A5091588266- Chronic Lymphocytic Leukemia Research
- Gene expression and cancer classification
- Animal Virus Infections Studies
- Molecular Biology Techniques and Applications
- Genomics and Phylogenetic Studies
- Virus-based gene therapy research
- Bioinformatics and Genomic Networks
- Hepatitis C virus research
- Cancer-related molecular mechanisms research
- Hepatitis B Virus Studies
- Glycosylation and Glycoproteins Research
- RNA Interference and Gene Delivery
- RNA modifications and cancer
- Breast Cancer Treatment Studies
- Immunotherapy and Immune Responses
- HER2/EGFR in Cancer Research
- Liver Disease Diagnosis and Treatment
- Galectins and Cancer Biology
- Immunodeficiency and Autoimmune Disorders
- MicroRNA in disease regulation
- T-cell and B-cell Immunology
- RNA regulation and disease
- Endometrial and Cervical Cancer Treatments
- Epigenetics and DNA Methylation
- RNA and protein synthesis mechanisms
Harvard University
2014-2023
Brigham and Women's Hospital
2013-2023
Broad Institute
2014-2023
Massachusetts Institute of Technology
2007-2022
University of Gothenburg
2020
Neurosciences Institute
2014
Ghent University
2008-2013
Vlaams Instituut voor Biotechnologie
2008-2013
Beth Israel Deaconess Medical Center
2012
Howard Hughes Medical Institute
2012
Accurate fusion transcript detection is essential for comprehensive characterization of cancer transcriptomes. Over the last decade, multiple bioinformatic tools have been developed to predict fusions from RNA-seq, based on either read mapping or de novo assembly.
Objective To investigate miR‐155 in the SOD1 mouse model and human sporadic familial amyotrophic lateral sclerosis (ALS). Methods NanoString microRNA, microglia immune gene profiles, protein mass spectrometry, RNA‐seq analyses were measured spinal cord microglia, splenic monocytes, tissue from mice of ALS. was targeted by genetic ablation or peripheral centrally administered anti–miR‐155 inhibitor mice. Results In mice, we found loss molecular signature that characterizes homeostatic...
Recent large-scale genome-wide association studies have discovered several genetic variants associated with Alzheimer disease (AD); however, the extent to which DNA methylation in these AD loci contributes susceptibility remains unknown.To examine of brain 28 reported pathologies.Ongoing community-based clinical pathological cohort aging and dementia (the Religious Orders Study Rush Memory Aging Project) among 740 autopsied participants 66.0 108.3 years old.DNA levels at individual CpG sites...
Abstract Motivation Fusion genes created by genomic rearrangements can be potent drivers of tumorigenesis. However, accurate identification functionally fusion from sequencing requires whole genome sequencing, since exonic alone is often insufficient. Transcriptome provides a direct, highly effective alternative for capturing molecular evidence expressed fusions in the precision medicine pipeline, but current methods tend to inefficient or insufficiently accurate, lacking sensitivity...
Variable tandem repeats are frequently used for genetic mapping, genotyping, and forensics studies. Moreover, variation in some underlies rapidly evolving traits or certain diseases. However, mutation rates vary greatly from repeat to repeat, as a consequence, not all suitable markers interesting unstable modules. We developed model, “SERV,” that predicts the variability of broad range wide organisms. The nonlinear model uses three basic characteristics (number repeated units, unit length,...
Abstract Motivation: Microarrays are capable of determining the expression levels thousands genes simultaneously. In combination with classification methods, this technology can be useful to support clinical management decisions for individual patients, e.g. in oncology. The aim paper is systematically benchmark role non-linear versus linear techniques and dimensionality reduction methods. Results: A systematic benchmarking study performed by comparing versions standard their based on kernel...
A circuit level understanding of immune cells and hematological cancers has been severely impeded by a lack techniques that enable intracellular perturbation without significantly altering cell viability function. Here, we demonstrate vertical silicon nanowires (NWs) gene-specific manipulation diverse murine human with negligible toxicity. To illustrate the power technique, then apply NW-mediated gene silencing to investigate role Wnt signaling pathway in chronic lymphocytic leukemia (CLL)....
Chronic hepatitis B and D infections are major causes of liver disease hepatocellular carcinoma worldwide. Efficient therapeutic approaches for cure absent. Sharing the same envelope proteins, virus delta use sodium/taurocholate cotransporting polypeptide (a bile acid transporter) as a receptor to enter hepatocytes. However, detailed mechanisms viral entry process still poorly understood. Here, we established high-throughput infectious cell culture model enabling functional genomics...
BACKGROUNDLack of a non-invasive diagnostic test contributes to the long delay between onset symptoms and diagnosis endometriosis. The aim this study was evaluate combined performance six potential plasma biomarkers in
We have previously reported the molecular signature of murine pathogenic TH17 cells that induce experimental autoimmune encephalomyelitis (EAE) in animals. Here we show human peripheral blood IFN-γ+IL-17+ (TH1/17) and IFN-γ-IL-17+ (TH17) CD4+ T display distinct transcriptional profiles high-throughput transcription analyses. Compared to cells, TH1/17 gene signatures with marked similarity mouse cells. Assessing 15 representative genes patients multiple sclerosis, find elevated expression...
The purpose of this study was to evaluate the occurrence residual trophoblastic tissue after miscarriage or delivery, assess diagnostic value sonography with color Doppler examination in detection retained tissue, and define what cases expectant management may be an option.We conducted a prospective observational using imaging consecutive patients at routine follow-up delivery. Expectant proposed all suspected providing they were hemodynamically stable absence signs infection. In case...
Chronic hepatitis B virus (HBV) infection is a major cause of chronic liver disease and cancer worldwide. The mechanisms viral genome sensing the evasion innate immune responses by HBV are still poorly understood. Recently, cyclic guanosine monophosphate–adenosine monophosphate synthase (cGAS) was identified as DNA sensor. In this study, we investigated functional role cGAS in elucidate evasion. We performed studies including loss‐of‐function gain‐of‐function experiments combined with...
The disease course of chronic lymphocytic leukemia (CLL) varies significantly within cytogenetic groups. We hypothesized that high-resolution genomic analysis CLL would identify additional recurrent abnormalities associated with short time-to-first therapy (TTFT).
Given multiple studies of brain microRNA (miRNA) in relation to Alzheimer's disease (AD) with few consistent results and the heterogeneity this disease, objective study was explore their mechanism by evaluating different elements pathology, confounding factors mRNA expression data from same subjects region.We report analyses profiling miRNA (n = 700 subjects) lincRNA 540 dorsolateral prefrontal cortex individuals participating two longitudinal cohort aging.We confirm association...
Background and aims HCV infection is a leading risk factor of hepatocellular carcinoma (HCC). However, even after viral clearance, HCC remains elevated. perturbs host cell signalling to maintain infection, derailed circuitry key driver carcinogenesis. Since protein phosphatases are regulators events, we aimed identify that respond with relevance for hepatocarcinogenesis. Methods We assessed mRNA microRNA (miRNA) expression profiles in primary human hepatocytes, liver biopsies resections...