Custom Peptide Synthesis

Order sequence-defined peptides with the purity, scale, modifications, and analytical characterization you need—supported by peptide scientists and scalable pathways from research-grade to cGMP production.

SPPS (Fmoc)
Difficult peptides
Labels & modifications
HPLC/MS QC
Research & cGMP

Looking for a general overview? See Peptide Synthesis Services.

Custom Peptide Synthesis Services

Bio-Synthesis, Inc. provides comprehensive custom peptide synthesis services for biomedical research, diagnostics, and therapeutic development. From simple linear peptides to complex, difficult-to-synthesize sequences, our scientists support projects across discovery, preclinical research, and regulated manufacturing pathways.

We synthesize peptides using established solid-phase peptide synthesis (SPPS) methodologies with flexible options for length, scale, purity, modifications, and analytical characterization. Each project is reviewed by experienced chemists to recommend a practical synthesis and QC strategy aligned with your application.

ISO 9001:2015 / ISO 13485:2016 45+ Years of Expertise U.S. Facilities – Texas Bench to Kilo Scale Production Confidential & IP-Protected
Research-Grade Peptides

Rapid turnaround peptides for discovery, screening, and assay development.

  • Crude, desalted, or purified peptides
  • Flexible purity targets (≥ 70% to ≥ 95%)
  • Standard HPLC and mass spectrometry QC

Explore standard research peptide custom synthesis →

Difficult & Complex Sequences

Strategic support for challenging peptides that require special handling.

  • Long peptides and aggregation-prone sequences
  • Hydrophobic and cysteine-rich peptides
  • Sequence risk assessment and mitigation

Explore difficult peptide synthesis →

Scale-Up & cGMP Pathways

Planning from milligram-scale research peptides to gram-scale and beyond.

  • Large-scale peptide synthesis
  • Enhanced documentation and QC options
  • Research-grade to cGMP manufacturing support

Learn about cGMP peptides →

In addition to individual sequences, Bio-Synthesis offers polyepitope peptide libraries, peptide arrays, and screening-ready panels, along with a wide range of terminal modifications, labels, and conjugation options. Share your sequence(s), target specifications, and application goals, and our team will recommend an efficient synthesis and QC approach.

Request a Quote Speak to a Scientist

What Is Custom Peptide Synthesis?

Custom peptide synthesis is the chemical production of peptides based on user-defined amino acid sequences, providing control over sequence, purity, scale, chemical modifications, and analytical testing. Most custom peptides are produced using solid-phase peptide synthesis (SPPS), a stepwise method in which amino acids are sequentially added while the growing peptide remains anchored to a solid resin support, enabling high sequence fidelity and compatibility with a wide range of modifications and labels.

Solid-phase peptide synthesis (SPPS) cycle showing deprotection, activation, and coupling

Solid-phase peptide synthesis (SPPS) cycle: deprotection → activation → coupling (repeat until sequence completion).

Specifications That Define Your Custom Peptide

Sequence & Length
  • Provide the amino acid sequence (1-letter codes preferred)
  • Indicate length, special residues, and any non-standard amino acids
  • Flag oxidation-prone residues or disulfide requirements when relevant
Purity Target
  • Choose purity based on application, not habit
  • Options commonly include crude/desalted or purified (e.g., ≥70%, ≥85%, ≥95%)
  • Higher purity typically requires prep HPLC and may reduce yield
Scale
  • Microgram to gram-scale quantities
  • Repeat synthesis and lot consistency options for assay development
  • Scalable planning for future expansion (including cGMP)
Modifications & Labels
  • N- and C-terminal modifications (acetylation, amidation, etc.)
  • Phosphorylation, cyclization, lipidation, PEGylation
  • Fluorophores, biotin, isotopes, and linkers

For a broader service map, see Peptide Synthesis Services.

Common Custom Peptide Modifications

Modifications can improve stability, enable detection, support conjugation, or mimic biological post-translational changes. Bio-Synthesis supports a wide range of modifications—each with appropriate synthesis planning and QC.

