Frequently Asked Questions on iPSCs
Frequently Asked Questions on iPSCs
Find answers to frequently asked questions (FAQs) about induced pluripotent stem cell (iPSC) lines from STEMCELL.
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General Information
When should I use iPSCs for my experiments?
Certain disorders are challenging to study in vitro due to an inaccessibility of donor tissue, e.g., neurodegenerative and psychiatric disorders of the brain and spinal cord and cardiomyopathies of the heart. Similar to embryonic stem cells, iPSCs have the capacity for unlimited self-renewal and the ability to differentiate into cell types from the three embryonic germ layers: ectoderm, mesoderm, and endoderm. Thus, human iPSCs make it possible to generate an unlimited capacity of previously inaccessible cell types, such as neurons and cardiomyocytes, while capturing the genetic diversity of patients with specific mutations or disease. iPSCs can be used to study the molecular mechanisms of disease, have the potential to be utilized for cell and gene therapies, and can be used in the drug discovery process for the evaluation of toxic compounds.
Why use human iPSC lines from STEMCELL in my research?
Start your research confidently with human iPSCs from STEMCELL that are ethically sourced, donor-consented, and Institutional Review Board (IRB)-approved for academic and commercial research. iPSC products purchased from STEMCELL are manufactured using stringent quality control parameters that either meet or exceed industry standards and are detailed in the lot-specific Certificate of Analysis (CoA). Additional transparency is provided by registration of iPSC lines in hPSCreg®—a global human pluripotent stem cell (hPSC) registry that improves visibility, confidence in ethical provenance, validation of characterization data, and comparability with other registered lines.
Use STEMCELL’s iPSC lines to establish a complete workflow for your cell culture system. Optimized for long-term maintenance and expansion in TeSR™ media, and validated for differentiation to a multitude of lineage-specific cell types and organoids using STEMdiff™ media systems, our iPSC lines provide flexibility for a wide range of research applications.
How are STEMCELL’s iPSC lines generated?
How are STEMCELL’s iPSC lines named?
STEMCELL recognizes that a lack of well-defined guidelines for naming human pluripotent stem cell (hPSC) lines has led to confusion and duplication of cell line names and identities in the research field. As a result, we use the standardized nomenclature established by hPSCreg® that (1) unambiguously identifies a registered cell line, (2) allows tracing of subclones, and (3) enables the assignment of different cell lines to a particular donor:
Component | No. Digits | Example | Comments |
---|---|---|---|
Generator acronym | 2 - 6 | XXXXXX | Assigned by the hPSCreg® community |
Cell line type | 1 | "e" or "i" | "e": embryonic stem cell "i": induced pluripotent stem cell |
Donor ID | 3 | 001 | Alphanumeric; limited to 46,655 donors per generator |
Clone number | 2 - 3 | -A | Alphabetic; preceded by hyphen; limited to 702 lines per donor |
Identifier for subclone (only required if applicable) | 0 - 3 | -1 | Alphanumeric; preceded by hyphen; limited to 1330 subclones per line |
Total characters | 8 - 16 |
Example: SCTi003-A
Explanation: STEMCELL Technologies iPSC Donor 3 Clone A
How are STEMCELL’s iPSC lines characterized?
Extensive quality control procedures are implemented at every stage of STEMCELL’s iPSC manufacturing process. Master cell banks are tested for identity, adventitious agents, genomic integrity and stability, survival, undifferentiated state, and pluripotency. For detailed information on the specific quality control tests performed on master cell banks, please refer to the Quality Control section of this FAQ.
Working cell banks and commercial vials are tested for a subset of these characterization criteria. For more information on the quality control (QC) of a particular iPSC line, please refer to the lot-specific Certificate of Analysis (CoA). For more information about STEMCELL’s commercial iPSC release criteria, see the Quality Control section of this FAQ.
Are additional clones available for a given iPSC line?
In some cases, additional clones may be available for an iPSC line. However, alternate clones will not have been characterized to the same extent as the commercial iPSC line and may only be available at an early passage number. To inquire about alternate clones for an iPSC line, please contact us.
