A5102900844- RNA Interference and Gene Delivery
- Machine Learning in Bioinformatics
- Advanced biosensing and bioanalysis techniques
- Genomics and Phylogenetic Studies
- Data Management and Algorithms
- Algorithms and Data Compression
- Gene expression and cancer classification
- Topic Modeling
- Artificial Intelligence in Healthcare
- Machine Learning in Healthcare
- Data Quality and Management
- RNA and protein synthesis mechanisms
- Virus-based gene therapy research
- AI in cancer detection
- Genetic Mapping and Diversity in Plants and Animals
- Privacy-Preserving Technologies in Data
- Metal-Organic Frameworks: Synthesis and Applications
- Immunodeficiency and Autoimmune Disorders
- Advanced Image and Video Retrieval Techniques
- Protein Structure and Dynamics
- Biochemical and Structural Characterization
- Natural Language Processing Techniques
- DNA and Nucleic Acid Chemistry
- Imbalanced Data Classification Techniques
- Glioma Diagnosis and Treatment
Center for NanoScience
2021-2023
Ludwig-Maximilians-Universität München
2021-2023
Kaiser Permanente
2023
Abt Associates (Nepal)
2017
Middle East Technical University
2007
The Ohio State University
2003-2007
When optimizing nanocarriers, structural motifs that are beneficial for the respective type of cargo need to be identified. Here, succinoyl tetraethylene pentamine (Stp)-based lipo-oligoaminoamides (OAAs) were optimized delivery plasmid DNA (pDNA). Structural variations comprised saturated fatty acids with chain lengths between C2 and C18 terminal cysteines as units promoting nanoparticle stabilization, histidines endosomal buffering, disulfide building blocks redox-sensitive release....
As the capture and analysis of single-time-point microarray expression data becomes routine, investigators are turning to time-series investigate complex gene regulation schemes metabolic pathways. These investigations facilitated by algorithms that can extract cluster related behaviors from full population observed. Although traditional clustering techniques have shown be effective for certain types analysis, they do not take biological nature process into account, therefore clearly...
Sodium iodide symporter (NIS) gene transfer for active accumulation of in tumor cells is a powerful theranostic strategy facilitating both diagnostic and therapeutic application radioiodide. In glioblastoma (GBM), the blood-brain barrier (BBB) presents an additional delivery nucleic acid nanoparticles. present study, we designed dual-targeted NIS plasmid DNA complexes containing targeting ligands transferrin receptor (TfR) epidermal growth factor (EGFR), thus providing potential transport...
Abstract Motivation: The rapidly growing protein structure repositories have opened up new opportunities for discovery and analysis of functional evolutionary relationships among proteins. Detecting conserved structural sites that are unique to a family is great value in identification functionally important atoms residues. Currently available methods computationally expensive fail detect biologically significant local features. Results: We propose Local Feature Mining Proteins (LFM-Pro) as...
Human transferrin protein (Tf) modified polyplexes have already displayed encouraging potential for receptor-mediated nucleic acid delivery into tumors. The use of a blood-derived targeting and polydisperse macromolecular cationic subunits however presents practical challenge pharmaceutical grade production. Here, Tf receptor (TfR) targeted small interfering RNA (siRNA) are designed that completely composed synthetic, monodisperse, sequence-defined generated by solid-phase supported...
We present a multi-dimensional indexing approach for fast sequence similarity search in DNA and protein databases. In particular, we propose effective transformations of subsequences into numerical vector domains build efficient index structures on the transformed vectors. then define distance functions domain examine properties these functions. experimentally compared their (a) approximation quality k-Nearest Neighbor (k-NN) queries, (b) pruning ability (c) E-range queries. Results k-NN...
Ideal drug carriers feature a high loading capacity to minimize the exposure of patients with excessive, inactive carrier materials. The highest imaginable could be achieved by nanocarriers, which are assembled from therapeutic cargo molecules themselves. Here, we describe peptide nucleic acid (PNA)-based zirconium (Zr) coordination nanoparticles exhibit very PNA [Formula: see text] w/w. This metal-organic hybrid nanomaterial class extends enormous compound space polymers towards bioactive...
In this paper, we present CoMRI, compressed multiresolution index, our system for fast sequence similarity search in DNA databases. We employ virtual bounding rectangle (VBR) concept to build a compressed, grid style index structure. An advantage of format over trees is subsequence location information given by the order corresponding VBR list. Taking VBRs, structure fits into reasonable size memory easily. Together with new optimized algorithm, query speed improved significantly. Extensive...
Automatic and accurate classification of items enables numerous downstream applications in many domains. These can range from faceted browsing to product recommendations big data analytics. In the online recruitment domain, we refer classifying job ads pre-defined or custom occupation categories as title classification. A large-scale system power various such semantic search, labor market this paper, discuss experiments conducted improve our in-house system. The component is composed a...
Entity Resolution, also called record linkage or deduplication, refers to the process of identifying and merging duplicate versions same entity into a unified representation. The standard practice is use Rule based Machine Learning model that compares pairs assigns score represent pairs' Match/Non-Match status. However, performing an exhaustive pair-wise comparison on all records leads quadratic matcher complexity hence Blocking step performed before Matching group similar entities smaller...
In the rapidly evolving healthcare industry, platforms now have access to not only traditional medical records, but also diverse data sets encompassing various patient interactions, such as those from web portals. To address this rich diversity of data, we introduce WellFactor: a method that derives profiles by integrating information these sources. Central our approach is utilization constrained low-rank approximation. WellFactor optimized handle sparsity often inherent in data. Moreover,...
Clustering has been shown to be effective in analyzing functional relationships of genes. However, no single clustering method with distance metric is capable capturing all types that a gene may have other In this paper we introduce framework which groups genes around query gene, and ranks them order corresponding different levels similarity utilizing multiple metrics. The focus our efforts create centric clusters. notion Strong Group (SG) presented as cluster definition where two are...
We present a multi-dimensional indexing approach for fast sequence similarity search in DNA and protein databases. In particular, we propose effective transformations of subsequences into numerical vector domains build efficient index structures on the transformed vectors. then define distance functions domain examine properties these functions. experimentally compared their (a) approximation quality k-Nearest Neighbor (k-NN) queries both (b) pruning ability (c) ε-range queries. Results k-NN...
In the rapidly evolving healthcare industry, platforms now have access to not only traditional medical records, but also diverse data sets encompassing various patient interactions, such as those from web portals. To address this rich diversity of data, we introduce WellFactor: a method that derives profiles by integrating information these sources. Central our approach is utilization constrained low-rank approximation. WellFactor optimized handle sparsity often inherent in data. Moreover,...
Multiple sequence alignment (MSA) is used to align three or more sequences of DNA, RNA and protein. It prominent for constructing phylogenetic trees evolutionary relationships between with regard similarities dissimilarities. Variety multiple tools are available online, each having different methods parameters sequences. In this article MSA tools; CLUSTALW, SAGA MAFFT five datasets BALiBASE_R9, DIRMBASE, SABmark additionally constructed DNABali ProteinBali alignment. Result show that both...