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Related Concept Videos

RNA-seq03:21

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
Next-generation Sequencing03:00

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.
Synthetic Biology02:55

Synthetic Biology

Synthetic biology is an interdisciplinary science that involves using principles from disciplines such as engineering, molecular biology, cell biology, and systems biology. It involves remodeling existing organisms from nature or constructing completely new synthetic organisms for applications such as protein or enzyme production, bioremediation, value-added macromolecule production, and the addition of desirable traits to crops, to name a few.
Golden rice
Golden rice is a genetically modified...
Atomic Force Microscopy01:08

Atomic Force Microscopy

Atomic force microscopy (AFM) is a type of scanning probe microscopy that can analyze topographic details of various specimens like ceramics, glass, polymers, and biological samples. AFM offers over 1000 times more resolution than the optical imaging system. Images generated from AFM are three-dimensional surface profiles, offering an advantage over the flat, two-dimensional images from other imaging techniques.
The AFM Probe
The probe is regarded as the heart of any AFM setup and comprises the...
Sanger Sequencing01:57

Sanger Sequencing

DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...
Electron Microscope Tomography and Single-particle Reconstruction01:07

Electron Microscope Tomography and Single-particle Reconstruction

Transmission electron microscopy (TEM) can be used to determine the 3D structure of biological samples with the help of techniques such as electron microscope tomography and single-particle reconstruction. While single-particle reconstruction can examine macromolecules and macromolecular complexes in vitro conditions only, tomography permits the study of cell components or small cells in vivo.
Electron Tomography
Electron tomography can be performed either in TEM or STEM (scanning transmission...

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Related Experiment Video

Updated: Jun 5, 2026

Validating Whole Genome Nanopore Sequencing, using Usutu Virus as an Example
05:45

Validating Whole Genome Nanopore Sequencing, using Usutu Virus as an Example

Published on: March 11, 2020

NanoCortex: A Unified Agentic System for Nanopore Sequencing Analysis.

Qini Xia1, Ziyuan Wang2, Mina Shokoufandeh1

  • 1Department of Bioengineering, Northeastern University, Boston, MA, USA.

Biorxiv : the Preprint Server for Biology
|June 4, 2026
PubMed
Summary
This summary is machine-generated.

NanoCortex offers a unified framework for nanopore sequencing analysis, simplifying complex tasks from basecalling to biological interpretation. This autonomous agentic system enhances usability and integrates diverse data for deeper insights.

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Related Experiment Videos

Last Updated: Jun 5, 2026

Validating Whole Genome Nanopore Sequencing, using Usutu Virus as an Example
05:45

Validating Whole Genome Nanopore Sequencing, using Usutu Virus as an Example

Published on: March 11, 2020

Nanopore DNA Sequencing for Metagenomic Soil Analysis
07:33

Nanopore DNA Sequencing for Metagenomic Soil Analysis

Published on: December 14, 2017

Sequencing of mRNA from Whole Blood using Nanopore Sequencing
11:26

Sequencing of mRNA from Whole Blood using Nanopore Sequencing

Published on: June 3, 2019

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Nanopore sequencing generates rich DNA/RNA data, including isoforms and modifications.
  • Current analysis involves fragmented tools, posing challenges for users.

Purpose of the Study:

  • To introduce NanoCortex, a unified autonomous agentic framework for end-to-end nanopore data analysis.
  • To address the complexity and fragmentation of existing nanopore analysis pipelines.

Main Methods:

  • Utilizes a multi-agent architecture orchestrated by the Gemini Agent Development Kit (ADK).
  • Employs Gemini API services for task parsing, code generation, self-correction, and scientific interpretation.
  • Integrates experimental data with meta-analysis of public biological databases.

Main Results:

  • NanoCortex provides end-to-end processing from raw signal basecalling to biological interpretation.
  • Demonstrates significantly higher usability for complex analytical tasks compared to general-purpose LLMs.
  • Facilitates extraction of biologically meaningful insights without complex computational steps.

Conclusions:

  • NanoCortex offers a streamlined and more usable solution for nanopore sequencing data analysis.
  • The framework enables seamless integration of experimental and public data for advanced biological insights.