SlideShare a Scribd company logo
A highly compressed file format for
Time of Flight and Orbitrap DIA-MS
David Clarke, Akila Seneviratne, Brett Tully
@brett_tully
2,000 injections per month
20 TB of mzML per month!
mzML Format
1 GB vendor file  10 GB open XML file
70,000 samples ~ 150,000 files
1,500 TB
petabytes of data
$30,000 /month
On-going storage cost in Amazon S3
Toffee Data Format
1 GB vendor file  1 GB toffee file
70,000 samples ~ 150,000 files
150 TB
terabytes of data
$3,000 /month
On-going storage cost in Amazon S3
@brett_tully
@brett_tully
In a given spectrum,
the spacing of mass over charge
is proportional to 𝑚
𝑧
@brett_tully
Work done by electric field: 𝑊𝑈 = 𝑧𝑈
Change in kinetic energy: Δ𝐸 𝑘 =
1
2
𝑚𝑣2
= 𝑊 𝑈
Re-arrange to give time of arrival at detector
𝑡 =
𝑑
2𝑈
𝑚
𝑧
@brett_tully
√ 𝑚
𝑧
𝑚
𝑧 Δ√ 𝑚
𝑧
Similar to ResearchGate PDF from
Veritomyx (Schneider 2016)
@brett_tully
Raw profile data described by triplets:
retention time, mass over charge, intensity
As integers, these can be stored as a
Compressed Sparse Row matrix
in an HDF5 file
@brett_tully
mzML
~10x vendor
toffee
<1x vendor
@brett_tully
Retention time: lossless
Intensity: lossless
Mass over charge:
<4 ppm MS1 mass error
<6 ppm MS2 mass error
@brett_tully
C++ engine / Python library / Docker
https://bitbucket.org/cmriprocan/toffee
HDF5  window by window random access
RTree  efficient spatial searching
@brett_tully
Load a toffee file
Load an MS2 window
@brett_tully
@brett_tully
@brett_tully
@brett_tully
@brett_tully
Standard XICs
Image-based XICs
@brett_tully
Open, efficient – same size as vendor files
Near lossless m/z transfer function
Presents new opportunities for using raw DIA data
Better testing, image-based analysis
Acknowledgements
Co-Directors: Prof. Roger Reddel & Prof. Phil Robinson
Pathology: Prof. Rosemary Balleine & team
Proteomics: Dr Peter Hains & team
Software Engineering: Dr Brett Tully & team
Data Science: Dr Qing Zhong & team
@brett_tully
Transfer function to describe 𝑚
𝑧 in integer space
𝑚𝑖
𝑧𝑖
= 𝛼[𝑖𝐼𝑀𝑆+𝛾] + 𝛽 2
@brett_tully
@brett_tully
@brett_tully

More Related Content

Recently uploaded

Criminal IP - Threat Hunting Webinar.pdf
Criminal IP - Threat Hunting Webinar.pdfCriminal IP - Threat Hunting Webinar.pdf
Criminal IP - Threat Hunting Webinar.pdf
Criminal IP
 
一比一原版(IIT毕业证)伊利诺伊理工大学毕业证成绩单
一比一原版(IIT毕业证)伊利诺伊理工大学毕业证成绩单一比一原版(IIT毕业证)伊利诺伊理工大学毕业证成绩单
一比一原版(IIT毕业证)伊利诺伊理工大学毕业证成绩单
ewymefz
 
06-04-2024 - NYC Tech Week - Discussion on Vector Databases, Unstructured Dat...
06-04-2024 - NYC Tech Week - Discussion on Vector Databases, Unstructured Dat...06-04-2024 - NYC Tech Week - Discussion on Vector Databases, Unstructured Dat...
06-04-2024 - NYC Tech Week - Discussion on Vector Databases, Unstructured Dat...
Timothy Spann
 
Influence of Marketing Strategy and Market Competition on Business Plan
Influence of Marketing Strategy and Market Competition on Business PlanInfluence of Marketing Strategy and Market Competition on Business Plan
Influence of Marketing Strategy and Market Competition on Business Plan
jerlynmaetalle
 
