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For: Poline JB, Kennedy DN, Sommer FT, Ascoli GA, Van Essen DC, Ferguson AR, Grethe JS, Hawrylycz MJ, Thompson PM, Poldrack RA, Ghosh SS, Keator DB, Athey TL, Vogelstein JT, Mayberg HS, Martone ME. Is Neuroscience FAIR? A Call for Collaborative Standardisation of Neuroscience Data. Neuroinformatics 2022;20:507-512. [PMID: 35061216 PMCID: PMC9300762 DOI: 10.1007/s12021-021-09557-0] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/15/2021] [Indexed: 11/25/2022]
Number Cited by Other Article(s)
1
Klein F, Kohl SH, Lührs M, Mehler DMA, Sorger B. From lab to life: challenges and perspectives of fNIRS for haemodynamic-based neurofeedback in real-world environments. Philos Trans R Soc Lond B Biol Sci 2024;379:20230087. [PMID: 39428887 PMCID: PMC11513164 DOI: 10.1098/rstb.2023.0087] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2023] [Revised: 02/09/2024] [Accepted: 02/26/2024] [Indexed: 10/22/2024]  Open
2
Iyer S, Maxson Jones K, Robinson JO, Provenza NR, Duncan D, Lázaro-Muñoz G, McGuire AL, Sheth SA, Majumder MA. The BRAIN Initiative data-sharing ecosystem: Characteristics, challenges, benefits, and opportunities. eLife 2024;13:e94000. [PMID: 39602224 PMCID: PMC11602185 DOI: 10.7554/elife.94000] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2023] [Accepted: 11/10/2024] [Indexed: 11/29/2024]  Open
3
Ekhtiari H, Zare-Bidoky M, Sangchooli A, Valyan A, Abi-Dargham A, Cannon DM, Carter CS, Garavan H, George TP, Ghobadi-Azbari P, Juchem C, Krystal JH, Nichols TE, Öngür D, Pernet CR, Poldrack RA, Thompson PM, Paulus MP. Reporting checklists in neuroimaging: promoting transparency, replicability, and reproducibility. Neuropsychopharmacology 2024;50:67-84. [PMID: 39242922 PMCID: PMC11525976 DOI: 10.1038/s41386-024-01973-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/15/2024] [Revised: 08/08/2024] [Accepted: 08/12/2024] [Indexed: 09/09/2024]
4
Alkhatib R, Gaede KI. Data Management in Biobanking: Strategies, Challenges, and Future Directions. BIOTECH 2024;13:34. [PMID: 39311336 PMCID: PMC11417763 DOI: 10.3390/biotech13030034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2024] [Revised: 08/23/2024] [Accepted: 08/31/2024] [Indexed: 09/26/2024]  Open
5
Tecuatl C, Ljungquist B, Ascoli GA. Accelerating the continuous community sharing of digital neuromorphology data. FASEB Bioadv 2024;6:207-221. [PMID: 38974113 PMCID: PMC11226999 DOI: 10.1096/fba.2024-00048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2024] [Revised: 05/28/2024] [Accepted: 06/03/2024] [Indexed: 07/09/2024]  Open
6
Ji Z, Guo S, Qiao Y, McDougal RA. Automating literature screening and curation with applications to computational neuroscience. J Am Med Inform Assoc 2024;31:1463-1470. [PMID: 38722233 PMCID: PMC11187430 DOI: 10.1093/jamia/ocae097] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2024] [Revised: 03/19/2024] [Accepted: 04/16/2024] [Indexed: 06/21/2024]  Open
7
Renton AI, Dao TT, Johnstone T, Civier O, Sullivan RP, White DJ, Lyons P, Slade BM, Abbott DF, Amos TJ, Bollmann S, Botting A, Campbell MEJ, Chang J, Close TG, Dörig M, Eckstein K, Egan GF, Evas S, Flandin G, Garner KG, Garrido MI, Ghosh SS, Grignard M, Halchenko YO, Hannan AJ, Heinsfeld AS, Huber L, Hughes ME, Kaczmarzyk JR, Kasper L, Kuhlmann L, Lou K, Mantilla-Ramos YJ, Mattingley JB, Meier ML, Morris J, Narayanan A, Pestilli F, Puce A, Ribeiro FL, Rogasch NC, Rorden C, Schira MM, Shaw TB, Sowman PF, Spitz G, Stewart AW, Ye X, Zhu JD, Narayanan A, Bollmann S. Neurodesk: an accessible, flexible and portable data analysis environment for reproducible neuroimaging. Nat Methods 2024;21:804-808. [PMID: 38191935 PMCID: PMC11180540 DOI: 10.1038/s41592-023-02145-x] [Citation(s) in RCA: 13] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Accepted: 11/27/2023] [Indexed: 01/10/2024]
