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Use No-Cost Solutions To Bring ML Into Your Medical Research

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Wonders happen when you merge science and technology! Read this informative piece to know how medical researchers can use AI systems to predict protein shapes and help accelerate research in every field of biology.

There’s a lot we can learn from combining technology with science to help support the development of amazing discoveries. By using an AI system to predict protein shapes, we have the potential to accelerate research in every field of biology. Inside every cell in your body, billions of tiny molecular machines are hard at work. They are what allow your eyes to detect light, your neurons to fire, and the ‘instructions’ in your DNA to be read.

These intricate machines are known as proteins.

The protein folding puzzle

Protein folding is something that occurs naturally so that proteins become biologically functional, but it’s a complex process that sometimes fails. For decades, scientists have been trying to find a method to reliably predict a protein’s structure from its sequence of amino acids so we can better understand how proteins work.

The challenge? There are over 200 million known distinct proteins. Each one has a unique 3D shape that determines how it works and what it does. Because there are so many sequences and determining their 3-D structure experimentally is so time-consuming and expensive, scientists only know the exact structure of a tiny fraction of the proteins. And these experimental methods still fall far short of reliable statistical accuracy.

Deepmind’s gigantic leap

In 2020, Alphabet’s artificial intelligence research arm, DeepMind, made a massive breakthrough in predicting protein structures using a deep learning model called AlphaFold.

AlphaFold is trained on publicly available data consisting of about 170,000 protein structures, and is the first computational method that can regularly predict the 3D shape of a protein, at scale with a high degree of accuracy.

AlphaFold has already sent waves throughout the scientific community and has demonstrated the potential for AI to aid fundamental scientific discovery. Recently, Deepmind has made AlphaFold predictions available and open source to anyone. To date, more than 500,000 researchers from 190 countries have accessed the AlphaFold protein structure database to get closer to finding life-saving cures for diseases like Leishmaniasis and Chagas.

And now Deepmind has expanded the set of available predictions by more than 200 times (from nearly 1 million to nearly 214 million) to cover almost all cataloged proteins found in nature.

Open source predictions available on Google Cloud

Together, Google Cloud and Deepmind have released this dataset of predicted protein structures for plants, bacteria, animals, and other organisms as part of the Google Cloud Public Dataset program to enable bulk downloads at no cost. That means you can also create custom queries of the dataset using BigQuery!

Running AlphaFold on Google Cloud Vertex AI

Let’s say you want to run AlphaFold on your own in order to get protein structure predictions against your own set of data. There are a few challenges to keep in mind:

  • You need to set up feature engineering against genetic sequence databases
  • Preprocess data
  • And run those inputs against pre-trained models

All of this requires allocating CPUs or GPUs, hosting a notebook environment, and scaling up for larger experiments. It’s hard to build and configure an on-premise system or cloud server to use AlphaFold whether you just want to try it out or run it at scale as a large organization.

That’s why we’re excited to share a deep integration between Google Cloud and Deepmind. On top of the Public Datasets program we have created end-to-end code samples for AlphaFold on Vertex AI, a managed end-to-end ML platform, to help address these challenges and speed up deployment. With AlphaFold on Vertex AI, you can manage a data science or machine learning workflow in a single development environment. You get access to pre-configured compute, storage, and end-to-end production notebooks. We have removed the heavy lifting needed to set up new ML environments, automate orchestration, and manage large clusters.

The AlphaFold inference workflow can be simplified with Vertex AI: from data preparation to feature engineering and deployment. Unlike the manual set up, the orchestrator makes it possible to parallelize steps, get predictions faster, and with better tracking.

Try it out first using Vertex AI Workbench

For those of you who want to try out a simplified version of AlphaFold, we have a Colab notebook that uses no templates (homologous structures) and a selected portion of the BFD database. You can deploy right on Vertex AI Workbench, which lets you specify a custom container image that we’ve already created for you. You’ll be able to:

  1. Configure access to genetic databases
  2. Configure GPU acceleration
  3. Search against genetic databases
  4. Use the pre-processed results as inputs to the AlphaFold model locally



In a little over an hour you can harness the power of AlphaFold to generate 3-D protein structures from amino acid sequences.

