I've compiled some useful resources for student researchers below:
WormBase (soon transitioning to the Alliance of Genome Resources): comprehensive database of C. elegans biology
WormBook: open-access collection of peer-reviewed chapters on C. elegans biology
WormAtlas: detailed anatomical database of C. elegans
Caenorhabditis Genetics Center (CGC): repository and distribution center for C. elegans strains
Gene Name Sanitizer: tool for verifying official C. elegans nomenclature
A Plasmid Editor (ApE): tool for visualizing, editing, and annotating DNA sequences
CHOPCHOP: single guide RNA (sgRNA) design tool for CRISPR/Cas9 genome editing
Goldstein Lab CRISPR protocols: protocols for performing CRISPR/Cas9 genome editing in C. elegans using the self-excising cassette (SEC) selection method
Primer-BLAST: tool for designing primers while checking for specificity using BLAST (Basic Local Alignment Search Tool)
NEB Tm Calculator: tool to calculate the melting temperatures (Tm) and annealing temperatures of primers for PCR
NEBcloner Restriction Enzyme Tool: identifies compatible restriction enzymes for digestion
WormBuilder Transgene Adapter: optimizes coding sequences for C. elegans expression
Codon Usage Frequency Table: lookup table for codon usage bias
Gene Ontology (GO): categorizes gene functions for enrichment analysis
ChIP Atlas: chromatin immunoprecipitation sequencing (ChIP-seq) data for exploring transcription factor binding
UniProt: annotated protein database with sequences, functions, and domains
GeneMANIA: predicts gene interactions
AlphaFold Server: predicts protein structures and interactions using deep learning
ChimeraX: tool for visualizing and analyzing 3D molecular structures
Ensembl BioMart: genomic data mining tool
FPbase: database comparing fluorescent proteins by spectral properties, brightness, photostability, and more
FIJI/ImageJ: open-source image processing software that includes plugins for scientific image analysis (a web-based version is also available)
SuperPlotsOfData and PlotTwist: web apps for visualizing discrete and continuous data, respectively
GraphPad QuickCalcs: online set of calculators for common statistical tests
R and RStudio: programming environment to perform data analysis and visualization
R for Data Science: beginner-friendly guide to R (including ggplot2)
VizPalette: generates colorblind-accessible palettes for figures
Exon-Intron Graphic Maker: creates visuals of gene structures
PhyloPic: provides organism silhouettes for use in scientific figures