Integrated Collection of Stem Cell Bank Data, a Data Portal for Standardized Stem Cell Information

Overview

Journal Stem Cell Reports

Publisher Cell Press

Specialty Cell Biology

Date 2021 Mar 19

PMID 33740463

Citations 5

Authors

Ying Chen

Kunie Sakurai

Sumihiro Maeda

Tohru Masui

Hideyuki Okano

Johannes Dewender

Stefanie Seltmann

Andreas Kurtz

Hiroshi Masuya

Yukio Nakamura

Michael Sheldon

Juliane Schneider

Glyn N Stacey

Yulia Panina

Wataru Fujibuchi

Affiliations

Soon will be listed here.

Abstract

The past decade has witnessed an extremely rapid increase in the number of newly established stem cell lines. However, due to the lack of a standardized format, data exchange among stem cell line resources has been challenging, and no system can search all stem cell lines across resources worldwide. To solve this problem, we have developed the Integrated Collection of Stem Cell Bank data (ICSCB) (http://icscb.stemcellinformatics.org/), the largest database search portal for stem cell line information, based on the standardized data items and terms of the MIACARM framework. Currently, ICSCB can retrieve >16,000 cell lines from four major data resources in Europe, Japan, and the United States. ICSCB is automatically updated to provide the latest cell line information, and its integrative search helps users collect cell line information for over 1,000 diseases, including many rare diseases worldwide, which has been a formidable task, thereby distinguishing itself from other database search portals.

Citing Articles

The Management of Data for the Banking, Qualification, and Distribution of Induced Pluripotent Stem Cells: Lessons Learned from the European Bank for Induced Pluripotent Stem Cells.

Mah N, Kurtz A, Fuhr A, Seltmann S, Chen Y, Bultjer N Cells. 2023; 12(23).

PMID: 38067184 PMC: 10705942. DOI: 10.3390/cells12232756.

A double encryption protection algorithm for stem cell bank privacy data based on improved AES and chaotic encryption technology.

Wang L, Wei X, Zhang Y, Gao Y, Niu Q PLoS One. 2023; 18(10):e0293418.

PMID: 37878640 PMC: 10681628. DOI: 10.1371/journal.pone.0293418.

Human-specific genetics: new tools to explore the molecular and cellular basis of human evolution.

Pollen A, Kilik U, Lowe C, Camp J Nat Rev Genet. 2023; 24(10):687-711.

PMID: 36737647 PMC: 9897628. DOI: 10.1038/s41576-022-00568-4.

Human pluripotent stem cell registry: Operations, role and current directions.

Kurtz A, Mah N, Chen Y, Fuhr A, Kobold S, Seltmann S Cell Prolif. 2022; 55(8):e13238.

PMID: 35522426 PMC: 9357359. DOI: 10.1111/cpr.13238.

Decellularized Organ-Derived Scaffold Is a Promising Carrier for Human Induced Pluripotent Stem Cells-Derived Hepatocytes.

Kojima H, Yagi H, Kushige H, Toda Y, Takayama K, Masuda S Cells. 2022; 11(8).

PMID: 35455938 PMC: 9025569. DOI: 10.3390/cells11081258.

References

Thirumala S, Goebel W, Woods E . Clinical grade adult stem cell banking. Organogenesis. 2010; 5(3):143-54. PMC: 2781095. DOI: 10.4161/org.5.3.9811. View

Andrews P, Baker D, Benvinisty N, Miranda B, Bruce K, Brustle O . Points to consider in the development of seed stocks of pluripotent stem cells for clinical applications: International Stem Cell Banking Initiative (ISCBI). Regen Med. 2015; 10(2 Suppl):1-44. DOI: 10.2217/rme.14.93. View

Sasaki K, Makiyama T, Yoshida Y, Wuriyanghai Y, Kamakura T, Nishiuchi S . Patient-Specific Human Induced Pluripotent Stem Cell Model Assessed with Electrical Pacing Validates S107 as a Potential Therapeutic Agent for Catecholaminergic Polymorphic Ventricular Tachycardia. PLoS One. 2016; 11(10):e0164795. PMC: 5072719. DOI: 10.1371/journal.pone.0164795. View

Knoppers B, Isasi R . Stem cell banking: between traceability and identifiability. Genome Med. 2010; 2(10):73. PMC: 2988448. DOI: 10.1186/gm194. View

