Towards a common standard for data and specimen provenance in life sciences

Autor: Rudolf Wittner, Petr Holub, Cecilia Mascia, Francesca Frexia, Heimo Müller, Markus Plass, Clare Allocca, Fay Betsou, Tony Burdett, Ibon Cancio, Adriane Chapman, Martin Chapman, Mélanie Courtot, Vasa Curcin, Johann Eder, Mark Elliot, Katrina Exter, Carole Goble, Martin Golebiewski, Bron Kisler, Andreas Kremer, Simone Leo, Sheng Lin‐Gibson, Anna Marsano, Marco Mattavelli, Josh Moore, Hiroki Nakae, Isabelle Perseil, Ayat Salman, James Sluka, Stian Soiland‐Reyes, Caterina Strambio‐De‐Castillia, Michael Sussman, Jason R. Swedlow, Kurt Zatloukal, Jörg Geiger

Publikováno v: Wittner, R, Holub, P, Mascia, C, Frexia, F, Müller, H, Plass, M, Allocca, C, Betsou, F, Burdett, T, Cancio, I, Chapman, A, Chapman, M, Courtot, M, Curcin, V, Eder, J, Elliot, M, Exter, K, Goble, C, Golebiewski, M, Kisler, B, Kremer, A, Leo, S, Lin-Gibson, S, Marsano, A, Mattavelli, M, Moore, J, Nakae, H, Perseil, I, Salman, A, Sluka, J, Soiland-Reyes, S, Strambio-De-Castillia, C, Sussman, M, Swedlow, J R, Zatloukal, K & Geiger, J 2023, ' Towards a common standard for data and specimen provenance in life sciences ', Learning Health Systems . https://doi.org/10.1002/lrh2.10365

The exchange of biological material and data has become an issue of major importance for research in biotechnology. At the same time, many reports indicate problems with quality, trustworthiness and reproducibility of research results, mainly due to

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::60687c03dab8edd3b984ca2ecbc6e67d
https://doi.org/10.1002/lrh2.10365

Data from Antitumor activity of histone deacetylase inhibitors in non-small cell lung cancer cells: development of a molecular predictive model

Autor: Shoji Kudoh, Hiroki Nakae, Haruka Uesaka, Akiko Kawakami, Akinobu Yoshimura, Masahiro Seike, Tetsuya Okano, Michiya Nara, Kuniko Matsuda, Kiyoko Kataoka, Rintaro Noro, Akihiko Gemma, Akihiko Miyanaga

To ascertain the potential for histone deacetylase (HDAC) inhibitor-based treatment in non-small cell lung cancer (NSCLC), we analyzed the antitumor effects of trichostatin A (TSA) and suberoylanilide hydroxamic acid (vorinostat) in a panel of 16 NSC

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3065d74147baf8da05e4c624430e40ff
https://doi.org/10.1158/1535-7163.c.6531042.v1

ISO 23494: Biotechnology – Provenance Information Model for Biological Specimen And Data

Autor: Heimo Müller, Luca Pireddu, Jason R. Swedlow, Caterina Strambio, Carole Goble, Hiroki Nakae, Joerg Geiger, Elliot Fairweather, Francesca Frexia, Cecilia Mascia, Petr Holub, David Grunwald, Stian Soiland-Reyes, Rudolf Wittner, Josh Moore

Publikováno v: Lecture Notes in Computer Science ISBN: 9783030809591
IPAW

Exchange of research data and samples in biomedical research has become a common phenomenon, demanding for their effective quality assessment. At the same time, several reports address reproducibility of research, where history of biological samples

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::e5a5299a810b9e23b0b475b1673a9945
https://doi.org/10.1007/978-3-030-80960-7_16

A set of external reference controls/probes that enable quality assurance between different microarray platforms

Autor: Hideo Akiyama, Isao Miyagawa, Hiroki Nakae, Nobuhiro Gemma, Yoji Ueda, Takazumi Nakamura, Ritsuka Tanaka, Nobuko Yamamoto, Hiroyuki Ooshima, Yo-hei Ishizawa, Wataru Fujibuchi, Mitsuo Kawase, Kazufumi Watanabe, Hitoshi Nobumasa, Yuji Sekiguchi, Koji Kitahiro, Ryo Matoba

Publikováno v: Analytical Biochemistry. 472:75-83

RNA external standards, although important to ensure equivalence across many microarray platforms, have yet to be fully implemented in the research community. In this article, a set of unique RNA external standards (or RNA standards) and probe pairs

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::13a78ff90b5ab924746d0bb34356a3dc
https://doi.org/10.1016/j.ab.2014.11.012

Practical determination of LODP (limit of detection for microarray platform) for the evaluation of microarray platforms

Autor: Naohiro Noda, Sayaka Kawashima, Hidetoshi Aoki, Shin-ichiro Fujii, Satoru Adachi, Shigetaka Koga, Hisashi Suzuki, Ai Nozawa, Tetsuo Sudo, Sayaka Itoh, Sachie Shibayama, Hiroki Nakae, Yoshihiko Suda, Yumi Ueda

Publikováno v: Analytical Biochemistry. 583:113360

The performance indicator called limit of detection for microarray platform (LODP) was defined in ISO 16578:2013. The methods to determine practical LODP were explored. In general, + 3 SD of the background is used as the signal strength of limit of d

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9070fbe4e4c2be4266637f73f79a1e67
https://doi.org/10.1016/j.ab.2019.113360