8
Tecuatl C, Ljungquist B, Ascoli GA. Accelerating the continuous community sharing of digital neuromorphology data. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.03.15.585306. [PMID: 38562736 PMCID: PMC10983892 DOI: 10.1101/2024.03.15.585306] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/04/2024]
9
Levitas D, Hayashi S, Vinci-Booher S, Heinsfeld A, Bhatia D, Lee N, Galassi A, Niso G, Pestilli F. ezBIDS: Guided standardization of neuroimaging data interoperable with major data archives and platforms. Sci Data 2024;11:179. [PMID: 38332144 PMCID: PMC10853279 DOI: 10.1038/s41597-024-02959-0] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Accepted: 01/12/2024] [Indexed: 02/10/2024]  Open
10
Brancato V, Esposito G, Coppola L, Cavaliere C, Mirabelli P, Scapicchio C, Borgheresi R, Neri E, Salvatore M, Aiello M. Standardizing digital biobanks: integrating imaging, genomic, and clinical data for precision medicine. J Transl Med 2024;22:136. [PMID: 38317237 PMCID: PMC10845786 DOI: 10.1186/s12967-024-04891-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2023] [Accepted: 01/14/2024] [Indexed: 02/07/2024]  Open
11
Rahimzadeh V, Jones KM, Majumder MA, Kahana MJ, Rutishauser U, Williams ZM, Cash SS, Paulk AC, Zheng J, Beauchamp MS, Collinger JL, Pouratian N, McGuire AL, Sheth SA. Benefits of sharing neurophysiology data from the BRAIN Initiative Research Opportunities in Humans Consortium. Neuron 2023;111:3710-3715. [PMID: 37944519 PMCID: PMC10995938 DOI: 10.1016/j.neuron.2023.09.029] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Revised: 09/21/2023] [Accepted: 09/21/2023] [Indexed: 11/12/2023]
12
Emissah H, Ljungquist B, Ascoli GA. Bibliometric analysis of neuroscience publications quantifies the impact of data sharing. Bioinformatics 2023;39:btad746. [PMID: 38070153 PMCID: PMC10733721 DOI: 10.1093/bioinformatics/btad746] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2023] [Revised: 11/01/2023] [Accepted: 12/07/2023] [Indexed: 12/19/2023]  Open
13
Belliard F, Maineri AM, Plomp E, Ramos Padilla AF, Sun J, Zare Jeddi M. Ten simple rules for starting FAIR discussions in your community. PLoS Comput Biol 2023;19:e1011668. [PMID: 38096152 PMCID: PMC10721007 DOI: 10.1371/journal.pcbi.1011668] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2023]  Open
14
Lewis A, Young MJ, Rohaut B, Jox RJ, Claassen J, Creutzfeldt CJ, Illes J, Kirschen M, Trevick S, Fins JJ. Ethics Along the Continuum of Research Involving Persons with Disorders of Consciousness. Neurocrit Care 2023;39:565-577. [PMID: 36977963 PMCID: PMC11023737 DOI: 10.1007/s12028-023-01708-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2022] [Accepted: 02/23/2023] [Indexed: 03/30/2023]
15
Mehta K, Ljungquist B, Ogden J, Nanda S, Ascoli RG, Ng L, Ascoli GA. Online conversion of reconstructed neural morphologies into standardized SWC format. Nat Commun 2023;14:7429. [PMID: 37973857 PMCID: PMC10654402 DOI: 10.1038/s41467-023-42931-x] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2023] [Accepted: 10/26/2023] [Indexed: 11/19/2023]  Open
16
