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Educational guide | |||||||||||||||||||||||||||||||||||||||
IDENTIFYING DATA | 2024_25 | |||||||||||||||||||||||||||||||||||||||
Subject | TRANSCRIPTOMICS AND FUNCTIONAL ANALYSIS | Code | 01745012 | |||||||||||||||||||||||||||||||||||||
Study programme |
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Descriptors | Credit. | Type | Year | Period | ||||||||||||||||||||||||||||||||||||
3 | Optional | First | Second |
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Language |
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Prerequisites | ||||||||||||||||||||||||||||||||||||||||
Department | PRODUCCION ANIMAL |
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Coordinador |
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asuav@unileon.es bgutg@unileon.es mmarm@unileon.es arodg@unileon.es jgutg@unileon.es |
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Lecturers |
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Web | http:// | |||||||||||||||||||||||||||||||||||||||
General description | ||||||||||||||||||||||||||||||||||||||||
Tribunales de Revisión |
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Competencies |
Type A | Code | Competences Specific |
A18951 | ||
A18952 | ||
A18954 | ||
A18955 | ||
Type B | Code | Competences Transversal |
B5753 | ||
B5754 | ||
B5755 | ||
B5756 | ||
B5757 | ||
B5758 | ||
B5759 | ||
B5760 | ||
B5761 | ||
B5762 | ||
B5763 | ||
B5764 | ||
B5765 | ||
B5766 | ||
B5767 | ||
B5768 | ||
Type C | Code | Competences Nuclear |
C1 | ||
C2 | ||
C3 | ||
C4 | ||
C5 |
Learning aims |
Competences | |||
Perform and interpret differential gene expression analysis and identification of novel transcripts, including long non-coding transcripts, from massively parallel RNA sequencing (RNA-Seq) data. | A18951 A18952 A18954 A18955 |
B5754 B5757 B5758 B5759 B5760 B5761 B5764 B5766 B5767 B5768 |
C1 C2 C4 C5 |
Understand the theory of how functional enrichment tools produce statistically enriched functions or interactions. | A18952 A18954 |
B5753 B5755 B5757 B5758 B5761 B5764 B5766 B5767 |
C2 C3 C4 C5 |
Development of bioinformatics skills through the use of various programming languages. | A18951 A18954 A18955 |
B5754 B5755 B5758 B5761 B5763 B5766 B5767 |
C2 C4 C5 |
To acquire a deeper understanding of the biological and molecular basis of complex traits of interest in various organisms by performing and interpreting functional analyses. | A18951 A18954 |
B5754 B5755 B5756 B5758 B5762 B5764 B5765 B5766 B5767 |
C2 C3 C5 |
Contents |
Topic | Sub-topic |
I. Introduction | Topic 1. Introduction to transcriptomics Topic 2. Basic aspects for the design of an experiment and applications of RNA-Seq methodology. Topic 3. Introduction to programming languages: Linux and R environment. |
II. RNA-Seq bioinformatic workflow | Topic 4. RNA-Seq Data Quality Control Topic 5. Mapping RNA-Seq data against the reference genome Topic 6. Sequence manipulation and visualisation with IGV Topic 7: RNA-Seq data assembly, types and applications Topic 8: Quantification and differential expression analysis. Topic 9: Time series analysis. Detection and annotation of mRNA and pRNA transcripts in prokaryotes: dRNA-seq, Term-seq. |
III. Functional analyses and Systems biology | Topic 10: Principles of functional annotation, databases and functional enrichment analysis Topic 11: Functional Genomics and CRISPR/Cas9 Systems Topic 12: Meta-analysis and Introduction to Systems Biology |
Planning |
Methodologies :: Tests | |||||||||
Class hours | Hours outside the classroom | Total hours | |||||||
Practicals using information and communication technologies (ICTs) in computer rooms | 19 | 28.5 | 47.5 | ||||||
Personal tuition | 3 | 4.5 | 7.5 | ||||||
Lecture | 8 | 12 | 20 | ||||||
Practical tests | 0 | 0 | 0 | ||||||
(*)The information in the planning table is for guidance only and does not take into account the heterogeneity of the students. |
Methodologies |
Description | |
Practicals using information and communication technologies (ICTs) in computer rooms | Presential practical sessions. Experimental trials, problems or computer simulations. Students will carry out or follow an experimental protocol following good laboratory practice, the guide to good practice in the handling of experimental animals and/or genetically manipulated microorganisms. In these sessions, the results obtained will be discussed by the students and the lecturer, analysing their importance and interest. |
Personal tuition | Personalised assistance to the student. The student will be guided in self-learning activities. Analysis of relevant scientific articles on current topics related to the subject. - Preparation of written reports, oral presentations or seminars on experimental or bibliographical work. - Carrying out autonomous tasks online or in a computer classroom. Students will be able to attend during the lecturers' tutorial timetables. It is recommended to make an appointment by e-mail with the teacher. Tutorships may be held by email in case of impossibility of face-to-face tutoring. |
Lecture | Presentation or discussion of the contents of the subject. |
Personalized attention |
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Assessment |
Description | Qualification | ||
Practicals using information and communication technologies (ICTs) in computer rooms | Attendance at laboratory practicals (attendance and active participation in all training activities). 20% of the final grade Submission of the practical report. 30% of the final grade |
50 | |
Others | Assessment of the use of bioinformatics bioinformatics tools related to and capacity to interpret and discuss the results 50% of the final grade |
50 | |
Other comments and second call | |||
Those tests not passed in the continuous assessment must be passed in the second ordinary exam. Final exam of the subject. The grading system will be in accordance with the stipulations of RD 1125/2003. Maximum weighting 70%. |
Sources of information |
Access to Recommended Bibliography in the Catalog ULE |
Basic |
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Complementary | |
Recommendations |