Run hundreds of experiments reliably using Vertex AI Pipelines

For organizations that want to run a full blown version of AlphaFold for many protein folding experiments a week, you’ll want an ML pipeline orchestrator. The AlphaFold Batch Inference solution is a set of code samples that uses Vertex AI Pipelines to support hundreds of concurrent inference pipelines with higher throughput to help you run experiments at scale. The solution uses Vertex AI Pipelines as an orchestrator and runtime, Vertex ML Metadata for metadata and artifacts, and Cloud Filestore to manage databases.

Because it’s built on Vertex AI Pipelines, you can automate, monitor, and experiment with interdependent parts of an ML workflow. The minimized inference elapsed times mean what normally would take you days, can now take you hours.

The solution includes two example pipelines:

1. The universal pipeline solution mirrors the exact logic in DeepMind’s open source inference script but decoupled into discrete tasks so you can run the same experiments faster, more efficiently, and with better tracking.

2. The customized pipeline solution shows you how to further optimize the inference workflow by parallelizing feature engineering steps so you can plug in your own database sources.


You get example components, pipelines, and notebooks to start, analyze, and recompile pipelines on different GPUs.

The AlphaFold Vertex AI Workbench solution is great for experimental use, while the AlphaFold Batch Inference solution on Vertex AI Pipelines is great for doing protein folding at scale with a strong process for reproducibility and tracking.

Now go forth and save the world!

Okay maybe that’s a bit hyperbolic, but this is inspiring stuff! What started as a 50 year challenge, to the discovery of AlphaFold, to being able to run it on Google Cloud, researchers, developers, and science enthusiasts now have access to one of the most pivotal advancements in the medical world. Even a non-specialist can easily use a Vertex AI notebook to exercise a simplified version of AlphaFold. The next answers to the mysteries of life and discovery of disease treatments have never felt more attainable. With these no-cost solutions to run AlphaFold on Vertex AI and the Public Dataset, you can help propel us in this worldwide endeavor.

Learn more about healthcare and life sciences solutions on Google Cloud here.

If you have feedback or want to share your experience with me, reach out to me at @stephr_wong.

Case Study

Held Back by Database Scalability, This Financial Services Company Switches to Google Cloud and Cloud Spanner

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Financial services provider, Azimut Group, turns to Google Cloud and Google Cloud Spanner. The result? It can scale up databases in two minutes instead of one day, and it saves 35% on cloud provider costs.

Azimut Group operates an international network of companies handling investment and asset management, mutual funds, hedge funds, and insurance. Founded in Milan, Italy in 1988, Azimut Group today has branches in fifteen countries, including Brazil, China, and the USA.

“We have subsidiaries and manage funds all over the world,” explains Simone Bertolotti, IT Manager at Azimut Holding S.p.a. “That means that any technology that we put in place has to cover needs from many different countries.”

“When complicated analysis has to be executed, we have to increase our table space in a couple of minutes so that the AI can drill down into the data and deliver the information we need.”

Simone Bertolotti, IT Manager, Azimut Holding S.p.a.

Azimut manages its funds with investment advisors who use information sourced from Bloomberg, Reuters and others. “They use a huge amount of data,” says Simone. “They work with spreadsheets, algorithms, formulae and they analyse data in minutes.” In finance, every second is crucial, which is why Azimut decided to develop a risk management dashboard that can process information even more quickly, then distribute it worldwide.

“When an advisor manages data, that data is used to make immediate decisions on funds, capital movements or whether to sell stock,” says Simone. “They have to be ready to make recommendations for any amount of data that comes to them. For our dashboard, that means that when additional information arrives or complicated analysis has to be executed, we have to increase our table space in a couple of minutes so that the AI can drill down into the data and deliver the information we need.”

Generating insights at speed

Investors and investment managers make decisions based on the most accurate, up-to-date information possible. For Azimut Group, information sourced through financial data vendors such as Bloomberg and Reuters provided only part of the data that the group required.

