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Related Concept Videos

Genomics02:02

Genomics

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Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
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RNA-seq03:21

RNA-seq

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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...
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Next-generation Sequencing03:00

Next-generation Sequencing

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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
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Sanger Sequencing01:57

Sanger Sequencing

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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...
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Maxam-Gilbert Sequencing01:05

Maxam-Gilbert Sequencing

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In the same year as the discovery of the Sanger sequencing method, another group of scientists, Allan Maxam and Walter Gilbert, demonstrated their chemical-cleavage method for DNA sequencing. The Maxam-Gilbert method relies on using different chemicals that can cleave the DNA sequence at specific sites, the separation of resulting DNA fragments of variable size using electrophoresis, and deciphering the DNA sequence from the resulting gel bands.
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The...
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Cis-regulatory Sequences02:02

Cis-regulatory Sequences

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Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
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An Ultrahigh-throughput Microfluidic Platform for Single-cell Genome Sequencing
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Key Considerations on CITE-Seq for Single-Cell Multiomics.

Hye-Wong Song1, Jody Martin1, Xiaoshan Shi2

  • 1Single-Cell Multiomics Team, BD Biosciences, San Diego, California, USA.

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|February 10, 2025
PubMed
Summary
This summary is machine-generated.

Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-Seq) enables simultaneous gene and protein profiling in single cells. This review details the CITE-Seq workflow for multiomic analysis, offering practical guidance.

Keywords:
antibody‐derived tagscellular indexing of transcriptomes and epitopes by sequencinglibrary preparationnext‐generation sequencingproteogenomics

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Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues
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Area of Science:

  • Single-cell multiomics
  • Biotechnology
  • Genomics and Proteomics

Background:

  • Simultaneous gene and protein profiling is crucial for understanding cellular mechanisms.
  • Current methods often analyze transcriptomes and proteomes separately.
  • Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-Seq) offers a unified approach.

Purpose of the Study:

  • To provide a comprehensive review of the CITE-Seq workflow.
  • To highlight key considerations for implementing CITE-Seq.
  • To serve as a practical guide for researchers.

Main Methods:

  • Focuses on a microwell-based single-cell analysis system as an example.
  • Details antibody-derived tag (ADT) staining protocols.
  • Covers library preparation, sequencing, and data analysis steps.

Main Results:

  • Demonstrates the feasibility of profiling both transcriptome and proteome from individual cells.
  • Identifies critical parameters for successful CITE-Seq implementation.
  • Provides insights into optimizing the CITE-Seq workflow.

Conclusions:

  • CITE-Seq is a powerful multiomic approach for biological discovery.
  • This review offers practical guidance for researchers to perform CITE-Seq.
  • Optimized CITE-Seq workflows enhance the understanding of complex biological processes.