Nicholas Spies

Publications

• Recurrent WNT pathway alterations are frequent in relapsed small cell lung cancer
• Neoadjuvant and adjuvant pembrolizumab in resectable locally advanced, human papillomavirus-unrelated head and neck cancer: A multicenter, phase 2 trial
• Standard operating procedure for somatic variant refinement of tumor sequencing data
• Comprehensive genomic analysis reveals FLT3 activation and a therapeutic strategy for a patient with relapsed adult B-lymphoblastic leukemia
• DGIdb 2.0: Mining clinically relevant drug-gene interactions
• Worse fibro-inflammatory activity on diagnostic liver biopsy adversely impacts biochemical remission in autoimmune hepatitis
• Data-Driven Anomaly Detection in Laboratory Medicine: Past, Present, and Future
• Organizational preparedness for the use of large language models in pathology informatics
• Genetic characterization of primary and metastatic high-grade serous ovarian cancer tumors reveals distinct features associated with survival
• Retrotransposons are the major contributors to the expansion of the Drosophila ananassae muller F element
• Erratum: Neoadjuvant and adjuvant pembrolizumab in resectable locally advanced, human papillomavirus⇓unrelated head and neck cancer: A multicenter, phase II trial (CLINICAL CANCER RESEARCH2020;26:5140–52 DOI: 10.1158/1078-0432.CCR-20-1695)
• Standard operating procedure for curation and clinical interpretation of variants in cancer
• The CIViC knowledge model and standard operating procedures for curation and clinical interpretation of variants in cancer
• Impact and frequency of IV fluid contamination on basic metabolic panel results using quality metrics
• Generalizability of a Machine Learning Model for Improving Utilization of Parathyroid Hormone-Related Peptide Testing across Multiple Clinical Centers
• Erratum to: The prognostic effects of somatic mutations in ER-positive breast cancer (Nature Communications, (2018), 9, 1, (3476), 10.1038/s41467-018-05914-x)
• Open-sourced CIViC annotation pipeline to identify and annotate clinically relevant variants using single-molecule molecular inversion probes
• Process improvement in thyroid fine needle aspiration: Standardizing number of smears for enhanced adequacy and diagnosis
• Neoadjuvant and Adjuvant Pembrolizumab in Resectable Locally Advanced, Human Papillomavirus–Unrelated Head and Neck Cancer: A Multicenter, Phase II Trial
• Automating the Detection of IV Fluid Contamination Using Unsupervised Machine Learning
• Informatics for RNA Sequencing: A Web Resource for Analysis on the Cloud
• Asymptomatic Hyponatremia and Hyperkalemia in a Patient with Leukemic Leukocytosis
• DGIdb 3.0: a redesign and expansion of the drug-gene interaction database
• DGIdb: Mining the druggable genome
• Machine-learning algorithm incorporating capacitated sperm intracellular pH predicts conventional in vitro fertilization success in normospermic patients
• DGIdb 3.0: A redesign and expansion of the drug-gene interaction database
• GPT-4 Underperforms Experts in Detecting IV Fluid Contamination
• The prognostic effects of somatic mutations in ER-positive breast cancer
• Machine learning pipelines developed for the prediction of cancelation of inappropriate parathyroid hormone-related peptide orders demonstrate poor performance in predicting provider behavior
• Adenomyosis presenting as a molar pregnancy: A case report
• NeoPalAna: Neoadjuvant palbociclib, a cyclin-dependent kinase 4/6 inhibitor, and anastrozole for clinical stage 2 or 3 estrogen receptor–positive breast cancer
• Distinct clonal identities of B-ALLs arising after lenolidomide therapy for multiple myeloma
• CIViCdb 2022: evolution of an open-access cancer variant interpretation knowledgebase
• A community approach to the cancer-variant-interpretation bottleneck
• Standard operating procedure for somatic variant refinement of sequencing data with paired tumor and normal samples
• The prognostic effects of somatic mutations in ER-positive breast cancer
• A phase I trial of BKM120 (Buparlisib) in combination with fulvestrant in postmenopausal women with estrogen receptor-positive metastatic breast cancer
• CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer
• Evolution of the open-access CIViC knowledgebase is driven by the needs of the cancer variant interpretation community
• Machine Learning Methods in Clinical Flow Cytometry