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fixed ChIP seq description #48

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4 changes: 2 additions & 2 deletions docs/03-next-generation-sequencing/03-types-of-sequencing.md
Original file line number Diff line number Diff line change
Expand Up @@ -6,7 +6,7 @@ track: Next-Generation Sequencing
Sequencing is a laboratory technique that identifies and determines the order of
bases in a DNA molecule. Each sequencing type is best analyzed by a different
computational method and is interpreted in a different way. The scientific goals
of the research, cost and practical limits determine which types of sequencing
of the research, cost, and practical limits determine which types of sequencing
are chosen. For example, clinical sequencing seeks the time-sensitive detection
of known mutations, while population studies focus on the discovery of new
variants. Often, the type of sequencing ordered is a trade-off between cost and
Expand All @@ -21,7 +21,7 @@ deciding which pieces of the genome/exome/transcriptome needs sequencing.
| Whole Exome Sequencing | WES, WXS | Characterizes the exonic, or coding, regions of the genome reading sequences from DNA |
| Transcriptome Sequencing | WTS, RNA-seq | Characterizes the exonic regions that are actively expressed in the cell reading sequences from RNA |
| Targeted Sequencing | Validation Capture, Valcap | Characterizes a chosen region from DNA, can be a coding or non-coding region. The region can be coding or non-coding and is typically focused, high-depth sequencing for validating variants |
| ChIP seq | ChIP-seq | Characterizes any sequence the genomic locations where a protein interacts with DNA, both coding and non-coding |
| ChIP seq | ChIP-seq | Characterizes the genomic locations where a protein interacts with DNA, both coding and non-coding |
| ATAC sequencing | ATAC-seq | Characterizes any sequence where DNA does not interact with proteins or is "open", both coding and non-coding |
| Hi-C | Hi-C | Characterizes the genomic locations where chromosomes come in close contact with each other. Typically used in characterizing 3D interactions of DNA |
| Single Cell Sequencing | scDNA-seq, scRNA-seq | DNA or RNA sequencing of individual cells, captures granularity at an individual cell level rather than a mixture of cells, can be coding or non-coding with lower coverage |
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2 changes: 1 addition & 1 deletion docs/06-advanced-topics/alternative-splicing.md
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Expand Up @@ -5,4 +5,4 @@ track: Advanced Topics

## Alternative Splicing

Living cells, like programmers, increase their efficiency through repurposing code. Just as a programmer rearranges functional modules to create different outcomes, RNA transcripts can be rearranged to create different proteins. For RNA, exons are similar to program modules in that they often correspond to functional parts of proteins. Thus, in rearranging the exons, mRNA rearranges the functions of the protein product. In practical terms, this means that when raw RNA transcripts are spliced into more than one type of mRNA, they produce more than one functional protein product. This process is known as alternative splicing. Alternative transcripts may differ at the beginning or end of transcripts, or change which exons are used to create the final product. While alternatively spliced mRNAs appear in healthy cells, sequence variations that disrupt normal splicing are common in diseases like cancer.
Living cells, like programmers, increase their efficiency through repurposing code. Just as a programmer rearranges functional modules to create different outcomes, RNA transcripts can be rearranged, skipped, or both to create different proteins. For RNA, exons are similar to program modules in that they often correspond to functional parts of proteins. Thus, in rearranging the exons, mRNA rearranges the functions of the protein product. In practical terms, this means that when raw RNA transcripts are spliced into more than one type of mRNA, they produce more than one functional protein product. This process is known as alternative splicing. Alternative transcripts may differ at the beginning or end of transcripts, or change which exons are used to create the final product. While alternatively spliced mRNAs appear in healthy cells, sequence variations that disrupt normal splicing are common in diseases like cancer.