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Arima Genomics
United States
เข้าร่วมเมื่อ 7 ธ.ค. 2018
Gain unparalleled access to the sequence + structure of any genome. Arima Genomics powers discoveries in the life sciences using advanced Hi-C sequencing technology to reveal how spatial and temporal changes in chromatin conformation alter gene regulation and cellular function. Learn more at arimagenomics.com/
An Introduction to Scaffolding with Hi-C Data in Galaxy
Advances in sequencing technologies have revolutionized the field of genomics, allowing for a reduction in both the time and resources required to assemble genomes de novo. One of the challenges in de novo genome assembly is the reconstruction of haplotypes, which is an important resource in analyzing variants and heterozygosity. For downstream utility, scaffolding is needed to decipher the order and location of contigs along chromosomal boundaries.
In this hands-on bioinformatics webinar, learn how you use the Galaxy-VGP workflow with Hi-C and long read data to scaffold your genome to achieve more accurate and contiguous genome assemblies.
What You Will Learn
1. What Hi-C data brings to de novo genome assembly. Understand the fundamentals of genome assembly and see how Hi-C data helps generate high-quality, phased reference genomes.
2. How you can assemble your genome for free with state-of-the-art workflows on Galaxy using long read and Hi-C technology. Learn how to access genome assembly workflows created by the Galaxy Project and the Vertebrate Genome Project (VGP), and how to run them easily on a public Galaxy instance.
3. How Hi-C data is used for assembly curation. Explore how visualization of Hi-C data provides precious information for chromosome identification and manual reorganization.
In this hands-on bioinformatics webinar, learn how you use the Galaxy-VGP workflow with Hi-C and long read data to scaffold your genome to achieve more accurate and contiguous genome assemblies.
What You Will Learn
1. What Hi-C data brings to de novo genome assembly. Understand the fundamentals of genome assembly and see how Hi-C data helps generate high-quality, phased reference genomes.
2. How you can assemble your genome for free with state-of-the-art workflows on Galaxy using long read and Hi-C technology. Learn how to access genome assembly workflows created by the Galaxy Project and the Vertebrate Genome Project (VGP), and how to run them easily on a public Galaxy instance.
3. How Hi-C data is used for assembly curation. Explore how visualization of Hi-C data provides precious information for chromosome identification and manual reorganization.
มุมมอง: 30
วีดีโอ
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Delve into the complexities of the human brain with an exploration of single-cell epigenomics across various brain regions. In this webinar, Dr. Wei Tian of the Salk Institute will shed light on how DNA methylation and chromatin conformation at the single-cell level underpin gene regulation in the human brain, offering unprecedented insights into cellular diversity and regulatory mechanisms in ...
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About the Webinar In recent years, Hi-C sequencing has surpassed traditional methods like RNA-seq and FISH to emerge as one of the most powerful tools for structural variant detection in cancer. In this bioinformatics webinar, explore the nuances of SV data analysis and interpretation. In addition, we will showcase a new bioinformatics product - the Arima Bioinformatics Platform - that makes SV...
Decoding Pediatric Cancers: 3D Genomics Reveals Promising Therapeutic Targets in Ependymoma
มุมมอง 1108 หลายเดือนก่อน
About the Webinar: Ependymoma is a childhood central nervous system tumor type occurring in the brain and spinal cord. Two particularly aggressive molecular groups associated with poor prognosis include the ZFTA-fusion driven group (ZFTA) and the posterior fossa ependymoma group A (PFA). Despite recent progress in understanding the underlying molecular mechanisms, effective targeting of these g...
Bioinformatics for the 3D Genome: An Introduction to Analyzing and Interpreting Hi-C Data
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Hi-C has transformed our understanding of 3D genome architecture, revealing how structural changes influence gene regulation and disease mechanisms. Yet, the rich data landscape Hi-C unlocks can seem intimidating - where do you even begin with Hi-C data analysis? If Hi-C bioinformatics feels like a black box, this webinar is for you! In this one-hour webinar, hear from an expert Hi-C bioinforma...
Uncovering the Functional Context of Variants with Multi-Omics
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Genome-wide association studies (GWAS) have been incredible in identifying genetic signals linked to various traits and conditions. However, they often fall short in pinpointing the culprit genes responsible for these traits, particularly in noncoding regions. In this webinar, learn how the Center for Spatial and Functional Genomics at the Children’s Hospital of Philadelphia (CHOP) has develope...
Unveiling the Power of 3D Genomics: Decoding Extreme Structural Heterogeneity in Glioblastoma (E...
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*This webinar version includes a rebroadcast of our June webinar to a live audience in European time on July 5th, 2023. It includes a live Q&A session at the end. About the Webinar: Glioblastoma multiforme (GBM) encompasses brain malignancies marked by phenotypic and transcriptional heterogeneity thought to render these tumors aggressive, resistant to therapy, and inevitably recurrent. However,...
Unveiling the Power of 3D Genomics: Decoding Extreme Structural Heterogeneity in Glioblastoma
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About the Webinar: Glioblastoma multiforme (GBM) encompasses brain malignancies marked by phenotypic and transcriptional heterogeneity thought to render these tumors aggressive, resistant to therapy, and inevitably recurrent. However, little is known about how the spatial organization of GBM genomes underlies this heterogeneity and its effects. Dr. Argyris Papantonis, Professor for Translationa...
