User profiles for K. Hayer

Katharina E Hayer

Bioinformatics Scientist III, DBHi, Children's Hospital of Philadelphia
Verified email at EMAIL.CHOP.EDU
Cited by 2327

Impaired death receptor signaling in leukemia causes antigen-independent resistance by inducing CAR T-cell dysfunction

N Singh, YG Lee, O Shestova, P Ravikumar, KE Hayer… - Cancer discovery, 2020 - AACR
Resistance to CART19 is a significant barrier to efficacy in the treatment of B-cell malignancies.
This work demonstrates that impaired death receptor signaling in tumor cells causes …

CircaDB: a database of mammalian circadian gene expression profiles

A Pizarro, K Hayer, NF Lahens… - Nucleic acids …, 2012 - academic.oup.com
CircaDB ( http://circadb.org ) is a new database of circadian transcriptional profiles from time
course expression experiments from mice and humans. Each transcript’s expression was …

Simulation-based comprehensive benchmarking of RNA-seq aligners

G Baruzzo, KE Hayer, EJ Kim, B Di Camillo… - Nature …, 2017 - nature.com
Alignment is the first step in most RNA-seq analysis pipelines, and the accuracy of
downstream analyses depends heavily on it. Unlike most steps in the pipeline, alignment is …

[HTML][HTML] DNA double-strand breaks induce H2Ax phosphorylation domains in a contact-dependent manner

…, SI Porter, V Nganga, A Saini, KE Hayer… - Nature …, 2020 - nature.com
… For Cut and Run-seq 500 k cells were processed as described 28,53 . Cells were washed
1× with cut and run wash buffer (20 mM HEPES, pH 7.5, 150 mM NaCl, 0.5 mM spermidine), …

Effectiveness of advanced versus conventional wound dressings on healing of chronic wounds: systematic review and meta-analysis

K Heyer, M Augustin, K Protz, K Herberger, C Spehr… - Dermatology, 2013 - karger.com
Background: Wound dressings are essential in the treatment of chronic wounds and should
be selected on valid and recent evidence. Objective: Effectiveness of advanced compared to …

[HTML][HTML] IVT-seq reveals extreme bias in RNA sequencing

NF Lahens, IH Kavakli, R Zhang, K Hayer, MB Black… - Genome biology, 2014 - Springer
… To eliminate NotI and possible RNase in reaction mixture, the sample was subjected to
Proteinase K treatment. SDS and Proteinase K were added to the reaction mixture to a final …

[HTML][HTML] Direct RNA sequencing reveals m6A modifications on adenovirus RNA are necessary for efficient splicing

AM Price, KE Hayer, ABR McIntyre, NS Gokhale… - Nature …, 2020 - nature.com
Adenovirus is a nuclear replicating DNA virus reliant on host RNA processing machinery.
Processing and metabolism of cellular RNAs can be regulated by METTL3, which catalyzes …

[HTML][HTML] Extreme resistance to weak-acid preservatives in the spoilage yeast Zygosaccharomyces bailii

…, G Nebe-von-Caron, M Novodvorska, K Hayer… - International journal of …, 2013 - Elsevier
Weak-acid preservatives, such as sorbic acid and acetic acid, are used in many low pH foods
to prevent spoilage by fungi. The spoilage yeast Zygosaccharomyces bailii is notorious for …

[HTML][HTML] STAT3–BDNF–TrkB signalling promotes alveolar epithelial regeneration after lung injury

AJ Paris, KE Hayer, JH Oved, DC Avgousti… - Nature Cell …, 2020 - nature.com
… b, K-means analysis was used to subdivide AT2 cells into groups based on their individual
gene expression. Only groups 1, 2, and 3 are indicated, as the others have not been fully …

Benchmark analysis of algorithms for determining and quantifying full-length mRNA splice forms from RNA-seq data

KE Hayer, A Pizarro, NF Lahens, JB Hogenesch… - …, 2015 - academic.oup.com
Motivation: Because of the advantages of RNA sequencing (RNA-Seq) over microarrays, it
is gaining widespread popularity for highly parallel gene expression analysis. For example, …