一比一原版(BCU毕业证书)伯明翰城市大学毕业证如何办理
一比一原版(BCU毕业证书)伯明翰城市大学毕业证如何办理一比一原版(BCU毕业证书)伯明翰城市大学毕业证如何办理
一比一原版(BCU毕业证书)伯明翰城市大学毕业证如何办理
dwreak4tg
 
Malana- Gimlet Market Analysis (Portfolio 2)
Malana- Gimlet Market Analysis (Portfolio 2)Malana- Gimlet Market Analysis (Portfolio 2)
Malana- Gimlet Market Analysis (Portfolio 2)
TravisMalana
 
一比一原版(UIUC毕业证)伊利诺伊大学|厄巴纳-香槟分校毕业证如何办理
一比一原版(UIUC毕业证)伊利诺伊大学|厄巴纳-香槟分校毕业证如何办理一比一原版(UIUC毕业证)伊利诺伊大学|厄巴纳-香槟分校毕业证如何办理
一比一原版(UIUC毕业证)伊利诺伊大学|厄巴纳-香槟分校毕业证如何办理
ahzuo
 
一比一原版(Adelaide毕业证书)阿德莱德大学毕业证如何办理
一比一原版(Adelaide毕业证书)阿德莱德大学毕业证如何办理一比一原版(Adelaide毕业证书)阿德莱德大学毕业证如何办理
一比一原版(Adelaide毕业证书)阿德莱德大学毕业证如何办理
slg6lamcq
 
一比一原版(NYU毕业证)纽约大学毕业证成绩单
一比一原版(NYU毕业证)纽约大学毕业证成绩单一比一原版(NYU毕业证)纽约大学毕业证成绩单
一比一原版(NYU毕业证)纽约大学毕业证成绩单
ewymefz
 
Quantitative Data AnalysisReliability Analysis (Cronbach Alpha) Common Method...
Quantitative Data AnalysisReliability Analysis (Cronbach Alpha) Common Method...Quantitative Data AnalysisReliability Analysis (Cronbach Alpha) Common Method...
Quantitative Data AnalysisReliability Analysis (Cronbach Alpha) Common Method...
2023240532
 
Predicting Product Ad Campaign Performance: A Data Analysis Project Presentation
Predicting Product Ad Campaign Performance: A Data Analysis Project PresentationPredicting Product Ad Campaign Performance: A Data Analysis Project Presentation
Predicting Product Ad Campaign Performance: A Data Analysis Project Presentation
Boston Institute of Analytics
 
一比一原版(ArtEZ毕业证)ArtEZ艺术学院毕业证成绩单
一比一原版(ArtEZ毕业证)ArtEZ艺术学院毕业证成绩单一比一原版(ArtEZ毕业证)ArtEZ艺术学院毕业证成绩单
一比一原版(ArtEZ毕业证)ArtEZ艺术学院毕业证成绩单
vcaxypu
 
一比一原版(Bradford毕业证书)布拉德福德大学毕业证如何办理
一比一原版(Bradford毕业证书)布拉德福德大学毕业证如何办理一比一原版(Bradford毕业证书)布拉德福德大学毕业证如何办理
一比一原版(Bradford毕业证书)布拉德福德大学毕业证如何办理
mbawufebxi
 
Q1’2024 Update: MYCI’s Leap Year Rebound
Q1’2024 Update: MYCI’s Leap Year ReboundQ1’2024 Update: MYCI’s Leap Year Rebound
Q1’2024 Update: MYCI’s Leap Year Rebound
Oppotus
 
Levelwise PageRank with Loop-Based Dead End Handling Strategy : SHORT REPORT ...
Levelwise PageRank with Loop-Based Dead End Handling Strategy : SHORT REPORT ...Levelwise PageRank with Loop-Based Dead End Handling Strategy : SHORT REPORT ...
Levelwise PageRank with Loop-Based Dead End Handling Strategy : SHORT REPORT ...
Subhajit Sahu
 
一比一原版(CBU毕业证)卡普顿大学毕业证成绩单
一比一原版(CBU毕业证)卡普顿大学毕业证成绩单一比一原版(CBU毕业证)卡普顿大学毕业证成绩单
一比一原版(CBU毕业证)卡普顿大学毕业证成绩单
nscud
 
