1. The document discusses the author's research experience including developing a storage architecture called uStorage that couples block and object storage models, creating a FAIR research data management system for next generation sequencing data, and developing a scientific cloud platform called mc2 that supports distributed and scalable bioinformatics applications using volunteer, cluster, and MapReduce processing models. 2. The author has published several papers on uStorage, a FAIR sequencing data repository based on iRODS, supporting bioinformatics applications through volunteer and scalable computing frameworks, and providing volunteer computing infrastructure to support e-science applications. 3. The document provides the author's contact information and date.

1. Research experience
&
Scientific publications
Felipe Oliveira Gutierrez
felipe.o.gutierrez@gmail.com
February 1th, 2018

2. Summary
1. uStorage architecture
Coupling of two storage models (blocks and objects)
2. FAIR RDM system
Findable, Accessible, Interoperable, and Reusable
Research Data Management system
3. Workflow to support Volunteer and Scalable computing
Boinc and Hadoop
4. Personal projects
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3. 3
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1 - uStorage architecture. 2014/2016

4. Block Storage
● raw block
● same size
● no metadata
● scalability limited
● ID to local system
● good performance OS mount
point
● needs HA for prepare to fail
● high performance hardware
● reduced availability
● random RW loads
● structured data sets 4
Object Storage
● buckets
● different size
● expandable metadata
● very scalable
● global unique ID on DS
● bad performance OS mount
point
● already prepared to fail
● hardware flexibility
● high availability
● generally read
● unstructured data sets
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uStorage architecture

5. uStorage architecture
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6. uStorage architecture
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7. 7
Block Storage Object Storage
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uStorage architecture

8. 8
Cache LRU algorithm
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uStorage architecture

9. uStorage architecture
9
uStorage
cache
cache free space
Eviction Clean or remove buckets
from the cache to open
space for new buckets.
Cache miss or
Cache hit fails
Restore or retrieve buckets
from the cloud that are not
present on the cache.
Cache hit successful Bucket found on the cache
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10. Equal size => Cache: 20 GiB = Files: 20 GiB
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uStorage architecture

11. 4x size => Cache: 5 GiB < Files: 20 GiB
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uStorage architecture

12. 12
4xsize=>Cache:5GiB<
Files:20GiB
63K
23K
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13. 2 - FAIR RDM system. 2016/2017
● Problem
○ Inadequate RDM solution for NGS data
○ Individual storage and backup
○ Files and metadata decoupled
○ No exchange (meta)data
○ Not FAIR (Findable, Accessible, Interoperable, Reusable)
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14. 14
FAIR RDM system
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15. 15
FAIR RDM system
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16. FAIR RDM system
● FAIR - Findable, Accessible, Interoperable, and Reusable
● Distributed and Scalable
● Easy to use
● Manageable by the research organization
○ Security
○ Privacy of (meta)data (different access to different users and groups)
○ Variety of user roles (PI, Data steward, researcher, administrator)
○ Variety of data type (e.g.Next Generation Sequence, Metabolomics)
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17. 17
FAIR RDM system
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18. 18
FAIR RDM system
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19. 19
FAIR RDM system
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20. 20
FAIR RDM system
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21. 21
STANDARD steps
STANDARD steps
SPECIFIC steps
FAIR RDM system

22. 22
STANDARD
SPECIFIC
STANDARD
HEAD

23. 3 - mc2
- My sCientific Cloud. 2012/2013
● Distributed and scalable environment for bioinformatic applications
○ CSGrid
● Availability through different eScience workflow environments
● Different processing models to deploy applications
○ Cluster MPI
○ Volunteer processing
○ MapReduce
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24. 24
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mc2
- My sCientific Cloud

25. 25
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mc2
- My sCientific Cloud

26. 26
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mc2
- My sCientific Cloud

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4 - Personal projects
https://felipeogutierrez.blogspot.com & https://github.com/felipegutierrez
#FileSystems#Storage

28. Scientific publications
● Gutierrez F.O. et al. uStorage - A Storage Architecture to Provide Block-Level Storage Through
Object-Based Storage. Service-Oriented and Cloud Computing Conference. ESOCC 2017.
Computer Science, Springer - https://doi.org/10.1007/978-3-319-67262-5_16
● Felipe Gutierrez, et al. - FAIR Sequencing Data Repository based on iRODS - 9th iRODS UGM
2017 - Netherlands - https://goo.gl/wtBwGS
● Olabarriaga, S; Gutierrez, F.O. et al. FAIR Next Generation Sequencing Data Repository based on
iRODS. BioSB 2017: Dutch Bioinformatics & Systems Biology - Netherlands.
● GUTIERREZ, F. O. et al. Support for bioinformatics applications through volunteer and scalable
computing frameworks. Second International Workshop on Parallelism in Bioinformatics, 2014,
Madri. https://doi.org/10.1109/CLUSTER.2014.6968780
● GUTIERREZ, F. O. et al. . Providing volunteer computing at the infrastructure level to support
e-science applications. VII Brazilian e-Science Workshop 2013, https://goo.gl/Wam9Ui
● GUTIERREZ, F. O. et al. Provisão de computação intensiva de dados para suporte a aplicações
científicas. II Escola Regional de Alto Desempenho, 2013, Salvador.
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29. Felipe Oliveira Gutierrez
felipe.o.gutierrez@gmail.com
February 1th, 2018