamster Ovary Based Bioproduction

1 reference

12 December 2020

Improvements in protein production in mammalian cells from targeted metabolic engineering

1 reference

12 December 2020

The emerging role of systems biology for engineering protein production in CHO cells

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12 December 2020

A reference genome of the Chinese hamster based on a hybrid assembly strategy

1 reference

12 December 2020

The case for not masking away repetitive DNA.

1 reference

12 December 2020

An Online Compendium of CHO RNA-Seq Data Allows Identification of CHO Cell Line-Specific Transcriptomic Signatures

1 reference

12 December 2020

The Expression Pattern of the Phosphoproteome Is Significantly Changed During the Growth Phases of Recombinant CHO Cell Culture

1 reference

12 December 2020

Glyco-engineered CHO cell lines producing alpha-1-antitrypsin and C1 esterase inhibitor with fully humanized N-glycosylation profiles

1 reference

12 December 2020

Reduced apoptosis in Chinese hamster ovary cells via optimized CRISPR interference

1 reference

12 December 2020

10.1021/ACS.JPROTEOME.8B00935

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31020842%20AND%20SRC:MED&resulttype=core&format=json

12 April 2020

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