How to Read a Peptide COA: HPLC, Mass Spec, Endotoxin
[Quality · How-to]

How to Read a Peptide Certificate of Analysis (COA)

HPLC purity · Mass spec identity · Endotoxin and sterility · Red flags

Published · By Ethen Amezquita

Short answer: A peptide COA usually answers two questions: is this the right molecule (mass spectrometry), and how much of what is in the vial is that molecule versus other peptide-like impurities (HPLC purity, as a percent of peak area). Neither tells you the vial is sterile or low in endotoxin, and HPLC purity is not the same as how many milligrams of peptide you actually have. For injectables, look for a batch number that matches your vial, the testing lab's name, the actual chromatogram and mass spectrum, and separate endotoxin and sterility results. In its 2026 reviews, FDA said public COAs for TB-500 lacked tests for impurities, aggregates, microbial quality and endotoxin.

Online, a certificate of analysis (COA) is often treated as proof that a peptide is "pharmaceutical grade." It is not. A COA is a test report: useful when it is real and complete, and easy to misread or fake when it is not. This guide explains each section in plain words and shows what FDA says is usually missing. It does not recommend any seller or lab.

What a COA is supposed to be

A COA is a document from a testing lab that lists tests run on one specific batch (lot) of a product, the method used, the acceptance limit and the result. In regulated settings it matters: FDA's rules for pharmacy compounding under section 503A say bulk ingredients "must be accompanied by a valid certificate of analysis" and come from an FDA-registered establishment. For a product sold as "research use only," no one checks the COA but you. See what that label means.

Header: who, what and which batch

  • Product name and form. FDA's 2026 reviews stressed that a peptide's free base and its acetate salt are different ingredients, and that nominations often did not say which one they meant. A good COA says which.
  • Lot or batch number. It should match the number on your vial. A COA without a lot number cannot be tied to your product.
  • Testing lab and date. A named lab, an address and a test date. A COA from the seller itself is weaker than one from an independent lab you can contact.
  • Signature or approval. Someone responsible for the result.

HPLC purity: what the percent means

High-performance liquid chromatography (HPLC) pushes a dissolved sample through a column. Different molecules come out at different times and show up as peaks on a chart called a chromatogram. "Purity 99%" usually means the main peak makes up 99% of the total peak area seen by the detector.

What that does tell you: among the things the method can see, most is one compound.

What it does not tell you:

  • That the main peak is the right peptide. HPLC alone separates, it does not identify. That is what mass spec is for.
  • How much peptide is in the vial. Purity is a ratio of peaks, not a weight. A vial can be "99% pure" and still hold less peptide than the label says.
  • Things the detector cannot see. Water, salts and counter-ions (such as acetate or trifluoroacetate left from synthesis) usually do not show up as peptide peaks.
  • Which impurities are there. Synthetic peptides can carry closely related impurities: missing or extra amino acids, breakdown products and aggregates. FDA's 2026 briefing documents list these as critical quality attributes for injectable peptides because they can raise the risk of immune reactions.

For a sense of how strict regulated standards are: in FDA's guidance for generic synthetic peptides (such as generic teriparatide or liraglutide), FDA staff explain that any new impurity above 0.5% is not acceptable, and new impurities between 0.10% and 0.5% must be identified, characterized and justified, including for immune risk. A research COA reporting "98% purity" with no breakdown of the other 2% gives you none of that information.

Look for: the actual chromatogram (not just a number), the main peak's retention time, the method (column, wavelength), and whether impurity peaks are listed.

Mass spectrometry: is it the right molecule?

Mass spectrometry (MS) measures the mass of molecules. For identity, the COA should list the expected mass for the peptide's sequence and the observed mass, and they should match within the method's accuracy. Peptides often show several peaks for the same molecule carrying different charges; a real spectrum will show them.

What MS does not tell you: how much of the sample is that molecule, or whether it is sterile. And a matching mass cannot always tell apart two peptides with the same atoms arranged differently.

Look for: the spectrum itself, expected vs observed values, and the instrument type. "Identity: conforms" with no data is not evidence.

Peptide content vs purity

Some COAs list "net peptide content" or an assay result. This estimates what share of the powder's weight is actually peptide, after accounting for water, salts and counter-ions. It answers the question purity does not: if the vial says 5 mg, is there about 5 mg of peptide? If a COA lists only HPLC purity, you do not know the answer. That matters for your math, because the concentration you calculate when you reconstitute assumes the label amount is right.