一比一原版(UofM毕业证)明尼苏达大学毕业证成绩单
一比一原版(UofM毕业证)明尼苏达大学毕业证成绩单一比一原版(UofM毕业证)明尼苏达大学毕业证成绩单
一比一原版(UofM毕业证)明尼苏达大学毕业证成绩单
ewymefz
 
一比一原版(QU毕业证)皇后大学毕业证成绩单
一比一原版(QU毕业证)皇后大学毕业证成绩单一比一原版(QU毕业证)皇后大学毕业证成绩单
一比一原版(QU毕业证)皇后大学毕业证成绩单
enxupq
 
The affect of service quality and online reviews on customer loyalty in the E...
The affect of service quality and online reviews on customer loyalty in the E...The affect of service quality and online reviews on customer loyalty in the E...
The affect of service quality and online reviews on customer loyalty in the E...
jerlynmaetalle
 
原版制作(Deakin毕业证书)迪肯大学毕业证学位证一模一样
原版制作(Deakin毕业证书)迪肯大学毕业证学位证一模一样原版制作(Deakin毕业证书)迪肯大学毕业证学位证一模一样
原版制作(Deakin毕业证书)迪肯大学毕业证学位证一模一样
u86oixdj
 

Recently uploaded (20)

Criminal IP - Threat Hunting Webinar.pdf
Criminal IP - Threat Hunting Webinar.pdfCriminal IP - Threat Hunting Webinar.pdf
Criminal IP - Threat Hunting Webinar.pdf
 
一比一原版(IIT毕业证)伊利诺伊理工大学毕业证成绩单
一比一原版(IIT毕业证)伊利诺伊理工大学毕业证成绩单一比一原版(IIT毕业证)伊利诺伊理工大学毕业证成绩单
一比一原版(IIT毕业证)伊利诺伊理工大学毕业证成绩单
 
06-04-2024 - NYC Tech Week - Discussion on Vector Databases, Unstructured Dat...
06-04-2024 - NYC Tech Week - Discussion on Vector Databases, Unstructured Dat...06-04-2024 - NYC Tech Week - Discussion on Vector Databases, Unstructured Dat...
06-04-2024 - NYC Tech Week - Discussion on Vector Databases, Unstructured Dat...
 
Influence of Marketing Strategy and Market Competition on Business Plan
Influence of Marketing Strategy and Market Competition on Business PlanInfluence of Marketing Strategy and Market Competition on Business Plan
Influence of Marketing Strategy and Market Competition on Business Plan
 
一比一原版(BCU毕业证书)伯明翰城市大学毕业证如何办理
一比一原版(BCU毕业证书)伯明翰城市大学毕业证如何办理一比一原版(BCU毕业证书)伯明翰城市大学毕业证如何办理
一比一原版(BCU毕业证书)伯明翰城市大学毕业证如何办理
 
Malana- Gimlet Market Analysis (Portfolio 2)
Malana- Gimlet Market Analysis (Portfolio 2)Malana- Gimlet Market Analysis (Portfolio 2)
Malana- Gimlet Market Analysis (Portfolio 2)
 
一比一原版(UIUC毕业证)伊利诺伊大学|厄巴纳-香槟分校毕业证如何办理
一比一原版(UIUC毕业证)伊利诺伊大学|厄巴纳-香槟分校毕业证如何办理一比一原版(UIUC毕业证)伊利诺伊大学|厄巴纳-香槟分校毕业证如何办理
一比一原版(UIUC毕业证)伊利诺伊大学|厄巴纳-香槟分校毕业证如何办理
 
一比一原版(Adelaide毕业证书)阿德莱德大学毕业证如何办理
一比一原版(Adelaide毕业证书)阿德莱德大学毕业证如何办理一比一原版(Adelaide毕业证书)阿德莱德大学毕业证如何办理
一比一原版(Adelaide毕业证书)阿德莱德大学毕业证如何办理
 
一比一原版(NYU毕业证)纽约大学毕业证成绩单
一比一原版(NYU毕业证)纽约大学毕业证成绩单一比一原版(NYU毕业证)纽约大学毕业证成绩单
一比一原版(NYU毕业证)纽约大学毕业证成绩单
 
Quantitative Data AnalysisReliability Analysis (Cronbach Alpha) Common Method...
Quantitative Data AnalysisReliability Analysis (Cronbach Alpha) Common Method...Quantitative Data AnalysisReliability Analysis (Cronbach Alpha) Common Method...
Quantitative Data AnalysisReliability Analysis (Cronbach Alpha) Common Method...
 
