Flexibility, Confidence, Efficiency
ALL IN ONE PLATFORM
[ MASSLYNX SOFTWARE ]
2
SAMPLE ANALYSIS IS ALL ABOUT QUESTIONS
Waters® MassLynx® Software is mass spectrometry
software that answers those questions, helping
your entire laboratory further advance. Productivity
increases and training costs are lowered with our
easy-to-use software. Run more samples faster with
intelligent instrument control. Enhance confidence
in your results with dedicated Application Managers
that quantitate, identify, and confirm. Maintain
compliance with integrated security features.
Mass Spectrometry
labs are driven
by results
[ MASSLYNX SOFTWARE ]
3
TAKE CONTROL OF MASS SPECTROMETRY ANALYSES
With today’s flexible instrument configurations, sophisticated data acquisition
capabilities, and detailed data processing requirements for mass spectrometry
(MS) analysis, it is easy to be overwhelmed when adding or replacing legacy
MS instrumentation.
In the laboratory, the challenges of MS and MS/MS analyses are often compounded
by the use of several types of analytical instruments and high personnel turnover.
To maintain – and even increase – laboratory productivity, you can turn to Waters
software to simplify interaction with your MS system and retain the ability to perform
advanced experiments.
MassLynx improves your MS system with its intuitive interface, intelligent instrument
control, and software features built around the focus of your analysis: the sample.
With much of its development driven by input from our extensive user base,
MassLynx has evolved into a powerful software package that reflects the
versatility and flexibility you require.
Balancing simplicity and sophistication, MassLynx makes MS and MS/MS
techniques available to users of any skill level, from technicians to experienced
mass spectrometrists.
INSTRUMENT CONTROL
WITH THE SAMPLE LIST
■
■
Launch inlet and MS
method editors.
■
■
Run step-by-step wizards to
configure and optimize your
instrument system.
■
■
Specify instrument methods
for individual samples or sets
of samples.
■
■
Start, stop, and monitor the
progress of your experiments.
■
■
View the status of system
components, such as the inlet
and mass spectrometer.
MassLynx offers versatile
control of a range of Waters
Mass Spectrometers,
fully integrated with a suite
of ACQUITY® UPLC®
and ACQUITY UPC²®
separations platforms.
4
DATA MANAGEMENT
WITH THE SAMPLE LIST
■
■
Enter or import sample
information in a versatile
spreadsheet-style format.
■
■
Directly access spectra
and chromatograms.
■
■
Initiate automated data
processing and review with
OpenLynx or TargetLynx XS.
■
■
Access advanced application-
specific tools.
SAMPLE CENTRIC SIMPLICITY
Everything about your sample in one place
The challenge facing many laboratory analysts is not the speed of data acquisition,
but the rate at which samples are converted into useful information.
MassLynx starts by giving you complete control of your analytical system within one
interface: you will acquire, process data, and review results more productively than
ever before. By using the individually designed and optimized data processing tools
of MassLynx Application Managers, such as OpenLynx™ for processing batches of
qualitative analyses and TargetLynx™ XS for quantification, samples are seamlessly
converted into meaningful information – without manual data review.
At the core of MassLynx is the Sample List: the single location for initiating all activities
related to your sample. By presenting all the relevant sample information in one window,
MassLynx’s Sample Centric™ approach simplifies your interaction with your MS system
and increases the speed at which you convert samples into valuable knowledge.
The sample centric approach of MassLynx’s Sample
List allows users to easily access instrument
control, queue information, and system status,
while viewing detailed sample information. In this
example, parameters in the Sample List are set for
a quantitative analysis using the TargetLynx XS
Application Manager with ACQUITY UPLC I-Class
and Xevo® TQ-S micro.
[ MASSLYNX SOFTWARE ]
5
USABILITY
Work intuitively with mass spectrometry
The user interface in MassLynx ensures direct, intuitive access to the functionality
that you use most. The result is a user-friendly and fully comprehensive solution
that will increase laboratory productivity.
The MassLynx toolbar, displayed alongside the Sample List, provides access at the
click of a mouse to instrument status, sample queue information and Application
Managers. You can easily switch from viewing the queue to viewing instrument
status, or use the tabs to move between general and application-specific tools.
The ability to access basic sample information and system functionality through
the MassLynx toolbar allows a novice user to successfully operate the system
with a minimal learning curve.
This straightforward interface also gives the experienced user fast access to the
advanced features MassLynx offers for sophisticated experiments.
VERSATILITY
Complete system solutions for sophisticated MS analysis
Waters combines the benefits of chromatographic separation and mass spectrometry
as a powerful analytical technique, seamlessly controlled by a single software platform.
