Resources
Useful links for research
- KEGG: Metabolic pathways & genes
- BRENDA: Enzyme database
- NCBI: National Center for Biotechnology Information – BLAST, Pubmed, Genbank, and more!
- EcoCyc: Encyclopedia of E. coli genes and metabolism
- Phobius: A combined transmembrane topology and signal peptide predictor
- MIBiG: Minimum Information about a Biosynthetic Gene cluster
- antiSMASH: Prediction of BGCs from genomic information
- UniProt: protein information repository
- PDB: protein structure-related information repository
- Protocol Exchange: an NPG preprint repository where new protocols are published
- STAR Protocols: a Cell Press repository where new protocols are published
- AlphaFold Protein Structure Database
- BaseBuddy: a codon optimization tool developed from Jay Keasling’s lab
- KBase: a web-based platform for data analysis, sharing & publication (e.g., genome assembly, metabolic modelling, comparative genomics)
Useful links for paper writing
- CAS Source Index (CASSI): Journal abbreviations
- Quillbot: AI-based paraphrasing tool
- Biorender: Bio-related figure components (raster files)
- Inkscape: Open-source figure drawing SW (vector files) – see tutorial
- GIMP: Open-source figure drawing SW (raster images)
- Blender: Open-source 3D figure drawing SW
- Lightworks / DaVinci Resolve: video editing SW
- Tutorial for Adobe Illustrator