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Achievement: QuickdrawAchievement: Pull Sharkx2Achievement: YOLO

Achievements

Achievement: QuickdrawAchievement: Pull Sharkx2Achievement: YOLO

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AimerGDiaz/README.md

Short Bio

I am a Biologist and M.Sc. Bioinformatics from the Universidad Nacional de Colombia. Currently I am a PhD student at the Department of Plant Biology at SLU, working in Dr. Hafrén’s lab on in Plant-Virus Molecular interactions. My Ph.D. research focuses on how plant viruses manipulate Arabidopsis thaliana’s post-transcriptional regulatory mechanisms, including RNA interference machinery, Stress granules, and Translational regulation.

Content

  1. Research experience & Publications
  2. SLU Teaching Courses
  3. Bioinformatic Tools
  4. Interactive PhD Thesis
  5. BioArt Gallery
  6. News Coverage

Scientific Outreach

Science communication blog:

Bio-Viroloía logo

Public Research Repositories

  • ComparativeTranscriptomics_SA_ATGs — Comparative analysis of salicylic acid and autophagy gene responses to viral infection using published RNA-seq data.
  • P25_ViralTF — Research on the BNYVV P25 protein as a chromatin-associated transcriptional repressor.
  • ProteinStructure — Structural analysis workflows for CaMV P6 complexes predicted with AlphaFold 3 and Protenix.
  • RdRpStructuralEvolution — RdRp structures and transcriptomics supporting research on RNA silencing, plant fertility, and Turnip rosette virus transmission.
  • TpUGT89B1_Docking — Structural modeling and protein–ligand docking of red clover TpUGT89B1.

Tools and workflows

  • Codes_Repository — A collection of Bash, AWK, Perl, and R code.

  • NBlockTester — A Perl tool for detecting miRNA-like fragments derived from small noncoding RNAs in small RNA-seq data.

  • Proend (fork) — HbYX motif prediction across organisms and viruses.

  • proend-scripts (fork) — Scripts for identifying HbYX motif-containing protein sequences in FASTA files.

  • RNAseq-workflow (fork) — Resources for setting up an RNA-seq workflow.

Teaching and learning

  • Hands_On_Machine_LeaRning

  • Sociovirology_Lab — A laboratory exercise on viral genetics and plant growth–defense trade-offs in the Nicotiana benthamiana / Turnip mosaic virus system.

  • LaTeX_Course (fork) — Introductory LaTeX course materials, templates, examples, and exercises in Spanish.

Additional repositories

Pinned Loading

  1. NBlockTester NBlockTester Public

    Bioinformatic tool in Perl for detection of miRNA-like small ncRNA-derived fragments using small RNA-seq data.

    Perl

  2. drTakuOmics/proend-scripts drTakuOmics/proend-scripts Public

    Scripts used to retrive the HbYX proteins from repositories.

    Shell 3 1

  3. ComparativeTranscriptomics_SA_ATGs ComparativeTranscriptomics_SA_ATGs Public template

    Comparative transcriptomic analyses of Salicylic acid related genes and autophagy (ATG) gene responses to various viruses using published RNAseq data

    R

  4. P25_ViralTF P25_ViralTF Public

    BNYVV P25 protein functions as a chromatin‑associated transcriptional repressor that preferentially binds distal promoter regions

    Shell

  5. ProteinStructure ProteinStructure Public

    Reproducible structural-analysis workflows for CaMV P6 complexes predicted with AlphaFold 3 and Protenix, including scripts for extracting PAE, PDE, pLDDT and contact-probability metrics and genera…

    Python

  6. RdRpStructuralEvolution RdRpStructuralEvolution Public

    RdRp Protein structures and Transcriptomics used in research paper "RNA silencing safeguards plant fertility during viral infection and decreases Turnip rosette virus vertical transmission"

    C++