Predicting Product Ad Campaign Performance: A Data Analysis Project Presentation
Predicting Product Ad Campaign Performance: A Data Analysis Project PresentationPredicting Product Ad Campaign Performance: A Data Analysis Project Presentation
Predicting Product Ad Campaign Performance: A Data Analysis Project Presentation
 
一比一原版(ArtEZ毕业证)ArtEZ艺术学院毕业证成绩单
一比一原版(ArtEZ毕业证)ArtEZ艺术学院毕业证成绩单一比一原版(ArtEZ毕业证)ArtEZ艺术学院毕业证成绩单
一比一原版(ArtEZ毕业证)ArtEZ艺术学院毕业证成绩单
 
一比一原版(Bradford毕业证书)布拉德福德大学毕业证如何办理
一比一原版(Bradford毕业证书)布拉德福德大学毕业证如何办理一比一原版(Bradford毕业证书)布拉德福德大学毕业证如何办理
一比一原版(Bradford毕业证书)布拉德福德大学毕业证如何办理
 
Q1’2024 Update: MYCI’s Leap Year Rebound
Q1’2024 Update: MYCI’s Leap Year ReboundQ1’2024 Update: MYCI’s Leap Year Rebound
Q1’2024 Update: MYCI’s Leap Year Rebound
 
Levelwise PageRank with Loop-Based Dead End Handling Strategy : SHORT REPORT ...
Levelwise PageRank with Loop-Based Dead End Handling Strategy : SHORT REPORT ...Levelwise PageRank with Loop-Based Dead End Handling Strategy : SHORT REPORT ...
Levelwise PageRank with Loop-Based Dead End Handling Strategy : SHORT REPORT ...
 
一比一原版(CBU毕业证)卡普顿大学毕业证成绩单
一比一原版(CBU毕业证)卡普顿大学毕业证成绩单一比一原版(CBU毕业证)卡普顿大学毕业证成绩单
一比一原版(CBU毕业证)卡普顿大学毕业证成绩单
 
一比一原版(UofM毕业证)明尼苏达大学毕业证成绩单
一比一原版(UofM毕业证)明尼苏达大学毕业证成绩单一比一原版(UofM毕业证)明尼苏达大学毕业证成绩单
一比一原版(UofM毕业证)明尼苏达大学毕业证成绩单
 
一比一原版(QU毕业证)皇后大学毕业证成绩单
一比一原版(QU毕业证)皇后大学毕业证成绩单一比一原版(QU毕业证)皇后大学毕业证成绩单
一比一原版(QU毕业证)皇后大学毕业证成绩单
 
The affect of service quality and online reviews on customer loyalty in the E...
The affect of service quality and online reviews on customer loyalty in the E...The affect of service quality and online reviews on customer loyalty in the E...
The affect of service quality and online reviews on customer loyalty in the E...
 
原版制作(Deakin毕业证书)迪肯大学毕业证学位证一模一样
原版制作(Deakin毕业证书)迪肯大学毕业证学位证一模一样原版制作(Deakin毕业证书)迪肯大学毕业证学位证一模一样
原版制作(Deakin毕业证书)迪肯大学毕业证学位证一模一样
 

Featured

2024 State of Marketing Report – by Hubspot
2024 State of Marketing Report – by Hubspot2024 State of Marketing Report – by Hubspot
2024 State of Marketing Report – by Hubspot
Marius Sescu
 
Everything You Need To Know About ChatGPT
Everything You Need To Know About ChatGPTEverything You Need To Know About ChatGPT
Everything You Need To Know About ChatGPT
Expeed Software
 
Product Design Trends in 2024 | Teenage Engineerings
Product Design Trends in 2024 | Teenage EngineeringsProduct Design Trends in 2024 | Teenage Engineerings
Product Design Trends in 2024 | Teenage Engineerings
Pixeldarts
 
