Bioinformatics Tutorials
2 postsPlain-language explainers on the file formats, workflows, and concepts behind sequencing analysis — written for biologists.
How to Download Raw Sequencing Data (FASTQ) from a GEO Dataset
GEO stores processed data — the raw FASTQ reads live in SRA/ENA. This guide explains the GSE → SRA → ENA → FASTQ chain, why the RAW.tar rarely holds reads, and the one-hop shortcut to raw sequencing data for any GEO series (no sra-tools needed).
Read more →From FASTQ to Results: The File Formats Behind Every Sequencing Analysis
Running the command was never the hard part — knowing what flows through the pipeline is. A biologist’s field guide to FASTQ, BAM/CRAM, VCF, GTF/GFF, BED, count matrices and single-cell formats: what each file holds, where it comes from, and where it goes next.
Read more →Tool Guides
3 postsHow to get the most out of the free BioTransfer tools.
Gene → Disease → Drug: Explore Open Targets Without the Platform Overhead
Which drugs hit my gene? What are the top druggable genes for my disease? Which drugs target this pathway? A free, honest layer over the Open Targets Platform answers each in one search — gene, disease, or signalling pathway — with every row linked back to the source. No login.
Read more →Searching NCBI GEO Without Losing an Afternoon — Ranked Results & Direct Download Links
GEO's native search returns thousands of poorly-ranked, duplicate-heavy hits and buries download links in FTP folders. The free GEO Dataset Finder ranks datasets by relevance, groups SuperSeries clutter, and surfaces direct NCBI download links — including per-sample files. No login.
Read more →Design qPCR Primers in Seconds — Free, Exon-Junction-Aware, UCSC-Verified
Type a gene name, get validated qPCR primers instantly — Primer3-designed over RefSeq mRNA, exon-junction-spanning, with one-click UCSC In-Silico PCR verification. Free, human & mouse, now inside ChatGPT and Claude too.
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