Together our instruments, software, chemistries, and comprehensive service and
support bring you an integrated system that yields high sensitivity, robustness,
and versatility.
GET THE MOST FROM
YOUR HARDWARE, WITH
SEAMLESS SOLUTIONS
FOR ADVANCED
APPLICATIONS
■
■
Collect nominal or accurate
mass MS and MS/MS data.
■
■
Streamline data acquisition
and processing.
■
■
Acquire both low- and
elevated-energy mass
spectra with MS.E
■
■
Real-time Data Directed Analysis
(DDA™) allows you to
automatically switch from
MS to MS/MS acquisition
when a compound of
interest is detected.
■
■
On-the-fly, automated accurate
mass measurement using the
internal reference standards
from the LockSpray™ Source
for Tof-MS systems.
■
■
i-FIT™ algorithm for the
Elemental Composition
Calculator enables you to
shorten predicted formulae lists
for structural prediction in exact
mass measurements.
■
■
Control ionization sources
including ESI, APCI, Multi-Mode
Ionization, UniSpray,™ APPI/
APCI Dual Ionization, DESI,
ASAP, APGC, and MALDI.
■
■
Supports Waters and third-party
inlets, autosamplers,
and detectors.
6
Improved system interaction
The real power of MassLynx lies in its
ability to intelligently control an entire
Waters MS system – from the sample
and solvent management components
to the mass spectrometer and auxiliary
detectors. With an embedded PC
acquisition system (EPCAS™),
MassLynx puts intelligence and
real-time functionality inside every
mass spectrometer.
MassLynx features IntelliStart™ for
Waters MS Systems. IntelliStart
integrates internal calibration fluidics
and advanced diagnostics software,
allowing the system to automatically
tune, calibrate, and conduct full
UPLC-MS/MS performance checks.
MassLynx provides intuitive data
processing workflows for high-
performance analytical instruments.
This eliminates the complexity that can
be associated with high-resolution MS
and ion mobility data.
MassLynx IntelliStart user interface integrates fluidics management with diagnostics software, allowing
the system to automatically tune, calibrate, and conduct full UPLC-MS/MS performance checks. All you
need to do is run your sample.
[ MASSLYNX SOFTWARE ]
7
■
■
MassLynx Security Manager
Allows you to configure access privileges for each user,
enabling you to easily deploy operator, administrator, and
maintenance policies to meet your existing security
protocols. Multiple user groups with access to alternative
project areas are permitted fully-secured operation when
required, and operation in less restrictive projects with
less restrictive privileges when appropriate.
■
■
Secure file encryption
Employs the latest encryption and checksum technologies
to prevent accidental or deliberate tampering with files.
An optional component of the secure file system is the
addition of electronic signatures.
■
■
Audit log
Provides an un-editable, hidden, encrypted file that
automatically records all log-on and log-off events, security
policy changes, MassLynx program module activity, and all
events which relate to file generation or manipulation.
This log file can be viewed and searched using LogLynx.™
In addition to the audit log provided by the MassLynx
security system, the TargetLynx XS Application Manager
has a detailed audit log that records the specifics of
quantitative data processing.
■
■
Secure archival and retrieval
Provides the ability to archive and then restore secure
data without compromising date and file integrity.
MassLynx integrates a complete Waters system,
such as benchtop Xevo G2-XS QTof and
ACQUITY UPLC I-Class for accurate mass
measurement. Through MassLynx, you have
complete control of the system itself, as well as
the data processing tools you need to efficiently
convert data into meaningful information.
COMPLIANCE
MAINTAINING SECURITY IN A REGULATED ENVIRONMENT
Strictly regulated laboratory environments place significant demands on LC-MS, LC-MS/MS, and GC-MS systems to maximize
performance while also maintaining the security of data.
The MassLynx security system provides compliance-ready tools to meet GxP and 21 CFR Part 11 regulations. It is built on the latest
file encryption, audit log, and secure archival/retrieval technology, and has been optimized for convenience and ease-of-use. The
flexibility of the security system allows you to tailor and deploy security policies that meet the requirements of your laboratory.
8
ADVANCED DATA MANAGEMENT
OpenLynx and TargetLynx XS Application Managers
OpenLynx and TargetLynx XS Application Managers are included with MassLynx. The OpenLynx Application Manager allows for
customizable batch processing of qualitative MS information. OpenLynx includes quality control capabilities to ensure satisfactory
system operation. The OpenLynx browser window facilitates review of large quantities of data; with its convenient plate viewer you
can see at a glance whether individual wells contain the target analyte.
