About the service

Biological Sequences include DNA/RNA nucleotide sequences or amino acid sequences of protein. Searching for Bio-sequences includes finding a specific arrangement of sequences in a given patent or non-patent document. Sequence search helps the inventors to ascertain whether the sequence is novel or not. Since the novelty of the sequence lies in the unique combination of nucleotides or amino acids, a keywords-based search alone cannot capture the entire data-set including all the relevant results. Even if the desired sequence has a common name, not all patents would include the name, and thus a number of such results may be missed during the keyword-based search.

Some of the key tools used for sequence searching are – STN (Scientific Technical Networks), which is a network of more than 200 databases, BLAST searching, etc. Sequence searching requires deep domain expertise in the databases such as STN.

We at Effectual Services, have a team of Bio-technology experts who specialize in sequence searching. Over the years we have developed an in-depth understanding of the workings of these databases and have derived strategies to derive the expected output within a minimal budget.

The key components of a bio-sequence search are


The search query typically begins with a Bio-sequence representation, which is usually provided in FASTA Format depicting the arrangement of nucleotides or amino acids. A Bio-sequence itself can contain several sub-sequences. For example, the presence of a Heavy constant sequence and Heavy variable sequence within the Heavy chain sequence of the antibody.

Search Algorithm

Bio-sequence search relies on specialized search algorithms and databases capable of identifying the sequences matching the query provided based on the algorithm and scoring matrix chosen. There are a few free databases such as GenBank from NCBI (National Center for Biotechnology Information), SwissProt from the Swiss Institute of Bioinformatics, and PIR from the Protein Information Resource. The paid database includes STN, and Bio-sequence search from Questel Orbit.

Matching Criteria

Users can specify matching criteria, such as Sequence Identity and Query cover, or other specific requirements depending on the search's purpose. Furthermore, the matching criteria can be selected on the basis of sequence length.

Bio-sequence search tools have become indispensable in the field of life sciences, enabling scientists to efficiently access and analyze vast amounts of sequence data, identify novel bio-sequence, assess their properties, and advance research in various scientific domains.


The methodology of bio-sequence search involves broadly scoping, understanding, searching, analysis, and reporting.

Scope of the Project

The search is conducted for the granted patents and published patent applications filed worldwide.

The Bio-sequence search is conducted in three phases, following a structured approach

Methodology The project is executed in 3 phases. Effectual Services proposes the following methodology to be adopted for the project
Step 1

Understanding the technology

We develop an understanding of the objective and scope of the project, and the technology domain.

Step 2

Key word based Searching

We perform a comprehensive search on patent databases (pertinent to the technical domain), using a variety of strategies such as –

  • Keyword based searching
  • Class based searching for example, IPC/USC/CPC;
  • Assignee/Inventor based searching,
  • Citation searching (citations of the patent to oppose or one of its family member)
  • A similarity search (using tools available from e.g. ORBIT) etc.

On the patents side, we use one or more of the following patent databases: Orbit (from Questel), Totalpatent (from Lexis Nexis, covers ~100 jurisdictions worldwide), Patseer, Derwent Innovation (covers ~100 jurisdictions worldwide), Google patent, and Espacenet.

Step 3

Sequence based Searching

  • Option 1 : We perform sequence based search only on the free public databases - NCBI BLAST, Patent Lens to locate references which disclose the sequence of interest.
  • Option 2 : We perform sequence based search on the database – REGISTRY using STN as database host to locate references which disclose the sequence of interest. We also perform sequence search on free public databases - NCBI BLAST, Patent Lens.
Step 4

Analysis and reporting

A detailed analysis of the identified results (from Step 3 above) is performed in order to locate the key references. We will analyze references disclosing sequence(s) with a specific ‘% Identity’ and ‘% Query Coverage’ to capture the references covering the above listed objective of the study.

Deliverable Format : MS Excel based deliverable including the Granted patents and published patent applications and comprising following broad sections:
1. Project Overview/Methodology : This section will cover the details of the project and the Methodology adopted by the Analyst(s) during the course of the project along with the Assumptions (if any).
2. Relevant references : This section will include references located during the search along with their relevant text. Sequence mapping information (SEQ ID Number(s), Sequence alignment details, % Identity, % Query Coverage) will be included along with bibliographic information of identified patent references.
3. Search Log : This section will include the Search strings used to identify the relevant dataset.

Why Choose us?

There are several compelling reasons to choose Effectual Services for your Bio-sequence search needs

"At Effectual, we have successfully delivered 500+ Bio-sequence worldwide in various branches of science for gathering and analyzing the latest advancements and innovations in specific scientific fields such as biotechnology, Pharma etc.

As a leader in IP services, we bring proven expertise, cutting-edge technology, and a commitment to your success.

"Embrace Creativity and Maintain a Competitive Edge! Opt for Effective Bio-sequence Search Services Now!”.

Join hands with us and experience the difference. Contact us today to explore how we can make your projects a resounding success!

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Case Study

Feline Pruritus Treating Antibody


A leading pharmaceutical drug manufacturer, sought to identify similar antibody sequence for the treatment of feline Pruritus.


Feline pruritus, commonly known as itching or scratching in cats, is a distressing condition characterized by persistent and intense itching of the skin. This condition can lead to skin lesions, infections, and a reduced quality of life for affected felines. Feline pruritus can result from various underlying causes, including allergies, parasitic infestations, dermatitis, and systemic diseases.One promising approach to alleviate the suffering of cats with pruritus is the development of targeted antibody-based therapies and our aim is to identify sequences of antibody capable of treatment of feline pruritus.