How Race, Age and Gender Shape Attitudes Towards Mental Health
How Race, Age and Gender Shape Attitudes Towards Mental HealthHow Race, Age and Gender Shape Attitudes Towards Mental Health
How Race, Age and Gender Shape Attitudes Towards Mental Health
ThinkNow
 
AI Trends in Creative Operations 2024 by Artwork Flow.pdf
AI Trends in Creative Operations 2024 by Artwork Flow.pdfAI Trends in Creative Operations 2024 by Artwork Flow.pdf
AI Trends in Creative Operations 2024 by Artwork Flow.pdf
marketingartwork
 
Skeleton Culture Code
Skeleton Culture CodeSkeleton Culture Code
Skeleton Culture Code
Skeleton Technologies
 
PEPSICO Presentation to CAGNY Conference Feb 2024
PEPSICO Presentation to CAGNY Conference Feb 2024PEPSICO Presentation to CAGNY Conference Feb 2024
PEPSICO Presentation to CAGNY Conference Feb 2024
Neil Kimberley
 
Content Methodology: A Best Practices Report (Webinar)
Content Methodology: A Best Practices Report (Webinar)Content Methodology: A Best Practices Report (Webinar)
Content Methodology: A Best Practices Report (Webinar)
contently
 
How to Prepare For a Successful Job Search for 2024
How to Prepare For a Successful Job Search for 2024How to Prepare For a Successful Job Search for 2024
How to Prepare For a Successful Job Search for 2024
Albert Qian
 
Social Media Marketing Trends 2024 // The Global Indie Insights
Social Media Marketing Trends 2024 // The Global Indie InsightsSocial Media Marketing Trends 2024 // The Global Indie Insights
Social Media Marketing Trends 2024 // The Global Indie Insights
Kurio // The Social Media Age(ncy)
 
Trends In Paid Search: Navigating The Digital Landscape In 2024
Trends In Paid Search: Navigating The Digital Landscape In 2024Trends In Paid Search: Navigating The Digital Landscape In 2024
Trends In Paid Search: Navigating The Digital Landscape In 2024
Search Engine Journal
 
5 Public speaking tips from TED - Visualized summary
5 Public speaking tips from TED - Visualized summary5 Public speaking tips from TED - Visualized summary
5 Public speaking tips from TED - Visualized summary
SpeakerHub
 
ChatGPT and the Future of Work - Clark Boyd
ChatGPT and the Future of Work - Clark Boyd ChatGPT and the Future of Work - Clark Boyd
ChatGPT and the Future of Work - Clark Boyd
Clark Boyd
 
Getting into the tech field. what next
Getting into the tech field. what next Getting into the tech field. what next
Getting into the tech field. what next
Tessa Mero
 
Google's Just Not That Into You: Understanding Core Updates & Search Intent
Google's Just Not That Into You: Understanding Core Updates & Search IntentGoogle's Just Not That Into You: Understanding Core Updates & Search Intent
Google's Just Not That Into You: Understanding Core Updates & Search Intent
Lily Ray
 
How to have difficult conversations
How to have difficult conversations How to have difficult conversations
How to have difficult conversations
Rajiv Jayarajah, MAppComm, ACC
 
Introduction to Data Science
Introduction to Data ScienceIntroduction to Data Science
Introduction to Data Science
Christy Abraham Joy
 
Time Management & Productivity - Best Practices
Time Management & Productivity -  Best PracticesTime Management & Productivity -  Best Practices
Time Management & Productivity - Best Practices
Vit Horky
 
The six step guide to practical project management
The six step guide to practical project managementThe six step guide to practical project management
The six step guide to practical project management
MindGenius
 
Beginners Guide to TikTok for Search - Rachel Pearson - We are Tilt __ Bright...
Beginners Guide to TikTok for Search - Rachel Pearson - We are Tilt __ Bright...Beginners Guide to TikTok for Search - Rachel Pearson - We are Tilt __ Bright...
Beginners Guide to TikTok for Search - Rachel Pearson - We are Tilt __ Bright...
RachelPearson36
 

Featured (20)

2024 State of Marketing Report – by Hubspot
2024 State of Marketing Report – by Hubspot2024 State of Marketing Report – by Hubspot
2024 State of Marketing Report – by Hubspot
 
