To construct a fixed time-scaled phylogenetic tree, the investigators combined 828 viral genome sequences obtained from COVID-19 patients at NYU Langone Health between March and May 2020 with 1,899 background sequences that were contributed to the Nextstrain repository. A total of 2,727 SARS-CoV-2 genomic sequences are available in the dataset. The supporting R code included with the dataset will produce...

A Delta-Omicron recombinant of the SARS-CoV-2 virus was sequenced and isolated from an immunosuppressed and unvaccinated male kidney transplant patient who received Sotrovimab for treatment of COVID-19. Further clinical details and medical history of the patient are described in the associated publication. Sotrovimab is a therapeutic monoclonal antibody (mAb) used to treat infections by the BA.1 Omicron...

Randomised Comparisons, in Myeloma Patients of All Ages, of Thalidomide, Lenalidomide, Carfilzomib and Bortezomib Induction Combinations, and of Lenalidomide and Combination Lenalidomide Vorinostat as Maintenance (Myeloma XI) was a randomized controlled trial which recruited 4420 patients in the United Kingdom who were newly diagnosed with symptomatic or non-secretory multiple myeloma to study the...

Sequencing data was collected from adult patients with a diagnosis of myeloma, monoclonal gammopathy of undetermined significance (MGUS), or smoldering myeloma in order to define the genomic characteristics of tumor cells and the tumor microenvironment (including immune cells and peripheral blood) associated with the progression of multiple myeloma. The sequencing data released to dbGaP in 2019...

Utilizing genomic sequencing data collected from COVID-19 patients in New York City metropolitan area, investigators produced a comparison of the introduction and dispersal of the main SARS-CoV-2 variants (Alpha, Iota, Delta, and Omicron-BA.1) from 2020 through 2022. The analysis included 5,577 sequences obtained from samples collected as part of genomic surveillance at NYU Langone Health from December...

This study developed a series of synthetic binding proteins called monobodies that are selective to KRAS(G12D). KRAS(G12D) is a common mutation associated with deadly cancers, such as pancreatic and colorectal cancers. Although recent discoveries have revealed that KRAS(G12D) is no longer undruggable, there are still few direct inhibitors selective to KRAS(G12D). The dataset contains structural coordinates...

Long interspersed element-1 (LINE-1) is an autonomously active retrotransposon in the human genome. The LINE-1 mRNA encodes two proteins, ORF1p and ORF2p, which are essential for retrotransposition. This study showed that electrostatic interactions and trimer conformational dynamics together tune the properties of ORF1p assemblies to allow for efficient LINE-1 ribonucleoprotein complex formation in...

Polycomb repressive complexes (PRCs) are known for repressing transcription through histone modifications and chromatin compaction. The PRCs consist of two central protein complexes, PRC1 and PRC2, which are important for normal gene regulation and development. This study found that PRC1 is essential for the specification of segmentally restricted spinal motor neuron subtypes, while PRC2 activity is...

This study compared SARS-CoV-2 sequences that were collected from infected patients (n=2,397) who were seen at NYU Langone Health facilities and globally (n=24,060 sequences in GISAID) between August 1, 2022, and February 4, 2023 to understand the proliferation of Omicron strain XBB.1.5. Active SARS-CoV-2 infection was confirmed with positive real-time (RT)-qPCR testing. To assess the association between...