“We looked to collect information from a range of different providers,” explains Simone, “then analyse it to develop a predictive algorithm that could work faster than an advisor stationed at the terminal. We set ourselves the challenge to try to manipulate that data to add new insights into our matrix, so that every one of our branches across the world can see risk information about the funds in real-time.”

“We compared Google Cloud Platform’s performance with our previous cloud provider, and saw huge benefits of switching to Google. For me, the key performance issue is scaling. With Google Cloud Platform I know that I can increase and decrease my infrastructure quickly, when I need it.

Simone Bertolotti, IT Manager, Azimut Holding S.p.a.

The first cloud provider Azimut used to build its system struggled to scale quickly to meet different kinds of data challenges. “If we wanted to add more cores, that was fine,” says Simone. “But the previous cloud provider made it complicated to raise the amount of space in a database infrastructure and scale up to demand. Scaling up for more in-depth analysis would take a day, and our need was immediate.”

That’s why Azimut switched one year ago to Google Cloud Platform to run the 150 VMs on its risk analysis platform. “We compared Google Cloud Platform’s performance with our previous cloud provider, and saw huge benefits of switching to Google. For me, the key performance issue is scaling,” says Simone. “With Google Cloud Platform I know that I can increase and decrease my infrastructure quickly, when I need it. Instead of waiting a day to scale up infrastructure, we can request and add space to our database in a couple of minutes.”

The infrastructure of Azimut’s solution handles around 800TB of data per month, and Google’s global network of servers and high-speed connections ensure that it gets to where it’s most needed by the most direct route. Impressed by the speed, security and availability of Google Cloud Platform, Azimut has moved its intranet on to Google Cloud Platform, too, eliminating the need for staff to login with VPNs.

“Instead of waiting a day to scale up infrastructure, we can request and add space to our database in a couple of minutes.”

Simone Bertolotti, IT Manager, Azimut Holding S.p.a.

Driving ahead with Noovle

For Azimut, migrating the risk management dashboard is the latest of many Google product collaborations with cloud consultancy Noovle. “Everything started five years ago,” says Simone, “when Noovle assisted us in migrating to Gmail from our on-premise email solution. From G Suite to Google Cloud Platform, we’ve had a great relationship. Noovle provides consultancy services, support for mobility, and external advisors who work on our premises, such as when they trained us how to broadcast our meetings on Google Hangouts. As an independent company, we know we can trust them for transparent advice. All they care about is the best way to get a job done and to help us reach our goals.”

New app, new customers

In a business case comparison, Google Cloud Platform cost Azimut 35% less to run than the previous cloud provider. Now the group is building a major new mobile application on Google App Engine to be released in 2018.

“The new mobile application will allow customers to trade directly, without human advisors, by proposing different investment solutions depending on targets the customers set,” says Simone. “So if a customer aims to make money with investments, they enter their relevant personal information and we carry out the necessary regulatory checks and suggest what they could buy. The entire project will be based on Google Cloud Platform, so customers can control their investments through the app while we manage the fund, using Google Cloud Spanner on the backend.”

Blog

Startup Success Blueprint: Insights on Cloud Provider Selection from One AI

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Explore the world of generative AI through the lens of One AI, a rising startup, as they share insights on the critical aspects of selecting a cloud provider. Learn how MongoDB on Google Cloud empowers startups to accelerate their AI journey.

From the newsroom to the boardroom, everywhere we turn these days the topic of conversation is artificial intelligence (AI). From the smallest startups to the largest enterprises, every business is looking for ways to incorporate generative AI technology into their products or services. 

Generative AI is a new breed, able to not only discern patterns in data but generalize from them and create new data—and it’s moving fast. With new technologies rapidly emerging, there’s a lot to consider when choosing a tech stack that’s right for your startup. 

Our mission is to empower startups to build generative AI applications quickly, efficiently, and responsibly. In addition to our technology, we offer a variety of fresh educational and consulting initiatives, as well as comprehensive plans tailored to specific industry applications. 