Endotoxin: the test most research COAs skip

Endotoxins are fragments of bacterial cell walls. In an injection they can cause fever, which is why FDA groups endotoxin and pyrogen testing together. The standard test is the bacterial endotoxins test in USP chapter <85>, which uses a reagent from horseshoe crab blood (Limulus amebocyte lysate, LAL) or a recombinant version. FDA has accepted LAL testing in place of the older rabbit fever test for decades.

Results are reported in endotoxin units (EU), often per milligram or per milliliter. A number on its own means little. FDA's endotoxin guidance says the right limit for an injectable is calculated with the methods in USP <85>, based on dose and route, rather than taken from an old table. For a peptide with no approved product, no official limit exists. So check that the COA states the limit it tested against, and how it was set.

FDA's 2026 reviews flagged this gap directly. For TB-500, FDA wrote that specific tests "such as tests for impurities, aggregates, microbiological quality, and bacterial endotoxin" were not available in the public domain or in the COAs it reviewed. For BPC-157, it listed microbial quality (bioburden, bacterial endotoxins) among the data that were "lacking or deemed to be inadequate."

Sterility

Endotoxin and sterility are different. Sterility testing checks for living microorganisms, while the endotoxin test looks for bacterial debris. A lyophilized powder sold for "research" may never have been made or tested as a sterile product. If the COA has no sterility result, assume it was not tested.

Red flags

  • No lot number, or a lot number that does not match the vial.
  • No lab name, or a lab you cannot find or contact.
  • A single "purity" number with no chromatogram.
  • "Identity: conforms" with no mass spectrum or numbers.
  • The same COA used for many products or many batches.
  • No endotoxin or sterility result for a product meant to be injected.
  • Free base vs acetate not stated.

What a good COA still cannot do

Even a complete, honest COA describes the batch on the day it was tested. It cannot tell you how the vial was stored or shipped since, or whether your vial is from that batch. Once you mix it, stability depends on the product and the diluent; see how long reconstituted peptides last and bacteriostatic vs sterile water.

Keep the paper trail

Save the COA, a photo of the vial label and its lot number. In Dose Track you can attach each vial to its compound, note its source and lot, log its reconstitution, and see every dose drawn from it. If a batch ever seems off, you will know exactly which doses came from it. For multi-peptide routines, see how to track a peptide stack.


Frequently asked questions

What does 99% HPLC purity mean on a peptide?+
It usually means the main peak is 99% of the total peak area the HPLC detector saw. It does not prove the peak is the right peptide (that needs mass spec), does not tell you how many milligrams are in the vial, and does not cover water, salts, endotoxin or sterility.
What is the difference between peptide purity and peptide content?+
Purity compares the target peptide to other peptide-like impurities. Net peptide content estimates how much of the powder's weight is peptide at all, after water, salts and counter-ions. A vial can be high purity but lower content than the label suggests.
What does mass spec show on a COA?+
Identity. It compares the expected molecular mass of the peptide sequence with the observed mass. A real COA shows the spectrum and both numbers.
Do research peptide COAs include endotoxin testing?+
Often not. FDA's July 2026 review of TB-500 said tests for impurities, aggregates, microbiological quality and bacterial endotoxin were not available in public COAs. Endotoxin testing follows USP chapter <85>, and the limit for an injectable is calculated from dose and route.
Is a COA proof that a peptide is safe?+
No. It is a test report for one batch on one date. It does not show sterility unless sterility was tested, does not show how the product was stored since, and for research-labeled products no regulator checks it.

Sources

Every number in this article comes from one of these sources, checked on October 22, 2026. This article is for education. It is not medical or legal advice, and nothing here is a dose recommendation.

  1. U.S. Food and Drug Administration. Bulk Drug Substances Used in Compounding Under Section 503A of the FD&C Act. fda.gov
  2. U.S. Food and Drug Administration. FDA Briefing Document: TB-500-related bulk drug substances. PCAC, July 23-24, 2026. fda.gov/media/193349/download
  3. U.S. Food and Drug Administration. FDA Briefing Document: BPC-157-related bulk drug substances. PCAC, July 23-24, 2026. fda.gov/media/193343/download
  4. U.S. Food and Drug Administration. FDA presentations, PCAC July 23, 2026 (conflated bulks and common-name challenges). fda.gov/media/193773/download
  5. Pang E (FDA Office of Generic Drugs). Assessing immunogenicity risk of peptides: the synthetic peptide guidance and PSGs. SBIA workshop slides. fda.gov/media/166571/download
  6. U.S. Food and Drug Administration. Guidance for Industry: Pyrogen and Endotoxins Testing: Questions and Answers. fda.gov/media/83477/download