Termini
  • N-terminal acetylation
  • C-terminal amidation
  • Other terminal caps (application-dependent)
Labels
  • Fluorescent dyes
  • Biotin
  • Linkers (spacers) as needed
Structural
  • Phosphorylation
  • Cyclization (including disulfides)
  • Lipidation / PEGylation

Explore Peptide Modifications →

Polyepitope Libraries & Peptide Arrays

Beyond single-sequence orders, Bio-Synthesis supports polyepitope peptide libraries, peptide arrays, and multi-peptide sets for epitope mapping, immunology, assay development, and discovery workflows. Share the number of sequences, lengths, modifications, and purity/scale requirements and we’ll recommend a build strategy that balances speed, data quality, and cost.

Polyepitope libraries
  • Multiple epitopes in a coordinated set
  • Consistent specs across peptides
  • Designed for screening and validation

Example: overlapping epitope panels or SAR series.

Peptide arrays
  • High-throughput peptide presentation formats
  • Supports epitope mapping workflows
  • Optional labels/linkers depending on platform

Tell us your platform requirements and detection method.

Libraries & sets
  • Dozens to hundreds of sequences
  • Standardized QC reporting
  • Batching to optimize lead time

Best results when sequences share a common spec.

Polyepitope peptide library →
Peptide array services →

Large Scale Peptide Synthesis

For programs that require more material, Bio-Synthesis provides large scale peptide synthesis with specification-driven planning (sequence risk assessment, purification strategy, and analytical release testing). Large-scale projects benefit from early alignment on purity targets, salt/counter-ion preferences, and documentation needs.

When large scale makes sense
  • Expanded screening or in vivo studies
  • Method development and reference material
  • Preclinical and clinical supply planning
What we’ll confirm up front
  • Sequence complexity and synthetic risk
  • Purification approach (desalting vs prep HPLC)
  • Release analytics (HPLC/MS and add-ons)

Tip: Over-specifying purity can reduce yield and increase cost at scale. If you share the application, we’ll recommend the most practical target.

Large scale peptide synthesis →
Need cGMP? Explore cGMP peptide synthesis →

Difficult & Challenging Peptides

Some sequences are inherently difficult due to hydrophobicity, length, charge, or propensity to aggregate. These peptides may require alternative strategies and realistic expectations around yield and purity.

  • Hydrophobic or membrane-associated sequences
  • Long peptides (often >40–50 aa)
  • Cysteine-rich peptides and disulfide control
  • Aggregation-prone motifs
  • Highly charged peptides

Learn more about Difficult Peptide Synthesis →

Analytics & Quality Control

Analytical testing confirms identity and purity and should match your application (screening vs quantitative assays vs regulated work).

Standard Analytics
  • HPLC purity profiling
  • Mass spectrometry (MS) identity confirmation
  • Certificate of analysis (COA)
Optional Testing
  • Counter-ion analysis
  • Water content / hygroscopicity
  • Additional characterization upon request

Explore Peptide Analytics & QC →

Purity Guidance by Application

How much purity do you need? The right purity depends on your application. Higher purity can improve interpretability,
but it may increase cost and reduce yield—especially for difficult sequences.

Table: Practical purity guidance (typical ranges). Requirements vary by assay sensitivity and peptide properties.
Application Typical purity target Why
Early screening / exploratory assays Crude to ≥70% Speed and cost efficiency for iteration
ELISA / antibody generation (peptide antigens) ≥70% to ≥85% Improves specificity without unnecessary cost
Quantitative assays / binding studies ≥85% to ≥95% Reduces confounding peaks and improves reproducibility
Critical reference standards / regulated work ≥95% (application-dependent) Supports documentation and method validation

If you tell us your application, we’ll recommend a practical specification (purity, analytics, counter-ion) that matches your goals.

Research-Grade vs cGMP Custom Peptides

Research-Grade Peptides
  • Discovery and preclinical workflows
  • Standard COA with identity/purity analytics
  • Faster iteration for screening and optimization
cGMP Peptides
  • Controlled manufacturing systems
  • Enhanced documentation and traceability
  • Specifications aligned to regulated programs

Explore cGMP Peptide Synthesis →

Peptide Synthesis Workflow

A typical custom peptide project moves through consultation, synthesis, purification/QC, and delivery. Complex sequences or regulated requirements may add additional checks and documentation.

Bio-Synthesis peptide synthesis workflow: quote and consultation, synthesis, purification and QC, and delivery

Custom peptide synthesis workflow: quote & consultation → synthesis → purification & QC → delivery (lyophilized with COA).

