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Minimum information about a spinal cord injury experiment: MIASCI

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Insuring that spinal cord injury experiments are interpretable requires that substantial amounts of metadata about the experiments be provided to interested researchers.   An international team of scientists began work in 2012 to develop a reporting standard about Spinal Cord Injury experiments.   As researchers, editors and reviewers begin to use MIASCI, SCI experiments should be more transparent, easier to reproduce and data miners should be able to provide better solutions to exploring the flood of experiments on SCI (over 2800 papers in 2013).  Details about MIASCI can be found at Biosharing and the current version of MIASCI is available a SourceForge.  A paper on MIASCI is out at J Neurotrauma.  

J Neurotrauma. 2014 May 28. [Epub ahead of print]
Minimum Information About a Spinal Cord Injury Experiment (MIASCI) - a proposed reporting standard for spinal cord injury experiments.
Lemmon VP, Ferguson AR, Popovich PG, Xu XM, Snow DM, Igarashi M, Beattie CE, Bixby JL, Consortium M, Abeyruwan SW, Beattie MS, Bethea J, Bradke F, Bresnahan JC, Bunge MB, Callahan A, David S, Dunlop SA, Fawcett J, Fehlings M, Fischer I, Giger RJ, Goshima Y, Grimpe B, Hagg T, Hall ED, Harrison BJ, Harvey AR, He C, He Z, Hirata T, Hoke A, Hulsebosch CE, Hurtado A, Jain A, Kadoya K, Kamiguchi H, Kengaku M, Kocsis JD Ph D, Kwon BK, Lee JK, Liebl DJ PhD, Liu SJ, Lowery LA, Mandrekar-Colucci S, Martin JH, Mason CA, McTigue DM, Mokarram N, Moon LD, Muller HW, Nakamura T, Namba T, Nishibe M, Oinuma I, Oudega M, Pleasure DE, Raisman G, Rasband MN, Reier PJ, Santiago-Medina M, Schwab JM, Schwab ME, Shinmyo Y, Silver J, Smith GM, So KF, Sofroniew MV Md PhD, Strittmatter SM, Tuszynski MH, Twiss JL, Visser U, Watkins TA, Wu W, Yoon SO, Yuzaki M, Zheng B, Zhou F, Zou Y.

A piece of advice:  Publishing a paper with 77 co-authors is a fools errand.
MIASCI.pdf
File Size: 435 kb
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A paper related to MIASCI was published in Neural Regeneration Research:
Facilitating transparency in spinal cord injury studies using data standards and ontologies.  Vance P Lemmon, Saminda Abeyruwan, Ubbo Visser, John L Bixby.   Neural Regeneration Research:  9:6-7, 2014
nrr1401.pdf
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Quoting Adam Ferguson at UCSF: "I always tell the story of the grand cookie challenge when people ask me 'what is wrong with CNS disease research - why can't you replicate!?!?'."

Doing experiments is hard work.  Ask Cookie Monster.
grandcookiechallenge.pdf
File Size: 4682 kb
File Type: pdf
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  • Research
    • LemBix News
    • High Content Screening
    • Kinases and regeneration
    • PNS vs CNS Regeneration
    • RNA-Seq
    • Master Nodes
    • Light Sheet Fluorescent Microscopy
    • MIASCI: a reporting standard
    • RegenBase
    • Assay Guidance Manual
    • BioAssay Ontology
  • Bixby
    • John Bixby PubMed Serch
  • Lemmon
    • BLM
    • Miami Project SCI Course
    • Vance's Papers
    • Back in the day
    • SBI2
    • Growth Cone Videos
    • Bike Safety
    • Miscellaneous
  • Al-Ali
  • Lab Members
    • Group Photos >
      • PAMM 160728
      • ProjectRock 190524
      • Escape Room 210524
    • Abdiel Badillo-Martinez
    • Yania Martinez, VVC Core >
      • Yania's Monarch
    • Melissa Munoz
    • Nick O'Neill, PhD student
    • Yan Shi, M.S. Imaging and HCA Core
    • Former Lab Members >
      • Sam Beckerman, MD/PhD student
      • Willi Buchser, PhD
      • Nathaniel Cleri
      • Danny Cooper, Ph.D.
      • Danny Cabrera
      • Pingping Chen, MD/PhD, Viral Vector Core
      • Matt Danzi, PhD student
      • Roberto E Diaz
      • Kireeti Dulla
      • Laetitia Francelle, Ph.D.
      • Nathan Fox
      • Jared Gans, M.D.
      • Juliana Hemela
      • Pingping Jai, M.S. Viral Vector Core
      • Danny L. John, MS1
      • Victor Jann
      • Ryohei Kurosawa
      • Lyndah Lovell
      • Jeffrey Lowell
      • Kim Madhwani
      • Kar Men Mah, Ph.D.
      • Dario Motti, PhD
      • Maya Murry: Computer Science REU
      • Michael Ortega
      • Marcos Rivas: HHMI SURF
      • Saloni Mehta, PhD student
      • Sevika Singh
      • Tatiana Slepak, M.S.
      • Robin Smith, PhD
      • Moya Tomlin, MS2
      • Enjolie Vadella
      • Eli Weaver, Lab Manager
      • Giulia Zunino, Ph.D.
  • Resources
    • HCS
    • Viral Vector Core
    • Techniques
    • Libraries
    • Forms
    • Wynwood Dec 2015
    • Wynwood Dec 2015 Part 2
    • Wynwood Graffitti
    • Wynwood Jan 2019
    • Wynwood - April 2019 - Karim
    • Wynwood Dec 2019