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Opiniones y comentarios de aprendices correspondientes a Plant Bioinformatics por parte de Universidad de Toronto

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The past 15 years have been exciting ones in plant biology. Hundreds of plant genomes have been sequenced, RNA-seq has enabled transcriptome-wide expression profiling, and a proliferation of "-seq"-based methods has permitted protein-protein and protein-DNA interactions to be determined cheaply and in a high-throughput manner. These data sets in turn allow us to generate hypotheses at the click of a mouse. For instance, knowing where and when a gene is expressed can help us narrow down the phenotypic search space when we don't see a phenotype in a gene mutant under "normal" growth conditions. Coexpression analyses and association networks can provide high-quality candidate genes involved in a biological process of interest. Using Gene Ontology enrichment analysis and pathway visualization tools can help us make sense of our own 'omics experiments and answer the question "what processes/pathways are being perturbed in our mutant of interest?" Structure: each of the 6 week hands-on modules consists of a ~2 minute intro, a ~20 minute theory mini-lecture, a 1.5 hour hands-on lab, an optional ~20 minute lab discussion if experiencing difficulties with lab, and a ~2 minute summary. Tools covered [Material updated in June 2022]: Module 1: GENOMIC DBs / PRECOMPUTED GENE TREES / PROTEIN TOOLS. Araport, TAIR, Gramene, EnsemblPlants Compara, PLAZA; SUBA4 and Cell eFP Browser, 1001 Genomes Browser Module 2: EXPRESSION TOOLS. eFP Browser / eFP-Seq Browser, Araport, Genevestigator, TravaDB, NCBI Genome Data Viewer for exploring RNA-seq data for many plant species, MPSS database for small RNAs Module 3: COEXPRESSION TOOLS. ATTED II, Expression Angler, AraNet, AtCAST2 Module 4: PROMOTER ANALYSIS. Cistome, MEME, ePlant Module 5: GO ENRICHMENT ANALYSIS AND PATHWAY VIZUALIZATION. AgriGO, AmiGO, Classification SuperViewer, TAIR, g:profiler, AraCyc, MapMan (optional: Plant Reactome) Module 6: NETWORK EXPLORATION. Arabidopsis Interactions Viewer 2, ePlant, TF2Network, Virtual Plant, GeneMANIA...

Principales reseñas


14 de sep. de 2022

That was so insightful and learning course about plants bioinformatic out of basic methods.

Also help in working project to give meaningful answers with validation


5 de may. de 2020

In- depth learning of the various tools and softwares available to study plant bioinformatics. Guidance of the author through the labs is insightful and informative.

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por Ahmad H K

5 de jul. de 2020


10 de mar. de 2019

por Fabrício d A S

8 de nov. de 2019

por Rubylyn M I

9 de dic. de 2020

por Nitisha N G

16 de abr. de 2021

por Danny W

30 de ene. de 2019

por Alvaro L

4 de jul. de 2019

por Glenn N

25 de feb. de 2020


3 de ago. de 2020


6 de may. de 2020

por Sufiyan

15 de sep. de 2022

por Lerry D P S

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por Fer B

20 de sep. de 2021

por Hewan D

20 de may. de 2020

por Lucas A C

31 de jul. de 2020

por Raghavendra G

31 de jul. de 2020

por Suhasini M

2 de nov. de 2021

por Syeda S W

8 de nov. de 2020


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por Namrah A

5 de sep. de 2022

por Dr. D D

27 de sep. de 2020

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13 de jul. de 2020

por Jude C F

31 de mar. de 2021

por Danilo F S

17 de feb. de 2021

por Fariha T

2 de jul. de 2020