At the recent Google Cloud Startup Summit, leaders from One AI and MongoDB weighed in on various decisions startups face when choosing a development platform to integrate AI into their products. (You can watch the full conversation here.) They shared key insights into the challenges startups face when applying AI technology to real-world business and product use cases. 

In this blog, we’ll explore why One AI – a platform that empowers businesses to deploy tailored AI solutions – relies on MongoDB on Google Cloud for performance, scale, functionality, and TCO. We will also cover the things that startups should keep in mind when building their generative AI stack.

Fine-tuning generative AI for startups

First, let’s start with a little background. 

AI-based capabilities have been around for decades now, but generative AI is distinct. It’s a more mature version of AI, powered by models pre-trained on very large datasets composed of massive quantities of images, text, and data. These models are known as foundation models, and they include large language models (LLMs), text-to-image models, multimodal models, and more. Foundation models let intelligent applications  generate new images, text, and data based on queries or prompts. This in turn allows companies to deploy those capabilities in their products and services faster since they don’t have to retrain the whole AI from scratch. 

Over the course of their diverse startup careers, Amit Ben, CEO at One AI and his team have built AI-based capabilities from the ground up for various products in various fields.

“And each time, we had to rebuild the tech stack over again,” Amit explains. “With the advent of generative AI, startups now have the ability to deploy much faster — with a lower TCO and higher confidence — and deliver the capabilities they need into their products and services. It finally makes sense for every company to have AI in its product portfolio.”

“For us to be able to focus on that,” Amit adds, “we need to make sure we have a rock-solid foundation that we can build on.”

That foundation is MongoDB on Google Cloud. 

Helping startups build fast and with flexibility

Startups can scale from ideation to growth with Google Cloud’s global availability, market-leading sustainability, and the same zero-trust security model that Google itself depends on.

With MongoDB, startups can take advantage of iteration cycles that are 3-5X faster, reduce sprawl and complexity, and benefit from the scalable infrastructure and advanced analytics tools on Google Cloud

With MongoDB on Google Cloud, Amit and his team are confident they can adapt to new schemas, to new data, and to the scale they need for both writing and reading, all while operating on a scalable platform and infrastructure they can rely on for the long haul. 

A common mistake for startups is turning to niche, single-point solutions. But this can backfire when they realize their solution doesn’t provide the security, scalability, and performance they need to grow. 

Additionally, startups tend to have tight iteration cycles as they find their ideal product market fit. The ability to build fast and with improved flexibility is a key differentiator in a startup environment. 

From cutting-edge automation to rock-solid redundancy and performance, there are many reasons why startups choose MongoDB on Google Cloud. And now, a dedicated partnership helps startups like One AI scale more quickly, more securely, and more successfully. 

Google Cloud and MongoDB for startups

Choosing the right technology to accelerate time to market is critical to a startup’s success. Not only is it easy to get started, but Google Cloud and MongoDB also provide the foundation for users to scale without limits — so startups can focus on innovating and growing their businesses. 

Learn more about the powerful startup programs available from Google Cloud and MongoDB.

Research Reports

AI in Manufacturing Already A Mainstream: Google Cloud Study

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Google Cloud's latest research unveiled nearly 76 percent of the manufacturers across 7 countries turned to AI and other digital enablers during the pandemic. The study also found that 66 percent of manufacturers relied on AI for daily operations.

While the promise of artificial intelligence transforming the manufacturing industry is not new, long-ongoing experimentation hasn’t yet led to widespread business benefits. Manufacturers remain in “pilot purgatory,” as Gartner reports that only 21% of companies in the industry have active AI initiatives in production

However, new research from Google Cloud reveals that the COVID-19 pandemic may have spurred a significant increase in the use of AI and other digital enablers among manufacturers. According to our data—which polled more than 1,000 senior manufacturing executives across seven countries—76% have turned to digital enablers and disruptive technologies due to the pandemic such as data and analytics, cloud, and artificial intelligence (AI). And 66% of manufacturers who use AI in their day-to-day operations report that their reliance on AI is increasing.

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The top three sub-sectors deploying AI to assist in day-to-day operations are automotive/OEMs (76%), automotive suppliers (68%), and heavy machinery (67%).

