Melody discrimination and protein fold classification

Bywater, Robert P.; Middleton, Jonathan

doi:10.1016/j.heliyon.2016.e00175

Cited by 22 publications

(21 citation statements)

References 23 publications

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“…The NMR chemical shifts are transposed to the audible spectrum following the musical concept (Figs 11 &12). 13 C NMR chemical shifts have been calculated for seven groups of amino acid's sequences based on insulin structure [figs [2][3][4][5][6][7][8]. Generally, 13 C NMR peaks might be occupied higher frequencies than 1 H NMR.…”

Section: Resultsmentioning

confidence: 99%

“…Converting molecular properties to sound is important for science information, therefore in the Sonification, sounds are produced from chemical properties in the bio molecular systems with the goal of facilitating data interpretation [1,2]. Sonification methods were used to DNA generating, to amino acids sequences, and to protein folding [3]. In all subjects, the mechanism of conversion has been done based on molecular properties through a suitable algorithm related to invisible phenomena with a visual inspection.…”

Section: Introductionmentioning

confidence: 99%

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13C-NMR sonification of human insulin: a method for conversion of amino-acid sequences to music notes

2019

Biointerface Res Appl Chem

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The concept of molecular sonification comprises total steps of methods that convert the physical data derived from chemical systems into acousmatic music. NMR data of the 13C are especially well suited data sources for Insulin sonification. Even though their resonant frequencies are typically in the MHz region, the resonant frequencies span around kHz. The human insulin is consisting of 51 amino acids which can be divided into 7 series of amino acids for seven octaves of notes. During NMR calculation with ab-initio methods, these signals are routinely mixed down into the audible frequencies ranges, rendering the need for any additional frequencies transpositions unnecessary. By this work, insulin protein sequences into musical notes to reveal auditory algorithms have been converted. Calculation and optimization of 20 amino acids have been done and the total frequencies of each amino acid have been converted to 20 music notes and distinguishing those using variations of chemical shifts including pitch, time duration length of notes and even rhythm have been accomplished.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

13C-NMR sonification of human insulin: a method for conversion of amino-acid sequences to music notes

2019

Biointerface Res Appl Chem

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“…A systematic review of over 150 soni cation project highlighted the importance of pitch and spatial auditory dimensions in the auditory display [11]. Within the domain of molecular biology the properties of amino acid residue [12] and protein folding [13] have soni ed by a combination of musical talents and sound effects. More recently researchers have generated musical scores representing amino acid sequences of protein structures and note sequences from short amino acid sequences [14].…”

Section: Introductionmentioning

confidence: 99%

Real-time audio and visual display of the Coronavirus genome

Temple

2020

Preprint

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Background:This paper describes a web based tool that uses a combination of sonification and an animated display to inquire into the SARS-CoV-2 genome. The audio data is generated in real time from a variety of RNA motifs that are known to be important in the function of RNA. Additionally metadata relating to RNA translation and transcription has been used to shape the auditory and visual displays. Together these tools provide a unique approach to further understand the metabolism of the viral RNA genome. This audio provides a further means to represent the function of the RNA in addition to traditional written and visual approaches.Results:Sonification of the SARS-CoV-2 genomic RNA sequence results in a complex auditory stream composed of up to 12 individual audio tracks. Each auditory motive is derived from the actual RNA sequence or from metadata. This approach has been used to represent transcription or translation of the viral RNA genome. The display highlights the real-time interaction of functional RNA elements. The sonification of codons derived from all three reading frames of the viral RNA sequence in combination with literature derived metadata provide the framework for this display. Functional RNA motifs such as transcription regulatory sequences and stem loop regions have also been sonified. Using the tool, audio can be generated in real-time from either genomic or sub-genomic representations of the RNA. Given the large size of the viral genome, a collection of interactive buttons have been provided to navigate to regions of interest, such as cleavage regions in the polyprotein, untranslated regions or each gene. These tools are available through an internet browser and the user can interact with the data display in real time. Conclusion:The auditory display in combination with real-time animation of the process of translation and transcription provide a unique insight into the large body of evidence describing the metabolism of the RNA genome. Furthermore the tool has been used as an algorithmic based audio generator. These audio tracks can be listened to by the general community without reference to the visual display to encourage further inquiry into the concept.

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“…Some of them are listed in the refs. . One of the aims of these manuscripts was to attract the attention of young students and make them enjoy biochemical education.…”

Section: Introductionmentioning

confidence: 99%

Music notes to amino acid sequence: A STEAM approach to study protein structure

Açan

2019

Biochem Molecular Bio Educ

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Recently, manuscripts that use bioinformatics tools to convert proteins and other biological materials into music have appeared in several journals. The authors claim that this type of studies adds joy to education of life sciences and attract public attention to biochemistry education along with other uses. We thought the reverse of the process might also be possible for the purpose. We converted notes into amino acids depending on the decreasing hydrophobicity and by using the famous nursery song “Twinkle, Twinkle, Little Star” notes, a hypothetical protein sequence was obtained. Three‐dimensional structures were modeled by I‐Tasser Protein Structure and Function Prediction server and the structure of the possible models were investigated. This Science, Technology, Engineering, Arts and Math (STEAM) approach may bring fun to protein structure education. © 2019 International Union of Biochemistry and Molecular Biology, 47(6):669–671, 2019.

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Melody discrimination and protein fold classification

Cited by 22 publications

References 23 publications

13C-NMR sonification of human insulin: a method for conversion of amino-acid sequences to music notes

13C-NMR sonification of human insulin: a method for conversion of amino-acid sequences to music notes

Real-time audio and visual display of the Coronavirus genome

Music notes to amino acid sequence: A STEAM approach to study protein structure

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