The TargetLynx XS Application Manager enables you to perform batch quantification, relying on our ApexTrack™ peak detection
algorithm for optimized peak detection and integration. The TargetLynx XS browser contains all information required to review
integration, calibration, and quantitation results. You may manually modify integration, enable and disable calibration points as
needed, and recalculate the results following review. The internal audit log with configurable reasons for change and electronic
signatures supports compliance with applicable regulations.
The comprehensive compliance tools allow for file generation, processing, reporting, archival, retrieval, and audit trails, with the
ability to handle electronic signatures.
Data portability
OpenLynx and TargetLynx XS reports are self-
contained and may be automatically emailed
when created using OpenLynx Open Access
Software. The convenient browser software
enables reports to be reviewed on any PC.
TargetLynx XS reports permit interactive
review, reintegration, and recalculation of
results without MassLynx and access to the
original raw data files. Multiple export formats,
including *.txt, *.csv, *.xml, and HL7 compatible
protocols, enable convenient data transfer to
other software applications.
[ MASSLYNX SOFTWARE ]
9
FOR TARGETED ANALYSES
TargetLynx XS
Quantifying and confirming, TargetLynx XS delivers the information necessary for
regulatory compliance. With a full range of automatic quality control checks for
flagging out-of-range data, TargetLynx lets you identify at a glance samples that fall
outside user-specified or regulatory thresholds.
QuanOptimize
Automating MS and MS/MS method development, QuanOptimize™ delivers high
performance, high throughput quantification. Automated instrument optimization
doesn’t stop at cone voltage, collision energy and MRM transition selection –
QuanOptimize also identifies the best ionization method for each compound (ESI
or APCI, positive or negative) and automatically quantitates and reports your batch.
OpenLynx Open Access Login
For walk-up analysis, OpenLynx Open Access Login offers multi-user and
unsupervised sample login, backed by centralized system management.
For LC-UV, LC-MS, LC-MS/MS, and GC-MS sample runs, from data acquisition
to batch processing for qualitative and quantitative analysis, use OpenLynx to
fully automate all stages in LC-MS quantification.
FractionLynx
Automating compound isolation and purification, FractionLynx™ controls fraction
collection while tracking sample, fractions, and associated data. All possible through
integrating versatile control of purification systems with an extensive and flexible set
of compound detection, fraction triggering, and collection capabilities.
FOCUS THE POWER OF MS
ON YOUR APPLICATION
The rate-determining step in many
analyses is not data acquisition,
but the speed your data can be
converted into useful information.
To assist with both application
specific data acquisition and the
transformation of data into usable
results, MassLynx offers Application
Managers with specialized data
processing functionalities that
allow you to eliminate complex, time
consuming manual data review.
FOCUS THE POWER OF MS
ON YOUR LABORATORY
TASKS AND INCREASE
YOUR PRODUCTIVITY
The functionality of MassLynx
Application Managers was guided
by recommendations from our
customers. We worked closely
with labs like yours to better
understand unique MS data
processing challenges.
We developed these software
extensions to improve your ability
to control, collect, and process
MS data for specific laboratory
needs. The OpenLynx and
TargetLynx XS Application
Managers are included with
each MassLynx installation.
Example of TargetLynx XS browser showing processed data.
10
FOR IDENTIFICATION
ChromaLynx XS
Simplifying complex mixture analysis, ChromaLynx™ XS excels
at semi-quantitative detection, identification and determination
of components. Detecting and locating the maximum number
of real components in a mixture, ChromaLynx also provides
comparisons between a real sample and a blank to help
determine common and unique components.
MetaboLynx XS
Automating metabolite identification, MetaboLynx™ XS
leverages advanced comparison with control samples. You’ll
miss fewer metabolites and accelerate your data interpretation.
Advanced mass defect filters (MDF) let you concentrate
on unexpected metabolites while the structural elucidation
capabilities of MassFragment™ delivers the information you
need to resolve metabolic pathways.
MassFragment
Automatically assigning collisionally activated dissociation
mass spectra, MassFragment employs a novel systematic bond
dissociation approach, rather than the traditional rule-based
and rule-limited approach, delivering confident structural
elucidation of your compounds.
MetaboLynx XS automates data processing for rapid metabolite identification. The unique structural elucidation capabilities of MassFragment for MetaboLynx
interpret the enhanced fragment information from the SYNAPT® HDMS® for the most advanced characterization capabilities in small molecule profiling.
[ MASSLYNX SOFTWARE ]
11
WATERS GLOBAL SERVICES
Delivering world renowned
services and support
Waters Service and Support
offerings are tailored to optimize
your laboratory productivity while
addressing your budget realities.
Our offerings help maintain system
peak performance, minimize down
time, address scientific application
challenges, and support stringent
compliance requirements. As your
services and support provider, we
are committed to the success of
your laboratory and business.