Is a license required for use of STEMCELL’s iPSC lines?
Yes, customers are required to agree to the standard license agreement for iPSCs and pay an annual license fee for the use of STEMCELL’s iPSC lines. The annual license fee is priced at $5,000 USD per iPSC line and is capped at $20,000 USD per year (i.e. use of more than four iPSC lines will not incur higher annual license fees). Customers working for non-profit organizations (e.g. universities) may be eligible for a fee waiver. To inquire about the standard license agreement, annual license fees, or to discuss your eligibility for an annual license fee waiver, please contact us. Refer to the Licensing and Usage section of this FAQ for more information.
How can STEMCELL help me with my iPSC experiments?
STEMCELL is able to support your iPSC experiments with a suite of products designed to help you get the results you need. Attend one of our training programs to learn the latest iPSC techniques and protocols and perform your experiments with confidence. Our scientists and educators offer comprehensive virtual or hands-on technical training programs that are customizable for your specific needs.
Donor Information
How does STEMCELL collect donor demographic information?
STEMCELL collects donor demographic information ethically, using consent forms and protocols approved by either an Institutional Review Board (IRB), the Food and Drug Administration (FDA), the U.S. Department of Health and Human Services, and/or an equivalent regulatory authority. Donations are performed in the United States in compliance with applicable federal, state, and local laws, regulations, and guidance.
Our Quality Assurance, Quality Control, and Regulatory Affairs departments are ready to assist you with any necessary documentation to meet specific institutional requirements, including supplier approval for ease of procurement.
Contact us for further information on the collection of donor demographics.
What kind of donor information is available for STEMCELL’s iPSC lines and how are the data generated?
The following donor attributes are determined for each iPSC donor and are provided with each iPSC line. Full donor details are listed on the Product Information Sheet (PIS) and further in-depth analyses (including ClinVar and ancestry reports) are included in the Certificate of Analysis (CoA).
If additional donor attributes (not included in the table above) are required for your experiments, please contact us, and a representative will be in touch to work with you on your desired order.
What is STEMCELL’s definition of a “healthy” donor?
Healthy donors must be over the age of 18, weigh at least 120 lb, have a body mass index (BMI) between 18.5 - 24.9, demonstrate no use of tobacco products, and be in good general health.
Donors in our “healthy” pool are pre-screened using a health questionnaire aimed at excluding any donors with diseases, blood disorders, or other health concerns. Donors are tested for infectious diseases (HIV-1, HIV-2, hepatitis B, and hepatitis C), and other diseases or conditions are self-reported. An intake questionnaire containing questions about the donor’s health history and current condition is completed on the day of collection. Donors are restricted from donating if they are feeling unwell or have a fever. Additional blood parameter assessments are performed, including white blood cell counts, platelet levels, hematocrit, and blood pressure; any values outside of the acceptable normal range or minimum level would eliminate the sample from the healthy pool. Health questionnaires and donor inclusion/exclusion criteria are overseen by a medical director at each collection site.
Participants are not eligible for this program if they present with any of the following characteristics:
- High blood pressure
- Blood-borne or sexually transmitted disease(s) (hepatitis B or C, HIV-1 or HIV-2, syphilis)
- Diabetes (Type 1 or 2)
- Thyroid issues
- Heart, lung, kidney, or liver problems
- Currently pregnant or nursing
If specific health information is required or if your research project has any restrictions, please contact us to see if we can source an iPSC donor for you as a special request. Note: This may require donor recruitment or screening at an additional cost.
What is the difference between ancestry, race, and ethnicity?
Ancestry refers to the geographic origins of a person’s ancestors. For example, European, African, South Asian, or East Asian. Ancestry is a donor attribute that is genetically calculated.
Race refers to physical differences that groups and cultures consider socially significant. For example, people might identify their race as Aboriginal, African American or Black, Asian, European American or White, Native American, Native Hawaiian or Pacific Islander, Māori, or another race. Race is an attribute that is self-declared by STEMCELL’s iPSC donors.
