Single cell B-cell receptor sequencing is used to identify paired heavy and light chain combination for antibodies against targets of interest, thus generating a large repertoire of monoclonal antibodies more efficiently than the hybridoma technology. MedGenome’s HiTMab (High-throughput monoclonal antibody discovery) platform based on its proprietary single cell genomics technology enables identification of multiple antigen specific B cells against a target.
In this whitepaper, we discuss the features of HitMab in speeding up the discovery of validated antibodies.
Spatial transcriptomics is a transformative technology that allows visualization and quantitation of mRNA molecules
while preserving their spatial context within a tissue sample. Understanding the spatial organization of gene expression
within tissues is crucial for unraveling the complexities of biological systems. Traditional transcriptomic techniques
provide valuable insights into gene expression profiles, but they lack spatial context. Spatial transcriptomics bridges this
gap by enabling simultaneous visualization of gene expression patterns within their anatomical locations. Here we
provide an overview of spatial transcriptomics and its diverse applications across various fields including developmental
biology, neuroscience, cancer research, and regenerative medicine. By enabling high-resolution mapping of gene
expression pattern within tissues, spatial transcriptomics revolutionizes our understanding of complex biological
systems, paving the way for novel discoveries in biology and medicine.
Single-cell (sc) related sequencing allows the study of biological samples at a unique high resolution. While sample sequencing with these technologies is getting more streamlined, the downstream analysis and interpretation of the generated data remains a challenge.
This whitepaper explores how MedGenome has been integrating streamlined workflows following best practices that are widely adopted by the scientific community.
The Whitepaper discusses TCR repertoire profiling using bulk input (from cells and RNA) using the SMARTerTCR Profiling Kit (Takara Bio USA Inc) and single-cell inputs using the SMARTer single-cell TCR Profiling kit and the Chromium Immune Profiling solutions (10X Genomics). We have tested and optimized the commercially available library preparation methods to work for a wide range of input types to obtain TCR alpha, beta, gamma & delta clonotypes (for bulk), and TCR alpha and beta clonotypes from single-cell inputs.
Epigenetic mechanisms play an important role in regulating gene expression. Advances in high-throughput sequencing technologies has enabled genome-wide studies to map epigenetic landscape. Epigenetic studies are now routinely carried out using bulk cell/tissue samples as well as single cell samples. At MedGenome, we have effectively executed and delivered numerous projects on epigenetics studies. We provide an end-to-end solution for Single Cell ATAC Seq, Single Cell Multiome ATAC + Gene Expression, CUT & RUN, BULK ATAC sequencing services and bioinformatics analysis pipelines.
Illumina’s TSO 500 is a comprehensive assay that enables comprehensive genomic profiling of tumor samples. It is a single workflow identifying DNA and RNA variants from the same sample. It can detect InDels, SNVs, CNV, fusions and splice variants. It also measures biomarkers like Tumor Mutational Burden (TMB) and Microsatellite Instability (MSI) using limited sample input. MedGenome uses propriety analysis pipeline along with Illumina’s Basespace platform to analyze data providing high sensitivity and specificity to provide a comprehensive cancer genomic profile.
Single cell genomics not only illuminates the intricate variability among cells in both healthy and diseased tissues, but also reveals the complex molecular underpinnings that drive development and pathogenesis. The multi-layered data gleaned from single cell sequencing requires advanced bioinformatics techniques for thorough analysis and interpretation, enabling researchers to construct a more dynamic and precise understanding of cellular functions and relationships.
MedGenome is known for its flexible, scalable, and highly tailored workflows that align with best practices recognized by the global scientific community. The California-based lab specializes in handling a diverse range of sample types, including fresh, cryopreserved, and fixed specimens. It employs a variety of single-cell analysis techniques to extract detailed cellular insights, as discussed in the whitepaper.
The Whitepaper explores MedGenome’s experience in genomics technologies in developing a comprehensive, customizable service for high-quality genome assembly and annotation.
This BCR Whitepaper discusses MedGenome’s capability to provide unparalleled sequencing solutions to analyze B-cell receptor (BCR) repertoires from human or mouse species. We utilize the Takara SMARTer BCR Profiling Kit that leverages SMART (Switching Mechanism at 5′ End of RNA Template) technology coupled with 5′ RACE approach, for unbiased gene and clonal amplification of BCR repertoire sequences.
Our solutions can help in:
At MedGenome, we provide BCR repertoire profiling from bulk input (from cells & RNA) using the SMARTer BCR Profiling Kit (Takara Bio USA Inc) and single-cell inputs using the Chromium Immune Profiling solutions (10X Genomics). The sample types we have validated include frozen PBMCs, hybridoma and spleen. We follow the manufacturers recommended guidelines for our quality control at every step of the process and provide customers with accurate QC reports. In addition, we support experimental design and basic and advanced analysis.
In this whitepaper, we present MedGenome’s NGS based workflows for profiling of the TCR repertoire: namely a) Bulk TCR profiling using: SMARTer TCR α /β Profiling Kit (Takara Bio USA Inc) and modifications to the protocol for Gamma/Delta TCR repertoire profiling, b) Single cell TCR Profiling using: 10X Genomics Chromium Immune Profiling solutions, and Takara single-cell TCR sequencing kits. We also present an overview of the types of samples we have processed in-house and application.
Cancer immunotherapy is now established as a major therapeutic modality, and 70% of all cancer patients are estimated to receive some form of immunotherapy treatment as a part of their disease control by 2025. Cancer immunotherapy drugs elicit their anti-tumor immune response in a subset of the treated patients by activating CD8 T-cells and provide sustainable and long-lasting benefit in a few. Recently significant efforts have been devoted to understanding the factors that influence response to immuno-therapy or contribute to the development of resistance to therapy. While it is appreciated that many different tumor cell- intrinsic and extrinsic features, including the tumor microenvironment, driver gene mutations, host genetics, microbiome and environmental factors modulate response to immune checkpoint inhibitors [1], the tumor microenvironment ecosystem could be a major contributor in regulating response to immunotherapy and development of resistance [2,3].
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