Waters quality support and
consultative services ensure
your success wherever your
laboratory is located in the world.
Waters has consecutively
earned the ACE Award since
2001 for providing best-in-class
technical knowledge, issue
resolution, and process support.
FOR BIOPHARMACEUTICAL IDENTIFICATION AND CHARACTERIZATION
BiopharmaLynx
Developed for confident characterization and optimized workflow, BiopharmaLynx™
leverages Waters’ leading protein informatics expertise. Determine the identity,
purity, and stability of biopharmaceuticals, working with either peptide maps or
intact proteins.
INTEGRATION WITH INFORMATICS SOLUTIONS
MassLynx is part of the Waters Laboratory Informatics suite, which offers complete
solutions to improve your laboratory’s ability to capture data, secure information, and
share knowledge. MassLynx offers tight, automated integration with our laboratory
informatics solutions:
Progenesis QI
Progenesis® QI and Progenesis QI for proteomics enable you to accurately quantify
and then identify the compounds and proteins in your omics samples that are
significantly changing. Our unique approach to co-detection of compound ions is
vital for accurate and precise quantification and access to a wide variety of search
methods such as LipidBlast, ChemSpider and Elemental Composition gives great
flexibility. Powerful data visualization’s and a guided-workflow give ease of use and
great confidence in experimental results.
LiveID
LiveID™ Software enables the real-time classification of samples using direct analysis
MS data. Compounds are measured in an unbiased fashion providing a holistic view
of the sample. Initially, authentic verified samples are used to create and validate
a multivariate statistical model. Validated models are then used to test samples to
generate live classifications. The output is a simple yes/no answer.
Symphony
Symphony™ Software is a client/server application that is triggered by a MassLynx
acquisition and allows the automation of one, or several, post-acquisition data
processing functions in a sequence. It is built with efficiency, flexibility, and
creativity in mind and enables laboratories to extract maximum value from
LC-MS instrumentation.
NuGenesis Lab Management System
NuGenesis® LMS has multiple points of integration with Masslynx. The Scientific
Data Management System (SDMS) within NuGenesis LMS provides capabilities
to manually or automatically capture reports from MassLynx and archive the data
files generated by the MassLynx application. In addition to the data management
functionality, NuGenesis LMS Connectors can automate the bi-directional
communication of sample and result data to MassLynx with laboratory business
systems like SAP and other commercially available LIMS systems.
For your local sales office, please visit www.waters.com/contact
Waters Corporation
34 Maple Street
Milford, MA 01757 U.S.A.
T: 1 508 478 2000
F: 1 508 872 1990
www.waters.com
Sales Offices:
Australia 61 2 9933 1777
Austria 43 1 877 18 07
Belgium and Luxembourg 32 2 726 1000
Brazil 55 11 4134 3788
Canada 1 800 252 4752
China 86 21 6156 2666
Czech Republic 420 2 617 11384
Denmark 45 46 59 8080
Finland 358 9 5659 6288
France 33 1 30 48 72 00
Germany 49 6196 400 600
Hong Kong 852 2964 1800
Hungary 36 1 350 5086
India 91 080 49292200 03
Ireland 353 1 448 1500
Israel 9723 3731391
Italy 39 02 265 0983
Japan 81 3 3471 7191
Korea 82 2 6300 9200
Malaysia 603 7841 1688
Mexico 52 55 52 00 1860
The Netherlands 31 76 508 7200
Norway 47 6 384 6050
Poland 48 22 101 5900
Portugal 351 21 893 61 77
Puerto Rico 1 787 747 8445
Singapore 65 6593 7100
Spain 34 93 600 9300
Sweden 46 8 555 115 00
Switzerland 41 56 676 7000
Taiwan 886 2 2508 5500
UAE 971 4 214 62 38
UK 44 208 238 6100
US 1 800 252 4752
Waters, The Science of What’s Possible, ACQUITY, Empower, HDMS, MassLynx, NuGenesis,
Progenesis, SYNAPT, UPC2, UPLC, and Xevo are registered trademarks of Waters Corporation.
ApexTrack, BiopharmaLynx, ChromaLynx, DDA, EPCAS, FractionLynx, i-FIT, IntelliStart, LiveID,
LockSpray, MarkerLynx, MassFragment, MetaboLynx, NanoLockSpray, OpenLynx, ProfileLynx,
ProteinLynx, QuanOptimize, Sample Centric, Symphony, TargetLynx, and UniSpray are trademarks
of Waters Corporation. All other trademarks are the property of their respective owners.
©2017 Waters Corporation. Printed in the U.S.A. September 2017 720001408EN LM-SIG
