“The role of Bioinformatics in basic and
applied research”
Carla Oliveira
Expression Regulation in Cancer Group, IPATIMUP
...
Genomics Analysis of human genes
Epigenomics DNA and histone-protein modifications
Transcriptomics RNA expression
Proteomi...
Research question > Methodology > Platforms > Analysis
Cell/tissue
RNA
Protein
Metabolites
DNA
DATAGENERATION(Tb)
DATA
INT...
…this knowledge was expected to allow accurate classification
of phenotypes, early detection of disease, discrimination
am...
How to use OMICs information to address and study
specific genes and diseases?
1st Generate a relevant and appropriate sci...
Technology: Data Mining and Data Analysis
Knowledge
Data
DataData
Data
Data
Data
Data
Data
Question
+
Selection
Analysis
NGS&MICROARRAYDATAANALYSIS
Bioinf2Bio
miRNA
Microarrays
Expression
Microarrays
Tiling
Microarrays
RNAseq
NGS
Methylseq
NGS...
NGS&MICROARRAYDATAANALYSIS
Bioinf2Bio
www.frombioinformatics2biology.com
Silver Analysis
Gold Analysis
Platinum Analysis
B...
Bioinf2Bio Oportunidades
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Bioinf2Bio Oportunidades

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Sessão de Apresentação do Mestrado em Bioinformática e Biologia Computacional, dia 6 de Maio de 2014 às 16h30 no Anfiteatro da FFCUL

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Bioinf2Bio Oportunidades

  1. 1. “The role of Bioinformatics in basic and applied research” Carla Oliveira Expression Regulation in Cancer Group, IPATIMUP Medical Faculty of Porto University Porto, Portugal E-mail: carlaol@ipatimup.pt CEO Bioinf2Bio (www.frombioinformatics2biology.com) Sessão de Apresentação do Mestrado em Bioinformática e Biologia Computacional Faculdade de Ciências da Universidade de Lisboa Lisbon, Portugal May 6th, 2014 Invitation by: Francisco Couto
  2. 2. Genomics Analysis of human genes Epigenomics DNA and histone-protein modifications Transcriptomics RNA expression Proteomics Protein expression and modifications Metabolomics Low molecular weight substances Toxicomics Toxic substance Cellomics Characteristics and functions of living cells Ex: ArrayCGH, targeted DNAseq, ExomeSeq, WGS Ex: miRNA microarray & RNAseq Bioinformatics biological data storing, retrieving, organizing and analysis What are OMICs? Ex: MethylSeq, ChipSeq
  3. 3. Research question > Methodology > Platforms > Analysis Cell/tissue RNA Protein Metabolites DNA DATAGENERATION(Tb) DATA INTEGRATION Interpretation VALIDATION Integrative Approach Methodology Metabolomics Proteomics Transcriptomics Genomics Bioinformatics (Statistics, Pathway Analysis Tools...) From questions to knowledge
  4. 4. …this knowledge was expected to allow accurate classification of phenotypes, early detection of disease, discrimination among disease sub-types, prediction of clinical outcomes, characterization of disease progression, and personalize therapeutic approaches. But… “For every complex problem there is an answer that is clear, simple, and wrong.” H. L. Mencken From a health perspective...
  5. 5. How to use OMICs information to address and study specific genes and diseases? 1st Generate a relevant and appropriate scientific question or clinical problem 2nd Study and select the best OMICs strategy 3rd Find the right partners (omics and bioinformatics analysis) 4th Set up reliable bioinformatics analysis and wet lab validation 5th Go back to your original scientific question or clinical problem and fight against fascination OMICs in practice
  6. 6. Technology: Data Mining and Data Analysis Knowledge Data DataData Data Data Data Data Data Question + Selection Analysis
  7. 7. NGS&MICROARRAYDATAANALYSIS Bioinf2Bio miRNA Microarrays Expression Microarrays Tiling Microarrays RNAseq NGS Methylseq NGS DNAseq NGS Cadherin intronic transcription during mouse embryogenesis (in preparation) Transcriptome signatures during TGF-β-induced EMT and MET (in preparation) Novel and rare CDH1 intronic variants: relevance for HDGC (in preparation) Data mining ERiC Bioinf2Bio techniques Mistranslation in/and Cancer (under analysis) Gastric Cancer Genome & Transcriptome alterations (sequencing ongoing @ BGI)
  8. 8. NGS&MICROARRAYDATAANALYSIS Bioinf2Bio www.frombioinformatics2biology.com Silver Analysis Gold Analysis Platinum Analysis Bronze Analysis

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