The New Omic on the Block: Understanding the Genetic Basis of Leukemia with 3D Genomics
มุมมอง 112ปีที่แล้ว
About the Webinar: Acute leukemia is the most common childhood cancer and is driven by diverse genomic alterations that frequently target transcriptional regulator genes. Although standard DNA sequencing approaches can readily identify protein-coding mutations, genomic alterations that occur in the noncoding genome are more challenging to interpret yet are proving to be quite prevalent in leuke...
Capture the Genome: Exploring Noncoding Regions and Structural Variation with 3D Genomics
มุมมอง 82ปีที่แล้ว
3D genomics is a powerful NGS approach that provides unparalleled access to the sequence, structure, and regulatory landscape of genomes. In this joint webinar with Agilent Technologies, Anthony Schmitt, SVP of Science at Arima Genomics, will share how 3D genomics allows researchers to study noncoding regions of the genome, explore structural variants driving disease, and identify new therapeut...
Epigenetic Therapy Targets the 3D Epigenome in Endocrine-Resistant Breast Cancer
มุมมอง 162ปีที่แล้ว
About the Webinar 3D epigenome remodeling is an important mechanism of gene deregulation in cancer. However, its potential as a target to overcome therapy resistance remains largely unaddressed. In this webinar, learn how researchers at the Garvan Institute used 3D genomics to explore mechanisms by which an FDA-approved epigenetic therapy can suppress tumor growth in ER breast cancer. Key Takea...
USCAP 2023: Revealing the Broader Impact of Gene Fusions in Cancer with 3D Genomics
มุมมอง 234ปีที่แล้ว
Hear from Anthony Schmitt, PhD, SVP of Science at Arima Genomics, who shares how Arima’s DNA-based, FFPE-compatible kit enables identification of novel gene fusions in clinical samples thought to be driver negative, yielding exciting new opportunities in precision oncology. Dr. Schmitt is joined by Dr. Sarah Chiang, MD, of Memorial Sloan Kettering Cancer Center, who shares her clinical experien...
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มุมมอง 1.7Kปีที่แล้ว
"Arima-HiC: A simple and robust Hi-C workflow for signal-enriched and high-quality chromatin conformation and genome assembly analyses Within living cells, the genome is folded into complex three-dimensional (3D) structures whereby DNA segments that are spatially proximal in 3D space can be far apart along the linear genome. Hi-C is a proximity ligation sample preparation method that captures s...
3D Genomics for Structural Variant Detection: Technology Update
มุมมอง 65ปีที่แล้ว
3D Genomics for Structural Variant Detection: Technology Update
Next Generation Epigenomics for Oncology: Dissecting Noncoding Regulatory Elements in Cancer Gen...
มุมมอง 46ปีที่แล้ว
Next Generation Epigenomics for Oncology: Dissecting Noncoding Regulatory Elements in Cancer Gen...
Illuminating the Human Retina with 3D Genomics: Leveraging Chromatin Architecture to Understand ...
มุมมอง 72ปีที่แล้ว
Illuminating the Human Retina with 3D Genomics: Leveraging Chromatin Architecture to Understand ...
Achieving Chromosome-Scale Assemblies with Arima Hi-C
มุมมอง 117ปีที่แล้ว
Achieving Chromosome-Scale Assemblies with Arima Hi-C
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มุมมอง 322ปีที่แล้ว
Single-Cell 3D Genomics in Neuroscience and the BRAIN Initiative
Advances in Nuclear Topology Symposium 2022
มุมมอง 942ปีที่แล้ว
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AMP 2022 Presentation: How the 3D Genome Reveals Novel Disease Mechanisms
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A New Frontier in Biomarker Discovery - October 4, 2022
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A New Frontier in Biomarker Discovery - October 4, 2022
Got Blood? How 3D Genomics Detects Structural Variants in Pediatric Leukemia Patients
มุมมอง 16Kปีที่แล้ว
Got Blood? How 3D Genomics Detects Structural Variants in Pediatric Leukemia Patients
Where Will Genomes Take Us Next: How Chromosome-Scale Assemblies Are Unlocking New Biology
มุมมอง 1.2Kปีที่แล้ว
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Structural Variants as Genomic Drivers of Human Disease.mp4
มุมมอง 1732 ปีที่แล้ว
Structural Variants as Genomic Drivers of Human Disease.mp4
When I graduated, this would have been beyond sci-fi! I don't think we even knew that the genome _had_ a 3D structure that correlated with expression and cell type. So this is really amazing stuff.
Agree, absolutely incredible work being done nowadays in this space, and it feels like we are just at the tip of the iceberg. And the BRAIN Initiative's work is so foundational. Excited to see the discoveries that will be made over the next few years.
Hi! I am a current UC Berkeley undergraduate student who is interested in doing plant computational biology research. I am now having trouble with the coding process of generating Hi-C data graph. Could you please share a video that briefly covers the coding aspect of Hi-C analysis and data representation? That will be much appreciated!
Hello, we just published a genome assembly bioinformatics video that you might find interesting, enjoy! th-cam.com/video/MDpkF5ixQ8I/w-d-xo.html
For my samples, we can only run once for low input (patient), if shallow sequencing doesn't give enough long range and have high pcr duplication results. There is no ways to save samples right?
It was great! I'm very interested in looking at code
Great presentation!!!
Fantastic presentation!!!
Wonderful presentation, very informative and helpful.
Very elaborate explanation of the data analysis pipeline in a very soothing voice, I don't feel it's a task to watch, but also an enjoyment. This is the best video I found so far on HiC data.
watch in x1.5
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