A PCR template that adapts to your lab's targets.
This PCR template ships with a 10-step protocol covering primer design through gel verification, validated polymerase references, pre-wired cycling fields, and structured inputs for template DNA source, primer pair, annealing temperature, extension time, expected product size, and gel result. Your lab edits the configuration to match the target you actually amplify, instead of rewriting the reaction scaffold every time.
See exactly how the template loads in ELabELN.
This is the live ELabELN experiment view, the same screen your lab works in every day. Switch between a blank start and a fully populated example, then expand any section to see what the template pre-fills.
What this PCR template ships with.
This PCR template ships configured for endpoint amplification of a 498 bp GAPDH fragment from human genomic DNA, with a 10-step protocol covering primer working-stock prep through agarose gel verification. The protocol assumes Q5 High-Fidelity polymerase in a 25 µL reaction, an annealing temperature of 58°C derived from primer Tm calculations, 30 cycles with a 72°C extension, and 1% agarose gel imaging at 100 V for 35 minutes with SYBR Safe stain.
Structured fields capture template, reaction, and cycling metadata in typed inputs (template DNA source, input mass, primer pair identity, primer Tm, annealing temperature, polymerase, extension time, cycle count, expected product size, gel result), so reaction parameters are queryable across amplifications instead of buried in free text. Primers, polymerase, and dNTP mix link to the ELabELN inventory so lot numbers and primer-design references flow into the experiment record without manual entry. The spreadsheet editor captures per-lane gel results (sample, expected size, observed band, intensity) for cross-reaction comparison.
The template is intended as a tested baseline for academic and life sciences research labs running endpoint PCR for cloning, sequencing prep, genotyping, colony screening, or RT-PCR. Configure the primer pair, swap the polymerase, adjust the annealing temperature, change the cycle count, or move from genomic DNA to cDNA template by editing the reaction section. ELabELN's tamper-evident audit trail captures every primer-pair choice, every cycling change, and every gel image, so the resulting record supports reproducibility documentation, multi-PI collaboration, and FDA 21 CFR Part 11 review when the lab's quality system requires it.
Every ELN section, pre-populated for PCR.
The template populates the existing ELabELN sections your lab already works with: Main Text, Extra Fields, Steps, Compounds, Links, and more. Your team edits instead of building from scratch.
Main Text
Reaction summary, primer notes, and expected product size, written in the TinyMCE editor.
- Objective + reaction scaffold
- Primer pair + Tm notes
- Linked to template prep
Extra Fields
Eleven structured, typed fields grouped by Template, Reaction, and Cycling.
- Source, input mass, primers
- Polymerase, Ta, extension time
- Queryable across runs
Steps
Ten-step workflow checklist covering primer prep through gel verification.
- Prep, mix, cycle, gel
- Each tick timestamped
- Thermocycler run auto-logged
Compounds
Forward + reverse primers, Q5 polymerase, dNTP mix, gel reagents pre-linked from the compound database.
- Lot numbers carried automatically
- Primer designs inline
- Low-stock warnings before run
Links & Resources
Pre-wired to your lab's PCR SOP, primer database entries, and gel imaging protocol.
- PCR Standard SOP v2.1
- GAPDH primer DB entry
- Gel imaging SOP linked
Storage & Files
Primer stock storage, polymerase aliquot tracking, and gel image attachments.
- -20 °C primer storage pre-filled
- Attachment slots labelled
- TIF + PDF ready on save
Use this template for your next PCR run.
Edit the configuration to match your primer pair and target, run the reaction from a tested baseline, and capture every gel band in a structured record. Browse other templates built for the workflows real labs actually use.
Common questions
Can I configure the template for my primers and target?
Yes. Every section is editable. Swap in any primer pair (custom or catalog), change the template DNA source (genomic, cDNA, plasmid), adjust the annealing temperature based on your primer Tm, change the polymerase (Q5, Phusion, Taq, KAPA HiFi), or move from standard PCR to colony PCR, touchdown PCR, or nested PCR by editing the cycling section. Save your edits as a private template scoped to your lab, or publish back to the ELabELN template library.
How does the template differ from the qPCR template?
This template covers endpoint PCR for amplification and gel verification (cloning prep, colony screening, sequencing prep). The qPCR template covers real-time quantitative PCR with cycle-threshold readings and fold-change analysis. Both share the underlying reaction setup pattern but diverge on readout: gel image versus amplification curves.
Does the template handle gel verification?
Yes. The spreadsheet editor captures per-lane results (expected size, observed band, intensity) and the Attached Files section has a labeled slot for the gel image (TIF or PNG). Pair this with the standard ladder reference in your gel imaging SOP for a complete reaction-to-verification record.
Is it included in every ELabELN plan?
Yes. Every published template in the ELabELN library is available to all ELabELN subscribers, with unlimited users.
Can my whole lab use this template?
Yes. ELabELN includes unlimited users, so the PI, postdocs, grad students, rotating researchers, and visiting collaborators can all use the template without per-seat charges. Granular permissions let the PI control who can edit PCR runs versus only review them.
How quickly can my lab start running PCR in ELabELN?
ELabELN Standard cloud deployment is typically live in 1-2 days. Once the instance is provisioned, this template loads from the library in a single click, with the primers, polymerase, and cycling parameters editable to match the reactions your lab actually runs.