Making Common Fund data more findable: catalyzing a data ecosystem

Amanda L. Charbonneau; Arthur Brady; Karl Czajkowski; Jain Aluvathingal; Saranya Canchi; Robert Carter; Kyle Chard; Daniel J.B. Clarke; Jonathan Crabtree; Heather H. Creasy; Mike D'Arcy; Victor Felix; Michelle Giglio; Alicia Gingrich; Rayna M. Harris; Theresa K. Hodges; Olukemi Ifeonu; Minji Jeon; Eryk Kropiwnicki; Marisa C.W. Lim; R. Lee Liming; Jessica Lumian; Anup A. Mahurkar; Meisha Mandal; James B. Munro; Suvarna Nadendla; Rudyard Richter; Cia Romano; Philippe Rocca-Serra; Michael Schor; Robert E. Schuler; Hongsuda Tangmunarunkit; Alex Waldrop; Cris Williams; Karen Word; Susanna Assunta Sansone; Avi Ma'ayan; Rick Wagner; Ian Foster; Carl Kesselman; C. Titus Brown; Owen White

doi:10.1093/gigascience/giac105

Making Common Fund data more findable: catalyzing a data ecosystem

Amanda L. Charbonneau, Arthur Brady, Karl Czajkowski, Jain Aluvathingal, Saranya Canchi, Robert Carter, Kyle Chard, Daniel J.B. Clarke, Jonathan Crabtree, Heather H. Creasy, Mike D'Arcy, Victor Felix, Michelle Giglio, Alicia Gingrich, Rayna M. Harris, Theresa K. Hodges, Olukemi Ifeonu, Minji Jeon, Eryk Kropiwnicki, Marisa C.W. LimR. Lee Liming, Jessica Lumian, Anup A. Mahurkar, Meisha Mandal, James B. Munro, Suvarna Nadendla, Rudyard Richter, Cia Romano, Philippe Rocca-Serra, Michael Schor, Robert E. Schuler, Hongsuda Tangmunarunkit, Alex Waldrop, Cris Williams, Karen Word, Susanna Assunta Sansone, Avi Ma'ayan, Rick Wagner, Ian Foster, Carl Kesselman, C. Titus Brown, Owen White

Research output: Contribution to journal › Article › peer-review

5 Scopus citations

Abstract

The Common Fund Data Ecosystem (CFDE) has created a flexible system of data federation that enables researchers to discover datasets from across the US National Institutes of Health Common Fund without requiring that data owners move, reformat, or rehost those data. This system is centered on a catalog that integrates detailed descriptions of biomedical datasets from individual Common Fund Programs' Data Coordination Centers (DCCs) into a uniform metadata model that can then be indexed and searched from a centralized portal. This Crosscut Metadata Model (C2M2) supports the wide variety of data types and metadata terms used by individual DCCs and can readily describe nearly all forms of biomedical research data. We detail its use to ingest and index data from 11 DCCs.

Original language	English
Article number	giac105
Journal	GigaScience
Volume	11
DOIs	https://doi.org/10.1093/gigascience/giac105
State	Published - 2022

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Charbonneau, A. L., Brady, A., Czajkowski, K., Aluvathingal, J., Canchi, S., Carter, R., Chard, K., Clarke, D. J. B., Crabtree, J., Creasy, H. H., D'Arcy, M., Felix, V., Giglio, M., Gingrich, A., Harris, R. M., Hodges, T. K., Ifeonu, O., Jeon, M., Kropiwnicki, E., ... White, O. (2022). Making Common Fund data more findable: catalyzing a data ecosystem. GigaScience, 11, Article giac105. https://doi.org/10.1093/gigascience/giac105

@article{0c89e61c969143bbb317f71d1d9fce29,

title = "Making Common Fund data more findable: catalyzing a data ecosystem",

abstract = "The Common Fund Data Ecosystem (CFDE) has created a flexible system of data federation that enables researchers to discover datasets from across the US National Institutes of Health Common Fund without requiring that data owners move, reformat, or rehost those data. This system is centered on a catalog that integrates detailed descriptions of biomedical datasets from individual Common Fund Programs' Data Coordination Centers (DCCs) into a uniform metadata model that can then be indexed and searched from a centralized portal. This Crosscut Metadata Model (C2M2) supports the wide variety of data types and metadata terms used by individual DCCs and can readily describe nearly all forms of biomedical research data. We detail its use to ingest and index data from 11 DCCs.",

author = "Charbonneau, {Amanda L.} and Arthur Brady and Karl Czajkowski and Jain Aluvathingal and Saranya Canchi and Robert Carter and Kyle Chard and Clarke, {Daniel J.B.} and Jonathan Crabtree and Creasy, {Heather H.} and Mike D'Arcy and Victor Felix and Michelle Giglio and Alicia Gingrich and Harris, {Rayna M.} and Hodges, {Theresa K.} and Olukemi Ifeonu and Minji Jeon and Eryk Kropiwnicki and Lim, {Marisa C.W.} and Liming, {R. Lee} and Jessica Lumian and Mahurkar, {Anup A.} and Meisha Mandal and Munro, {James B.} and Suvarna Nadendla and Rudyard Richter and Cia Romano and Philippe Rocca-Serra and Michael Schor and Schuler, {Robert E.} and Hongsuda Tangmunarunkit and Alex Waldrop and Cris Williams and Karen Word and Sansone, {Susanna Assunta} and Avi Ma'ayan and Rick Wagner and Ian Foster and Carl Kesselman and Brown, {C. Titus} and Owen White",