Ethnicity refers to shared cultural characteristics such as language, ancestry, practices, and beliefs. For example, people might identify as Hispanic, Latino, or another ethnicity. Ethnicity is an attribute that is self-declared by STEMCELL’s iPSC donors.
Why does STEMCELL calculate donor ancestry?
Analysis of the coding regions of the human genome for germline and somatic mutations by whole exome sequencing (WES) is becoming commonplace in translational cancer genomics studies and in the field of precision medicine. Identifying a donor’s ancestry is essential for interpreting the impact of personal genetic variation on experimental results.
How does STEMCELL calculate donor ancestry?
Whole exome sequencing (WES) data is processed using EthSEQ, an analytical pipeline for identifying conserved ancestral groups. EthSEQ inspects WES data from each iPSC line, focusing on the differential single nucleotide polymorphism (SNP) genotype profile. This profile contains variants known to be particularly informative of ancestral heritage. Each donor profile is compared to a reference database containing thousands of genotypes of known ancestries collated from the 1000 Genomes Project. Subsequent principal component analysis (PCA) identifies donor ancestry by comparison to the reference database and calculates a percentage for each ancestry. STEMCELL’s internal ancestry determination workflow has been validated using WES data from the Simons Genome Diversity Project, a database that contains genotype data from hundreds of individuals with known ancestries, thus generating more comprehensive ancestral predictions.
- Romanel A et al. (2017) EthSEQ: ethnicity annotation from whole exome sequencing data. Bioinformatics. 33(15): 2402–4
- Mallick S et al. (2016) The Simons Diversity Project: 300 genomes from 142 diverse populations. Nature. 538(7624):201–6.
- The 1000 Genomes Project Consortium (2015) A global reference for human genetic variation. Nature. 526(7571): 68–74.
How does STEMCELL identify genetic variants?
Whole exome sequencing (WES) datasets are sequenced at a depth of 50x, indicating that each nucleotide of the exome (the collection of all coding sequences) is sequenced 50 times. From this redundant coverage, a highly accurate consensus sequence is derived, allowing for the identification of genomic single nucleotide polymorphisms (SNPs; representing genetic variants). The resulting profile of genetic variants is compared against ClinVar, a public archive of reports that detail relationships between human genetic variants and phenotypes, and any resulting pathogenic or likely pathogenic variants are determined. ClinVar analysis includes germline and somatic variants of any size, type, or genomic location.
Can I obtain whole exome sequencing (WES) and/or whole genome sequencing (WGS) data files for an iPSC line?
Yes, WES and WGS data files are available to customers of the corresponding iPSC line(s) for a fee. Please note that you must be purchasing or have previously purchased the iPSC line that you wish to acquire the WES and/or WGS data files for. Customers are required to acknowledge that no attempt will be made to identify the donor using sequencing data.
Quality Control
What iPSC quality standards does STEMCELL manufacture to?
STEMCELL is an advocate for standardizing human pluripotent stem cell data reporting and quality control measures to limit experimental variability and ensure that relevant, reproducible findings are shared. Our commercial iPSC quality assessments and release criteria have been developed based on recommendations and guidance from the International Stem Cell Banking Initiative (ISCBI) (2009), the Global Alliance for iPSC Therapy (GAiT) (2018), and consensus workshops hosted in 2022 by the International Society for Stem Cell Research (ISSCR) and International Stem Cell Initiative (ISCI).
- Ludwig, T & Andrews, PW. (Co-Chairs) ISSCR Standards Initiative Meeting. Presented June 19, 2022 at the ISSCR Annual Meeting in San Francisco, CA.
- Sullivan, S. et al. (2018) Quality control guidelines for clinical-grade human induced pluripotent stem cell lines. Regen Med. 13(7): 859–66.
- International Stem Cell Banking Initiative (2009) Consensus guidance for banking and supply of human embryonic stem cell lines for research purposes. Stem Cell Rev Rep. 5(4): 301–14.