A5104110846- Lung Cancer Treatments and Mutations
- Cancer Genomics and Diagnostics
- Lung Cancer Research Studies
- Esophageal Cancer Research and Treatment
- Melanoma and MAPK Pathways
- Gastric Cancer Management and Outcomes
- Neuroendocrine Tumor Research Advances
- RNA modifications and cancer
- Peptidase Inhibition and Analysis
- Genetic factors in colorectal cancer
- Colorectal Cancer Treatments and Studies
- Cancer Immunotherapy and Biomarkers
- Computational Drug Discovery Methods
- Genomics and Chromatin Dynamics
- Molecular Biology Techniques and Applications
- Synthesis and biological activity
- Endometrial and Cervical Cancer Treatments
- Gastrointestinal Tumor Research and Treatment
- Ovarian cancer diagnosis and treatment
- Bladder and Urothelial Cancer Treatments
- Escherichia coli research studies
- Neuroblastoma Research and Treatments
- HER2/EGFR in Cancer Research
- Thyroid Cancer Diagnosis and Treatment
- Bacterial Genetics and Biotechnology
Molecular Oncology (United States)
2015-2024
Memorial Sloan Kettering Cancer Center
2011-2024
Cornell University
2023-2024
University of Münster
2016-2024
Institute of Medical Microbiology and Hygiene
2024
Southall Environmental Associates (United States)
2019-2022
Kettering University
2011-2019
Institut für Hygiene und Umwelt
2016-2018
Broad Institute
2014-2018
University Hospital Münster
2018
Transcription factors (TFs) regulate the expression of genes through sequence-specific interactions with DNA-binding sites. However, despite recent progress in identifying vivo TF binding sites by microarray readout chromatin immunoprecipitation (ChIP-chip), nearly half all known yeast TFs are unknown specificities, and many additional predicted remain uncharacterized. To address these gaps our knowledge their cis regulatory sequences, we have determined high-resolution profiles for 89 TFs,...
BRAF V600E is the genetic lesion underlying hairy-cell leukemia. We assessed safety and activity of oral inhibitor vemurafenib in patients with leukemia that had relapsed after treatment a purine analogue or who disease was refractory to analogues.
The neuropeptide substance P is a major mediator of neurogenic inflammation and immunomodulatory activities within the central peripheral nervous system. In several cell types, induces expression proinflammatory cytokines that have been implicated in pathogenesis different neuropathologies. Substance preferentially binds to NK-1, receptor neurokinin family, but how receptor-elicited signal translated into inflammatory gene not yet understood. this work, we describe U373 MG astrocytoma cells,...
Abstract Summary: Technological advances in high-throughput sequencing necessitate improved computational tools for processing and analyzing large-scale datasets a systematic automated manner. For that purpose, we have developed PRADA (Pipeline RNA-Sequencing Data Analysis), flexible, modular highly scalable software platform provides many different types of information available by multifaceted analysis starting from raw paired-end RNA-seq data: gene expression levels, quality metrics,...
Quorum sensing is the process of cell-to-cell communication by which bacteria communicate via secreted signal molecules called autoinducers. As cell population density increases, accumulation autoinducers leads to co-ordinated changes in gene expression across bacterial community. The marine bacterium, Vibrio harveyi, uses three achieve intra-species, intra-genera and inter-species cell-cell communication. detection these ultimately production LuxR, quorum-sensing master regulator that...
Abstract National greenhouse gas inventories (NGHGIs) will play an increasingly important role in tracking country progress against United Nations (UN) Paris Agreement commitments. Yet uncertainty land use, use change, and forestry (LULUCF) NGHGHI estimates may undermine international confidence emission reduction claims, particularly for countries that expect forests agriculture to contribute large near-term GHG reductions. In this paper, we propose analytical framework implementing the...
Nobox is a homeobox gene expressed in oocytes and critical oogenesis. deficiency leads to rapid loss of postnatal oocytes. Early oocyte differentiation poorly understood. We hypothesized that lack perturbs global expression genes preferentially as well microRNAs. compared knockout wild-type ovaries using Affymetrix 430 2.0 microarray platform. discovered 28 (74%) 38 the downregulated more than 5-fold absence were oocytes, whereas only 5 (15%) 33 upregulated Protein-binding helped identify...
The availability of an annotated genome sequence for the yeast Saccharomyces cerevisiae has made possible proteome-scale study protein function and protein–protein interactions. These studies rely on cloned open reading frame (ORF) collections that can be used cell-free or cell-based expression. Several ORF are available, but their use data interpretation hindered by reliance now out-of-date annotations, inflexible presence N- C-terminal tags, and/or unknown mutations introduced during...
DNA binding proteins play a number of key roles in cells,in processes including transcriptional regulation,recombination,genome rearrangements,and replication, repair,and modification.Of particular interest are the interactions between transcription factors and their sites,as they an integral part regulatory networks that control gene expression.Despite importance,the specificities most remain unknown,as earlier technologies aimed at characterizing DNA-protein have been time consuming not...
Abstract The extent to which chromosomal gene position in prokaryotes affects local expression remains an open question. Several studies have shown that re-positioning of bacterial transcription units does not alter their pattern, except for a general decrease levels from origin terminus proximal positions, is believed result dosage effects. Surprisingly, the question as whether this context independence cis encoded property unit, or if conferred by factors acting trans , has been addressed...
Abstract Background: Colorectal cancer (CRC) patients of African ancestry (AFR) have been reported to shorter overall survival (OS) than non-African (non-AFR). We analyzed real-world clinico-genomic data from a single tertiary center, including treatment and outcomes, investigate this disparity. Methods: 4, 310 CRC diagnosed after 2014 treated at Memorial Sloan Kettering Cancer Center (MSKCC), 270 AFR 040 non-AFR patients. Patients had their tumors sequenced with MSK-IMPACT, targeted DNA...
Clonal hematopoiesis of indeterminate potential (CHIP) is an age-related condition associated with increased mortality among patients cancer. CHIP mutations high variant-allele frequencies can be detected in tumors, a phenomenon we term tumor-infiltrating clonal (TI-CH). The frequency TI-CH and its effect on tumor evolution are unclear. We characterized 421 early-stage non-small-cell lung cancer (NSCLC) from the TRACERx study 49,351 MSK-IMPACT pan-cancer cohort. studied association survival...
Our group has recently developed a compact, universal protein binding microarray (PBM) that can be used to determine the preferences of transcription factors (TFs). This design represents all possible sequence variants given length k (i.e., k-mers) on single array, allowing complete characterization specificities TF. Here, we present mathematical foundations this based de Bruijn sequences generated by linear feedback shift registers. We show these represent maximum number for any set array...
Desmoplastic melanoma (DM) is a variant of melanoma, which typically affects chronically sun-damaged skin elderly patients. Pure DM displays low density fusiform melanocytes in collagen-rich matrix. In mixed DM, tumor cell higher, and parts the lack abundant stromal fibrosis. Both pure DMs usually express S100 protein homogenously. We report herein an unusual biphenotypic characterized by association with undifferentiated solid spindle nodule. It occurred on scalp 66-year-old man. A biopsy...