How to Request a Quote

For the fastest quote, include the details below. If you’re unsure, provide your application and we’ll recommend a practical spec.

Include in your request
  • Sequence (1-letter codes) and any special residues
  • For libraries/arrays: number of sequences, length range, and any common modifications
  • Purity target and desired quantity (scale)
  • Modifications/labels (with position)
  • Intended application (screening, assay, antibody, regulated)
Helpful optional details
  • Solubility concerns (hydrophobicity, charge)
  • Disulfide requirements / cysteine pairing
  • Preferred counter-ion (if needed)
  • Any required documentation level
Request a Quote Contact a Scientist

FAQ

What purity do I need for my custom peptide?

Purity should match your application. Exploratory screening may not require high purity, while quantitative assays and regulated programs often do. Share your use case and we’ll recommend a practical specification.

Can you synthesize difficult peptides (hydrophobic, long, cysteine-rich)?

Yes. Difficult peptides often require tailored strategies and realistic expectations around yield and purity. See Difficult Peptide Synthesis.

What analytics are typically provided?

Common characterization includes HPLC purity profiling and mass spectrometry identity confirmation, with additional testing available upon request. See Analytics & QC.

Can peptides be scaled from research to cGMP?

Yes. Many sequences are produced at research scale and later transitioned to larger or cGMP-compliant production. Early consideration of sequence complexity, modifications, and purity targets helps ensure smooth scalability.

What is the typical lead time for custom peptide synthesis?

Lead time depends on sequence length/complexity, modifications, purity target, and scale. Provide your sequence and specs and we’ll confirm an estimated ship date with your quote.

How should I submit multiple sequences (libraries or epitope panels)?

List one sequence per line and include shared specs (purity, scale, termini, labels). For larger sets, include a spreadsheet or indicate the number of sequences and length range.

Can you synthesize peptides with disulfide bonds?

Yes. For cysteine-containing sequences, specify whether you need the reduced form or oxidized (disulfide) form and any pairing requirements. Additional folding/verification options may apply.

What counter-ion will my peptide be supplied with (TFA vs acetate)?

Peptides are commonly supplied as TFA salts after HPLC. Alternative counter-ions (e.g., acetate) can be requested depending on your downstream application.

How do I improve peptide solubility?

Solubility depends on sequence and counter-ion. We can advise on practical options such as salt form selection, pH, compatible solvents, and handling for hydrophobic or aggregation-prone peptides.

What is included in the Certificate of Analysis (COA)?

A typical COA includes identity confirmation (MS) and purity profiling (HPLC). Additional testing (e.g., water content, counter-ion analysis) can be added upon request.

How should peptides be stored after delivery?

Store lyophilized peptides sealed and dry, typically at -20°C or -80°C for long-term storage. Minimize freeze–thaw cycles by aliquoting after reconstitution.

Do you offer endotoxin-controlled or sterile options?

If your application requires low endotoxin or specific handling, tell us up front. We’ll recommend the appropriate production and QC options based on your use case.

What is the difference between peptide content and peptide purity?

Peptide content is not an indication of peptide purity; these are two measurements. Purity is determined by HPLC and indicates the presence/absence of contaminating peptides with undesired sequences. Net peptide content only gives information on the percent of total peptide versus total non-peptide components independently of the presence of multiple peptides. Net peptide content is accurately found by performing amino acid analysis or UV spectrophotometry. This information is important when calculating concentrations of peptide during sensitive experiments.

Can you conjugate peptide to other molecules?

Yes, we can conjugate peptide to oligonucleotide, small drug molecule, antibody and much more check out our Bioconjugation services

CONTACT

Speak to a Peptide Scientist

Share your sequence (or target region), intended application, purity/scale needs, and required modifications. We’ll recommend practical specifications and provide a quote.

Tip: If the peptide is hydrophobic/long/cysteine-rich, include that context so we can route the request to the right synthesis strategy.

Recommended Reading

These resources provide additional background on solid-phase peptide synthesis (SPPS), peptide purification/analytics, and custom peptide specifications.

Note: external links open in a new tab. If you need a recommended spec for your application, use the Contact section to share your sequence and requirements.

Why Choose Bio-Synthesis

Trusted by biotech leaders worldwide for over 40+ years of delivering high quality, fast and scalable synthetic biology solutions.