Isasi R, Knoppers B . From banking to international governance: fostering innovation in stem cell research. Stem Cells Int. 2011; 2011:498132. PMC: 3167189. DOI: 10.4061/2011/498132. View

Godard B, Schmidtke J, Cassiman J, Ayme S . Data storage and DNA banking for biomedical research: informed consent, confidentiality, quality issues, ownership, return of benefits. A professional perspective. Eur J Hum Genet. 2004; 11 Suppl 2:S88-122. DOI: 10.1038/sj.ejhg.5201114. View

Fujibuchi W, Goto S, Migimatsu H, Uchiyama I, Ogiwara A, Akiyama Y . DBGET/LinkDB: an integrated database retrieval system. Pac Symp Biocomput. 1998; :683-94. View

Nishizawa M, Chonabayashi K, Nomura M, Tanaka A, Nakamura M, Inagaki A . Epigenetic Variation between Human Induced Pluripotent Stem Cell Lines Is an Indicator of Differentiation Capacity. Cell Stem Cell. 2016; 19(3):341-54. DOI: 10.1016/j.stem.2016.06.019. View

Hug K . Banks, repositories and registries of stem cell lines in Europe: regulatory and ethical aspects. Stem Cell Rev Rep. 2009; 5(1):18-35. DOI: 10.1007/s12015-009-9053-5. View

10.

Wells C, Mosbergen R, Korn O, Choi J, Seidenman N, Matigian N . Stemformatics: visualisation and sharing of stem cell gene expression. Stem Cell Res. 2013; 10(3):387-95. DOI: 10.1016/j.scr.2012.12.003. View

11.

Takahashi K, Tanabe K, Ohnuki M, Narita M, Ichisaka T, Tomoda K . Induction of pluripotent stem cells from adult human fibroblasts by defined factors. Cell. 2007; 131(5):861-72. DOI: 10.1016/j.cell.2007.11.019. View

12.

Vasilevsky N, Johnson T, Corday K, Torniai C, Brush M, Segerdell E . Research resources: curating the new eagle-i discovery system. Database (Oxford). 2012; 2012:bar067. PMC: 3308157. DOI: 10.1093/database/bar067. View

13.

Zarzeczny A, Scott C, Hyun I, Bennett J, Chandler J, Charge S . iPS cells: mapping the policy issues. Cell. 2009; 139(6):1032-7. DOI: 10.1016/j.cell.2009.11.039. View

14.

Kim J, Kurtz A, Yuan B, Zeng F, Lomax G, Loring J . Report of the International Stem Cell Banking Initiative Workshop Activity: Current Hurdles and Progress in Seed-Stock Banking of Human Pluripotent Stem Cells. Stem Cells Transl Med. 2017; 6(11):1956-1962. PMC: 6430055. DOI: 10.1002/sctm.17-0144. View

15.

Kurtz A, Seltmann S, Bairoch A, Bittner M, Bruce K, Capes-Davis A . A Standard Nomenclature for Referencing and Authentication of Pluripotent Stem Cells. Stem Cell Reports. 2018; 10(1):1-6. PMC: 5768986. DOI: 10.1016/j.stemcr.2017.12.002. View

16.

Winickoff D, Saha K, Graff G . Opening stem cell research and development: a policy proposal for the management of data, intellectual property, and ethics. Yale J Health Policy Law Ethics. 2009; 9(1):52-127. View

17.

Sakurai K, Kurtz A, Stacey G, Sheldon M, Fujibuchi W . First Proposal of Minimum Information About a Cellular Assay for Regenerative Medicine. Stem Cells Transl Med. 2016; 5(10):1345-1361. PMC: 5031183. DOI: 10.5966/sctm.2015-0393. View

18.

Seltmann S, Lekschas F, Muller R, Stachelscheid H, Bittner M, Zhang W . hPSCreg--the human pluripotent stem cell registry. Nucleic Acids Res. 2015; 44(D1):D757-63. PMC: 4702942. DOI: 10.1093/nar/gkv963. View

19.

Yaffe M, Noggle S, Solomon S . Raising the standards of stem cell line quality. Nat Cell Biol. 2016; 18(3):236-7. DOI: 10.1038/ncb3313. View