Valevicius D, Beck N, Kasper L, Boroday S, Bayer J, Rioux P, Caron B, Adalat R, Evans AC, Khalili-Mahani N. Web-based processing of physiological noise in fMRI: addition of the PhysIO toolbox to CBRAIN. Front Neuroinform 2023;17:1251023. [PMID: 37841811 PMCID: PMC10569687 DOI: 10.3389/fninf.2023.1251023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2023] [Accepted: 09/05/2023] [Indexed: 10/17/2023]  Open
17
Emissah H, Ljungquist B, Ascoli GA. Bibliometric analysis of neuroscience publications quantifies the impact of data sharing. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.09.12.557386. [PMID: 37745378 PMCID: PMC10515804 DOI: 10.1101/2023.09.12.557386] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/26/2023]
18
Behan B, Jeanson F, Cheema H, Eng D, Khimji F, Vaccarino AL, Gee T, Evans SG, MacPhee FC, Dong F, Shahnazari S, Sparks A, Martens E, Lasalandra B, Arnott SR, Strother SC, Javadi M, Dharsee M, Evans KR, Nylen K, Mikkelsen T. FAIR in action: Brain-CODE - A neuroscience data sharing platform to accelerate brain research. Front Neuroinform 2023;17:1158378. [PMID: 37274750 PMCID: PMC10233014 DOI: 10.3389/fninf.2023.1158378] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2023] [Accepted: 04/10/2023] [Indexed: 06/06/2023]  Open
19
Renton AI, Dao TT, Johnstone T, Civier O, Sullivan RP, White DJ, Lyons P, Slade BM, Abbott DF, Amos TJ, Bollmann S, Botting A, Campbell MEJ, Chang J, Close TG, Eckstein K, Egan GF, Evas S, Flandin G, Garner KG, Garrido MI, Ghosh SS, Grignard M, Hannan AJ, Huber R, Kaczmarzyk JR, Kasper L, Kuhlmann L, Lou K, Mantilla-Ramos YJ, Mattingley JB, Morris J, Narayanan A, Pestilli F, Puce A, Ribeiro FL, Rogasch NC, Rorden C, Schira M, Shaw TB, Sowman PF, Spitz G, Stewart A, Ye X, Zhu JD, Hughes ME, Narayanan A, Bollmann S. Neurodesk: An accessible, flexible, and portable data analysis environment for reproducible neuroimaging. RESEARCH SQUARE 2023:rs.3.rs-2649734. [PMID: 36993557 PMCID: PMC10055538 DOI: 10.21203/rs.3.rs-2649734/v1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
20
Mittal D, Mease R, Kuner T, Flor H, Kuner R, Andoh J. Data management strategy for a collaborative research center. Gigascience 2022;12:giad049. [PMID: 37401720 PMCID: PMC10318494 DOI: 10.1093/gigascience/giad049] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2022] [Revised: 02/20/2023] [Accepted: 06/11/2023] [Indexed: 07/05/2023]  Open
21
Appukuttan S, Davison AP. Reproducing and quantitatively validating a biologically-constrained point-neuron model of CA1 pyramidal cells. Front Integr Neurosci 2022;16:1041423. [DOI: 10.3389/fnint.2022.1041423] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2022] [Accepted: 10/17/2022] [Indexed: 11/11/2022]  Open
22
Bijari K, Zoubi Y, Ascoli GA. Assisted neuroscience knowledge extraction via machine learning applied to neural reconstruction metadata on NeuroMorpho.Org. Brain Inform 2022;9:26. [PMID: 36344713 PMCID: PMC9640520 DOI: 10.1186/s40708-022-00174-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2022] [Accepted: 10/06/2022] [Indexed: 11/09/2022]  Open
23
Redolfi A, Archetti D, De Francesco S, Crema C, Tagliavini F, Lodi R, Ghidoni R, Gandini Wheeler-Kingshott CAM, Alexander DC, D'Angelo E. Italian, European, and international neuroinformatics efforts: An overview. Eur J Neurosci 2022. [PMID: 36310103 DOI: 10.1111/ejn.15854] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 10/18/2022] [Accepted: 10/18/2022] [Indexed: 12/15/2022]
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