Everything You Need To Know About ChatGPT
Everything You Need To Know About ChatGPTEverything You Need To Know About ChatGPT
Everything You Need To Know About ChatGPT
 
Product Design Trends in 2024 | Teenage Engineerings
Product Design Trends in 2024 | Teenage EngineeringsProduct Design Trends in 2024 | Teenage Engineerings
Product Design Trends in 2024 | Teenage Engineerings
 
How Race, Age and Gender Shape Attitudes Towards Mental Health
How Race, Age and Gender Shape Attitudes Towards Mental HealthHow Race, Age and Gender Shape Attitudes Towards Mental Health
How Race, Age and Gender Shape Attitudes Towards Mental Health
 
AI Trends in Creative Operations 2024 by Artwork Flow.pdf
AI Trends in Creative Operations 2024 by Artwork Flow.pdfAI Trends in Creative Operations 2024 by Artwork Flow.pdf
AI Trends in Creative Operations 2024 by Artwork Flow.pdf
 
Skeleton Culture Code
Skeleton Culture CodeSkeleton Culture Code
Skeleton Culture Code
 
PEPSICO Presentation to CAGNY Conference Feb 2024
PEPSICO Presentation to CAGNY Conference Feb 2024PEPSICO Presentation to CAGNY Conference Feb 2024
PEPSICO Presentation to CAGNY Conference Feb 2024
 
Content Methodology: A Best Practices Report (Webinar)
Content Methodology: A Best Practices Report (Webinar)Content Methodology: A Best Practices Report (Webinar)
Content Methodology: A Best Practices Report (Webinar)
 
How to Prepare For a Successful Job Search for 2024
How to Prepare For a Successful Job Search for 2024How to Prepare For a Successful Job Search for 2024
How to Prepare For a Successful Job Search for 2024
 
Social Media Marketing Trends 2024 // The Global Indie Insights
Social Media Marketing Trends 2024 // The Global Indie InsightsSocial Media Marketing Trends 2024 // The Global Indie Insights
Social Media Marketing Trends 2024 // The Global Indie Insights
 
Trends In Paid Search: Navigating The Digital Landscape In 2024
Trends In Paid Search: Navigating The Digital Landscape In 2024Trends In Paid Search: Navigating The Digital Landscape In 2024
Trends In Paid Search: Navigating The Digital Landscape In 2024
 
5 Public speaking tips from TED - Visualized summary
5 Public speaking tips from TED - Visualized summary5 Public speaking tips from TED - Visualized summary
5 Public speaking tips from TED - Visualized summary
 
ChatGPT and the Future of Work - Clark Boyd
ChatGPT and the Future of Work - Clark Boyd ChatGPT and the Future of Work - Clark Boyd
ChatGPT and the Future of Work - Clark Boyd
 
Getting into the tech field. what next
Getting into the tech field. what next Getting into the tech field. what next
Getting into the tech field. what next
 
Google's Just Not That Into You: Understanding Core Updates & Search Intent
Google's Just Not That Into You: Understanding Core Updates & Search IntentGoogle's Just Not That Into You: Understanding Core Updates & Search Intent
Google's Just Not That Into You: Understanding Core Updates & Search Intent
 
How to have difficult conversations
How to have difficult conversations How to have difficult conversations
How to have difficult conversations
 
Introduction to Data Science
Introduction to Data ScienceIntroduction to Data Science
Introduction to Data Science
 
Time Management & Productivity - Best Practices
Time Management & Productivity -  Best PracticesTime Management & Productivity -  Best Practices
Time Management & Productivity - Best Practices
 
The six step guide to practical project management
The six step guide to practical project managementThe six step guide to practical project management
The six step guide to practical project management
 
Beginners Guide to TikTok for Search - Rachel Pearson - We are Tilt __ Bright...
Beginners Guide to TikTok for Search - Rachel Pearson - We are Tilt __ Bright...Beginners Guide to TikTok for Search - Rachel Pearson - We are Tilt __ Bright...
Beginners Guide to TikTok for Search - Rachel Pearson - We are Tilt __ Bright...
 

Toffee: a highly compressed file format for mass spectrometry