base calling

USAGE SUMMARY

The phrase "base calling" is correct and usable in written English.
It can be used in contexts related to genetics or bioinformatics, specifically when referring to the process of determining the nucleotide sequence from raw data. Example: "The next step in our analysis is base calling, which will help us identify the genetic variations present in the sample."

✓ Grammatically correct

Science

Human-verified examples from authoritative sources

Exact Expressions

55 human-written examples

The sequences generated by the sequencer were visualized using Chromaslite for base calling.

Bioresources and Bioprocessing

Phred software [ 16] was used for base calling.

BMC Genomics

Base calling and barcode parsing were also conducted at HAIB.

BMC Genomics

Raw reads from the image data output from the sequencing machine were generated by base calling.

BMC Genomics

The basic figures from sequencing were converted into sequence data by base calling.

BMC Genomics

SNPs were detected by visual examination of the sequence trace files for overlapping base calling peaks.

G3: Genes, Genomes, Genetics

Human-verified similar examples from authoritative sources

Similar Expressions

5 human-written examples

for base-calling, using the default parameters.

Genome Medicine

This step includes image analysis and base-calling.

Briefings in Bioinformatics

Base-calling was performed using the Genome Analyzer Pipeline.

DNA Research

The data were processed using the Illumina base-calling pipeline.

BMC Genomics

Base-calling was performed using Illumina's RTA version 1.12.4.2.

BioMed Research International

Expert writing Tips

Best practice

When describing your NGS (Next Generation Sequencing) workflow, explicitly mention "base calling" as a critical initial step to ensure clarity and reproducibility.

Common error

Avoid using "base calling" interchangeably with terms like "sequence alignment" or "variant calling". "Base calling" is the process of converting raw signals into nucleotide sequences, while subsequent steps involve aligning these sequences and identifying variants.

Linguistic Context

The primary grammatical function of "base calling" is that of a noun phrase often used as a gerund (e.g., "performing base calling"). As Ludwig AI explains, it refers to the process of converting raw data from sequencing into nucleotide sequences.

Expression frequency: Very common

Frequent in

Science

100%

Less common in

News & Media

0%

Formal & Business

0%

Social Media

0%

Ludwig's WRAP-UP

In summary, "base calling" is a fundamental and very common term in genomics, representing the crucial initial step of translating raw sequencing data into readable nucleotide sequences. As Ludwig AI confirms, the phrase is grammatically correct and predominantly used within scientific contexts. Common software tools include Phred and Illumina Pipeline, and accuracy in "base calling" is paramount to avoid errors in downstream analyses such as sequence alignment and variant detection. When writing about NGS workflows, be precise in using "base calling" to describe the initial data processing step, avoiding confusion with subsequent analytical procedures.

More alternative expressions

Phrases that express similar concepts, ordered by semantic similarity:

nucleotide calling

Replaces "base" with "nucleotide", specifying the type of molecular component being identified.

sequence determination

Focuses on the action of determining the sequence, rather than identifying individual bases.

read processing

Refers to the broader task of handling sequence reads, which includes base calling as one step.

data interpretation

Emphasizes the interpretation of sequencing data, which relies on accurate base calling.

genomic sequencing analysis

Wider context of analysing sequences in a genomic context, whereas "base calling" is a step in it.

DNA sequencing

More general term for obtaining the order of nucleotide bases, "base calling" is a step in it.

image analysis

Focuses on the initial step of processing the raw output from sequencing machines.

signal processing

Emphasis on digital signal proccesing of the image as a first step of the process.

barcode parsing

Related to assigning reads to samples in multiplexed sequencing.

variant detection

Emphasizes identifying sequence variations after the bases are called.

FAQs

How is "base calling" used in genomics research?

"Base calling" is a fundamental step in genomics research, where raw data from DNA sequencers is converted into readable nucleotide sequences. These sequences are then used for various analyses, such as identifying genes, mutations, and evolutionary relationships.

What software is commonly used for "base calling"?

Common software tools for "base calling" include Phred, Illumina Pipeline, and CASAVA. The choice of software often depends on the sequencing platform used and the specific requirements of the analysis.

Why is accurate "base calling" important?

Accurate "base calling" is crucial because errors in this step can propagate through downstream analyses, leading to incorrect conclusions about gene sequences, mutations, and other genomic features. This is why stringent quality control measures are applied during "base calling".

How does "base calling" relate to sequence alignment?

"Base calling" generates the initial nucleotide sequences from raw data, while sequence alignment involves comparing these sequences to a reference genome or other sequences to identify similarities and differences. Sequence alignment relies on the accuracy of the "base calling" step.