User profiles for D. Nachmanson

Daniela Nachmanson

Bioinformatics Scientist, TwinStrand Biosciences
Verified email at eng.ucsd.edu
Cited by 286

[HTML][HTML] Inhibition of mTOR signaling and clinical activity of metformin in oral premalignant lesions

…, AA Molinolo, X Wu, Z Wang, D Nachmanson… - JCI insight, 2021 - ncbi.nlm.nih.gov
BACKGROUND The aberrant activation of the PI3K/mTOR signaling circuitry is one of the
most frequently dysregulated signaling events in head and neck squamous cell carcinoma (…

[PDF][PDF] Ultra-sensitive TP53 sequencing for cancer detection reveals progressive clonal selection in normal tissue over a century of human lifespan

…, R Horvat, A Vanderstichele, D Nachmanson… - Cell Reports, 2019 - cell.com
… (C and D) Each spot on the 2D surface represents one of the 1,179 coding positions in
TP53. The y axis indicates mutant allele frequency (MAF). By standard NGS, all positions show …

Targeted genome fragmentation with CRISPR/Cas9 enables fast and efficient enrichment of small genomic regions and ultra-accurate sequencing with low DNA input …

D Nachmanson, S Lian, EK Schmidt, MJ Hipp… - Genome …, 2018 - genome.cshlp.org
Next-generation sequencing methods suffer from low recovery, uneven coverage, and false
mutations. DNA fragmentation by sonication is a major contributor to these problems …

[HTML][HTML] The breast pre-cancer atlas illustrates the molecular and micro-environmental diversity of ductal carcinoma in situ

D Nachmanson, A Officer, H Mori, J Gordon… - NPJ Breast …, 2022 - nature.com
Microenvironmental and molecular factors mediating the progression of Breast Ductal
Carcinoma In Situ (DCIS) are not well understood, impeding the development of prevention …

Mitochondrial DNA mutations are associated with ulcerative colitis preneoplasia but tend to be negatively selected in cancer

KT Baker, D Nachmanson, S Kumar, MJ Emond… - Molecular Cancer …, 2019 - AACR
… To further investigate the mutational pattern by biopsy type within the D-loop and non–D-loop
region, we separated transitions and transversions into the corresponding nucleotide …

Targeted deletion of AKAP7 in dentate granule cells impairs spatial discrimination

…, CA Sanford, MC Slack, J Chin, D Nachmanson… - Elife, 2016 - elifesciences.org
… Western immunoblotting demonstrated that the a isoform is much more abundant than g/d
in the hippocampus (Figure 1B) as well as other brain regions (Figure 1—figure supplement 1)…

[HTML][HTML] Whole-genome CRISPR screening identifies PI3K/AKT as a downstream component of the oncogenic GNAQ–focal adhesion kinase signaling circuitry

…, S Lubrano, DC Rigiracciolo, D Nachmanson… - Journal of Biological …, 2023 - ASBMB
G proteins and G protein–coupled receptors activate a diverse array of signal transduction
pathways that promote cell growth and survival. Indeed, hot spot–activating mutations in …

[HTML][HTML] Adopting duplex sequencing technology for genetic toxicity testing: A proof-of-concept mutagenesis experiment with N-ethyl-N-nitrosourea (ENU)-exposed …

…, EK Schmidt, LN Williams, D Nachmanson… - … /Genetic Toxicology and …, 2023 - Elsevier
… , and liver tissues at 3 h, 24 h, 7 d, and 28 d post-exposure. Significant increases in MF were
… 7 d for liver and blood. The canonical, mutational signature of ENU was established by 7 d

[HTML][HTML] Accurate genome-wide genotyping from archival tissue to explore the contribution of common genetic variants to pre-cancer outcomes

D Nachmanson, M Pagadala, J Steward… - Journal of Translational …, 2022 - Springer
d Evaluation of discrimination of Cox proportional hazard model for BCSE vs no BCSE
outcome using Harrel’s C-index (y-axis) for models only using available risk factors versus …

Characterization of TP53 mutations in Pap test DNA of women with and without serous ovarian carcinoma

…, S Lian, Y Zhang, J Fredrickson, D Nachmanson… - Gynecologic …, 2020 - Elsevier
Objective Pap tests hold promise as a molecular diagnostic for serous ovarian cancer, but
previous studies reported limited sensitivity. Furthermore, the presence of somatic mutations in …