note = "Publisher Copyright: {\textcopyright} 2022 The Author(s). Published by Oxford University Press GigaScience.",

year = "2022",

doi = "10.1093/gigascience/giac105",

language = "English",

volume = "11",

journal = "GigaScience",

issn = "2047-217X",

publisher = "Oxford University Press",

}

Charbonneau, AL, Brady, A, Czajkowski, K, Aluvathingal, J, Canchi, S, Carter, R, Chard, K, Clarke, DJB, Crabtree, J, Creasy, HH, D'Arcy, M, Felix, V, Giglio, M, Gingrich, A, Harris, RM, Hodges, TK, Ifeonu, O, Jeon, M, Kropiwnicki, E, Lim, MCW, Liming, RL, Lumian, J, Mahurkar, AA, Mandal, M, Munro, JB, Nadendla, S, Richter, R, Romano, C, Rocca-Serra, P, Schor, M, Schuler, RE, Tangmunarunkit, H, Waldrop, A, Williams, C, Word, K, Sansone, SA, Ma'ayan, A, Wagner, R, Foster, I, Kesselman, C, Brown, CT & White, O 2022, 'Making Common Fund data more findable: catalyzing a data ecosystem', GigaScience, vol. 11, giac105. https://doi.org/10.1093/gigascience/giac105

TY - JOUR

T1 - Making Common Fund data more findable

T2 - catalyzing a data ecosystem

AU - Charbonneau, Amanda L.

AU - Brady, Arthur

AU - Czajkowski, Karl

AU - Aluvathingal, Jain

AU - Canchi, Saranya

AU - Carter, Robert

AU - Chard, Kyle

AU - Clarke, Daniel J.B.

AU - Crabtree, Jonathan

AU - Creasy, Heather H.

AU - D'Arcy, Mike

AU - Felix, Victor

AU - Giglio, Michelle

AU - Gingrich, Alicia

AU - Harris, Rayna M.

AU - Hodges, Theresa K.

AU - Ifeonu, Olukemi

AU - Jeon, Minji

AU - Kropiwnicki, Eryk

AU - Lim, Marisa C.W.

AU - Liming, R. Lee

AU - Lumian, Jessica

AU - Mahurkar, Anup A.

AU - Mandal, Meisha

AU - Munro, James B.

AU - Nadendla, Suvarna

AU - Richter, Rudyard

AU - Romano, Cia

AU - Rocca-Serra, Philippe

AU - Schor, Michael

AU - Schuler, Robert E.

AU - Tangmunarunkit, Hongsuda

AU - Waldrop, Alex

AU - Williams, Cris

AU - Word, Karen

AU - Sansone, Susanna Assunta

AU - Ma'ayan, Avi

AU - Wagner, Rick

AU - Foster, Ian

AU - Kesselman, Carl

AU - Brown, C. Titus

AU - White, Owen

PY - 2022

Y1 - 2022

N2 - The Common Fund Data Ecosystem (CFDE) has created a flexible system of data federation that enables researchers to discover datasets from across the US National Institutes of Health Common Fund without requiring that data owners move, reformat, or rehost those data. This system is centered on a catalog that integrates detailed descriptions of biomedical datasets from individual Common Fund Programs' Data Coordination Centers (DCCs) into a uniform metadata model that can then be indexed and searched from a centralized portal. This Crosscut Metadata Model (C2M2) supports the wide variety of data types and metadata terms used by individual DCCs and can readily describe nearly all forms of biomedical research data. We detail its use to ingest and index data from 11 DCCs.

AB - The Common Fund Data Ecosystem (CFDE) has created a flexible system of data federation that enables researchers to discover datasets from across the US National Institutes of Health Common Fund without requiring that data owners move, reformat, or rehost those data. This system is centered on a catalog that integrates detailed descriptions of biomedical datasets from individual Common Fund Programs' Data Coordination Centers (DCCs) into a uniform metadata model that can then be indexed and searched from a centralized portal. This Crosscut Metadata Model (C2M2) supports the wide variety of data types and metadata terms used by individual DCCs and can readily describe nearly all forms of biomedical research data. We detail its use to ingest and index data from 11 DCCs.

UR - http://www.scopus.com/inward/record.url?scp=85142339661&partnerID=8YFLogxK

U2 - 10.1093/gigascience/giac105

DO - 10.1093/gigascience/giac105

M3 - Article

C2 - 36409836

AN - SCOPUS:85142339661

SN - 2047-217X

VL - 11

JO - GigaScience

JF - GigaScience

M1 - giac105

ER -

Making Common Fund data more findable: catalyzing a data ecosystem

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