What We Did

Identified the Patent and non-patent references disclosing the antibody sequence with atleast 98% sequence similarity and 98% query coverage.

Used keywords to narrow down the scope of the search.

Cancer Therapy


A pioneering biotechnology company, aimed to develop a groundbreaking cancer therapy that hinged on the creation of a synthetic biomolecule. Their objective was to engineer an artificial biomolecule with a precise binding sequence to target and disrupt a specific cancer receptor's signaling pathway, ultimately halting tumor growth.


Cancer remains one of the most formidable challenges in healthcare worldwide, with its diverse and complex nature necessitating a multifaceted approach to treatment. Traditional cancer therapies, such as chemotherapy and radiation, often lack specificity. These synthetic biomolecules, which can take the form of peptides, antibodies, or other molecular entities, are engineered with a specific purpose: to selectively interact with cancer receptors found on the surface of cancer cells.

The process of identifying a synthetic sequence within an artificial biomolecule capable of binding to a cancer receptor is a multidisciplinary undertaking. The aim of this study was to identify all the synthetic bio-molecules capable of binding to the Receptor of interest.

What We Did

We conducted a comprehensive analysis that involved the identification of both patented and non-patented references detailing synthetic biomolecules designed to bind to cancer receptors for potential cancer treatment applications.

Moreover, we delved into an in-depth evaluation of the efficacy and potential side effects associated with these synthetic biomolecules, sourcing our information from clinical trial databases.

In addition, we explored the various modes of delivery for these biomolecules, including innovative approaches such as lipid nanoparticles and sustained-release formulations.

Biosimilar Search for Patents Disclosing Antibodies for Dry Eyes


A technology start-up in ocular healthcare solutions, aimed to identify patents related to antibody targeting a receptor. The binding of antibody to the receptor results in the treatment of dry eye syndrome. The objective was to locate all patents held by the assignee that cover the antibody and its production method, its sequence, methods of treatment, or its formulation.


A biosimilar is a biological product that is highly similar to a reference or originator biological product, but not identical. These biological products are typically large, complex molecules derived from living organisms, such as proteins, antibodies, or other biologics. Biosimilars are designed to have similar efficacy, safety, and quality to the reference product, and they are used to treat a wide range of diseases and medical conditions.

What We Did

Our team conducted an exhaustive patent search focused on bio-sequences related to the antibody. We conducted a detailed analysis, utilizing specific keywords, and narrowed the search scope exclusively to applications pertaining to the treatment of dry eyes.

We also conducted an extensive investigation into the manufacturing contracts, collaborative partnerships, and regulatory clearance processes involved in bringing the antibody to market.

Client testimonial

"Effectual's bio-sequence searches have uncovered critical insights for our drug discovery program. Their speed, accuracy, and commitment to confidentiality make them an indispensable partner."

Pharmaceutical Researcher

"I've entrusted Effectual with numerous genomic projects, and they consistently deliver precise results. Their in-depth knowledge of bioinformatics has been invaluable to our research."

Genomic Scientist

"Effectual's patent search capabilities are second to none. They've been instrumental in securing IP rights for our biotech inventions. Their reports are thorough and well-documented."

IP Strategist

"Effectual's biosequence search services have revolutionized our genomics studies. Their support in data interpretation has led to groundbreaking discoveries. They're an indispensable asset to our scientific endeavors."

Academic Researcher


A bio-sequence search is a specialized process used to analyze and compare biological sequences, such as DNA, RNA, or proteins. It is crucial in various fields like genomics, drug discovery, and molecular biology to identify genes, regulatory elements, functional motifs, and more. This analysis helps researchers gain insights into genetic information and molecular functions, driving scientific advancements.

Our bio-sequence search services offer several benefits. They help you identify relevant biological sequences, assess their similarity to known sequences, discover functional elements, and design experiments or therapeutic molecules. Whether you're in academia, biotechnology, or pharmaceuticals, our services can accelerate your research and innovation.

We provide a wide range of bio-sequence search services, including sequence similarity searches, motif discovery, gene annotation, and structural analysis. We tailor our services to meet your specific research objectives, ensuring you receive customized solutions for your project.

Yes, we prioritize data confidentiality and security. Your research data is handled with the utmost care and professionalism, and we adhere to strict confidentiality agreements to protect your intellectual property.

Project durations can vary based on the complexity of the search, the size of the dataset, and your specific requirements. We work closely with you to define project timelines and ensure efficient delivery.

Absolutely! Our bio-sequence search services extend to patent analysis, including prior art searches, Freedom-To-Operate, Infringement, and patent landscape assessments. We assist in identifying existing patents related to your innovation and evaluating patentability.

Our services cater to a diverse clientele, including academic researchers, biotechnology companies, pharmaceutical firms, healthcare institutions, and more. We tailor our solutions to meet the unique needs of each client.

Getting started is easy. Simply reach out to our team through our contact page or inquiry form. We'll schedule a consultation to discuss your project requirements, goals, and timelines. From there, we'll create a customized solution to meet your needs.

Yes, we offer support to help you interpret and utilize the results of your bio-sequence search effectively. Our goal is to empower you with the knowledge and insights needed to advance your research or projects.

Our services are distinguished by a combination of cutting-edge bioinformatics tools, experienced professionals, customized solutions, and a commitment to confidentiality and data security. We are dedicated to delivering high-quality results that drive innovation in the fields of genomics, drug discovery, and molecular biology.
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