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In fact, Bryan Goodman, Director of Artificial Intelligence and Cloud, Ford Global Data & Insight and Analytics shares, “Our new relationship with Google will supercharge our efforts to democratize AI across our business, from the plant floor to vehicles to dealerships. We used to count the number of AI and machine learning projects at Ford. Now it’s so commonplace that it’s like asking how many people are using math. This includes an AI ecosystem that is fueled by data, and that powers a ‘digital network flywheel.’”

Moving from edge cases to mainstream business needs

Why are manufacturers now turning to AI in increasing numbers? Our research shows that companies who currently use AI in day-to-day operations are looking for assistance with business continuity (38%), helping make employees more efficient (38%), and to be helpful for employees overall (34%). It’s clear that AI/ML technology can augment manufacturing employees’ efforts, whether by providing prescriptive analytics like real-time guidance and training, flagging safety hazards, or detecting potential defects on the assembly line.

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In terms of specific AI use cases called out by the research, two main areas emerged: quality control and supply chain optimization. In the quality control category, 39% of surveyed manufacturers who use AI in their day-to-day operations use it for quality inspection and 35% for product and/or production line quality checks. At Google Cloud, we often speak with manufacturers about AI for visual inspection of finished products. Using AI vision, production line workers can spend less time on repetitive product inspections and can instead focus on more complex tasks, such as root cause analysis. 

In the supply chain optimization category, manufacturers said they tapped AI for supply chain management (36%), risk management (36%), and inventory management (34%).

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In our day-to-day work, we’re seeing many manufacturers rethink their supply chains and operating models to better accommodate for the increased volatility that has been brought about by the pandemic and support the secular trend of consumers asking for increasingly individualized products. We’ll share more on deglobalization in the third installment of our manufacturing insights series.

AI use differs by geography, but not for the reasons you may think

The extent to which AI is already being used today varies quite strongly between geographies, according to our research. While 80% and 79% of manufacturers in Italy and Germany respectively report using AI in day-to-day operations, that percentage plummets in the United States (64%), Japan (50%) and Korea (39%).

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It’s tempting to state this disparity is due to an “AI talent gap.” Although the most common barrier, just a quarter (23%) of manufacturers surveyed believe they don’t have the talent to properly leverage AI. Cost, too, does not appear to be a roadblock (21% of those surveyed). Rather, from our observations, the missing link appears to be having the right technology platform and tools to manage a production-grade AI pipeline. This is obviously the focus of our efforts and others in the space, as we believe the cloud can truly help the industry make a step change.

Looking ahead: The Golden Age of AI for manufacturing

The key to widespread adoption of AI lies in its ease of deployment and use. As AI becomes more pervasive in solving real-world problems for manufacturers, we see the industry moving away from “pilot purgatory” to the “golden age of AI.” The manufacturing industry is no stranger to innovation, from the days of mass production, to lean manufacturing, six sigma and, more recently, enterprise resource planning. AI promises to bring even more innovation to the forefront. 

To learn more about these findings and more, download our infographic here and our full report here


Research methodology
The survey was conducted online by The Harris Poll on behalf of Google Cloud, from October 15 – November 4, 2020, among 1,154 senior manufacturing executives in France (n=150), Germany (n=200), Italy (n=154), Japan (n=150), South Korea (n=150), the UK (n=150), and the U.S. (n=200) who are employed full-time at a company with more than 500 employees, and who work in the manufacturing industry with a title of director level or higher. The data in each country were weighted by number of employees to bring them into line with actual company size proportions in the population. A global post-weight was applied to ensure equal weight of each country in the global total.

Trend Analysis

Digital Maturity in Higher Ed Tied to Improvements in Students’ Journey: Study

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BCG and Google's 2021 study on digital maturity in higher education reveals 'going all-in' on digital helps universities become more agile and efficient in delivering education. It meets students' preferences and fosters future disruptions.

