resdnaseq quantitative hek293 dna kit  (ATCC)

Journal: Biotechnology and Bioengineering

Article Title: Comparative Analysis of HEK293 Genomic Variability

doi: 10.1002/bit.70105

Figure Lengend Snippet: HEK293 cell line adaptation, growth performance and sample relationships. (a) Specific growth rates and viability profiles over the course of adaptation from adherent cultivation to serum‐free suspension conditions in four different media formulations: Gibco CD293 medium (CD293), Gibco Freestyle F17 medium (F17), Fujifilm BalanCD HEK293 medium (BalCD), Cytiva HyClone Peak Expression medium (PE). (b) Cell growth and viability profiles of adapted cell lines and HEK293_6E cell line (6E), serving as a suspension reference, during a 14‐day batch cultivation. Shading represents the standard deviation of 3 biological replicates. (c) Schematic overview of relationship and developmental stage of publicly available sequencing data (left) and internal cell lines (right) used in this comparative genomic analysis. Red dots indicate adherent cultivation conditions, gray dots mark suspension conditions. Figure was modified from the original study (Malm et al. ).

Article Snippet: Genomic DNA was isolated from adherent ATCC HEK293 cells, HEK293_6E cells and from all four suspension adapted cell lines including the two adaptations into PE.

Techniques: Suspension, Expressing, Standard Deviation, Sequencing, Modification

Journal: Biotechnology and Bioengineering

Article Title: Comparative Analysis of HEK293 Genomic Variability

doi: 10.1002/bit.70105

Figure Lengend Snippet: Genome‐wide and HAdV.5‐specific copy number variation profiles. Heatmap of genome‐wide copy number gains (red) and losses (blue) across all cell lines relative to a diploid reference (a) Individual genome‐wide CNV profiles, relative to a diploid reference, exemplarily shown for parental HEK293 cell lines (b, d), the direct‐suspension‐adapted HEK293_PE_p1 (c) and the genetically modified HEK293E cell lines (e). CNV profiles are shown as scatter plots of calculated coverage bins across the observed genomic region, with panel width proportional to its sequence length. Genome‐wide panels (b–e) display the entire human genome (chr1‐chr22, chrX) and the additional human adenovirus 5 scaffold (HAdV.5). HAdV.5‐specific panels of HEK293 (f) and HEK293E (g) reveal the integrated 4 kb adenoviral segment with light blue areas indicating the open reading frames of corresponding viral genes: early region 1A (E1A), early region 1B (E1B), protein IX (IX) and intermediate‐early transcript IVa2 (IVa2). Values are presented on a log2 scale, with 0 corresponding to the diploid state of the reference, positive ratio indicate gains, and negative ratio indicate losses in the sample. Trend in copy number alteration is highlighted by a red (b–e) or blue (f, g) horizontal line. Analysis was performed using the flat‐reference option (detailed described in Supporting Information ).

Article Snippet: Genomic DNA was isolated from adherent ATCC HEK293 cells, HEK293_6E cells and from all four suspension adapted cell lines including the two adaptations into PE.

Techniques: Genome Wide, Suspension, Genetically Modified, Sequencing

Journal: Biotechnology and Bioengineering

Article Title: Comparative Analysis of HEK293 Genomic Variability

doi: 10.1002/bit.70105

Figure Lengend Snippet: Adenoviral integration site in HEK293 genomes. Depth of covered regions at site of viral integration after realignment of chimeric reads in HEK293_PE_p1 (a) and HEK293E (b). The red‐marked sequence indicates a 19 bp deletion at the site of integration, while the red flags denote the start and end points of the integration. The location is specified below, on the long arm of chromosome 19 at band 13.31, within the PSG4 gene. Differences in depth of coverage between a and b reflect variations in sequencing depth between the two compared datasets.

Article Snippet: Genomic DNA was isolated from adherent ATCC HEK293 cells, HEK293_6E cells and from all four suspension adapted cell lines including the two adaptations into PE.

Techniques: Sequencing