Why Higher Ed Needs to Go All-in on Digital

In the wake of the COVID-19 pandemic, the majority of students within the 18-24-year-old demographic now expect hybrid learning environments–even once we are beyond the pandemic. And a vast number of adult learners are seeking options that accommodate their work and family lives now that it’s clear that effective learning can indeed occur virtually. Implementing cloud technologies and achieving digital maturity within higher education will enable institutions to be innovative and responsive to evolving student preferences, while being prepared for future disruptions.

Exhibit 1: BCG

The state of digital maturity

In February and March 2021, Boston Consulting Group (BCG), in partnership with Google, surveyed U.S. higher education leaders on their views of the state of digital maturity in the higher education sector. This survey found that institutional and technology leaders strongly agreed that moving legacy IT systems to the cloud, centralizing and integrating data, and increasing the use of advanced analytics is necessary to make a successful digital transformation, and ultimately achieve digital maturity.

But what is digital maturity? Digital maturity—a measure of an organization’s ability to create value through digital delivery—focuses on three areas of technological advancement that drive large-scale innovation:

  1. Using cloud infrastructure
  2. Expanding access to data
  3. Using that data to improve processes through advanced analytics, such as Artificial Intelligence and Machine Learning (AI/ML)

Although university leaders agree on prioritizing digital maturity, more than 55% said they considered their schools to be “digital performers” or “digital leaders.” However, only 25% of tech leaders at these universities stated that their schools regularly use data analytics. As with corporations and governments, higher education institutions face barriers to technological innovation, such as:

  • Competing priorities to meet step-change goals and decentralized decision making
  • Budget constraints
  • Cultural resistance to change
  • Tech staff skillset gaps

Still, leaders understand that the way to overcome institutional inertia is with a strong, goal-oriented vision of what is best for the institution overall. Although only a handful of schools have reached digital maturity as we define it, others can learn a great deal from their examples. Here are the top takeaways from higher education leaders who successfully transformed their institutions:

Digital solutions can improve the student journey in many ways

Exhibit 2: BCG

As digital capabilities hold the key to dealing effectively with declining enrollment and rising costs, higher ed leaders identified four goals that are critical to improving performance:

  1. Improve the student journey
  2. Increase operational efficiency
  3. Scale computing power in advanced research
  4. Innovate education delivery

The research found that technology investments can help enhance the student journey in the recruiting and retention of students, improving digital education delivery, government funding, and donations from alumni. Digital maturity can make institutions more agile and efficient in delivering education that aligns with the changing societal norms, evolving student preferences, and future disruptions. Survey participants shared that they plan to increase the use of the cloud by more than 50% over the next three years. By shifting legacy IT systems to the cloud, institutions can increase scalability, lower the cost of ownership, and improve operational agility, while offering a more secure, long-term data storage solution.

Cloud-native software-as-a-service (SaaS) solutions provide an excellent platform for centralizing data. However, institutions that attempt to “lift and shift” their legacy systems to the cloud may encounter challenges to achieving measurable improvements in data integration and cost reduction. Higher ed leaders must realize that centralizing data and transitioning to the cloud do not happen simultaneously.

Leaders who are able to articulate a strong vision and commitment will experience a more successful technology transformation. By linking their vision to specific needs, such as more effective recruiting, leaders will find their technology investments will have a more substantial return. University presidents should base their decisions about which systems to move, when, and how on desired performance outcomes.

Big visions become a reality with small steps. Small pilot projects are an excellent way to start the journey toward digital maturity. Small steps toward a significant transformation can reduce resistance to change, build positive momentum, and produce better student outcomes. Read the full report here. If you’d like to talk to a Google Cloud expert, get in touch

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Case Study

Metro Consolidates 100 SAP Instances on Google Cloud

German retailer Metro, with operations in 25 countries across Europe and Asia and employing over 150,000 people, decided to consolidate its 100 SAP instances into one SAP S/4HANA system running on the Google Cloud Platform.

This helped the company lower costs, increase efficiency, and improve customer experience. In addition, the company is using Google BigQuery and advanced analytics to increase its sales.

Watch Timo Salzsieder, Metro CIO/CSO, explain the company’s journey with SAP on Google Cloud.

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Technical deep dive on Looker: The enterprise BI solution for Google Cloud

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