Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)

Eric W. Deutsch; Catherine A. Ball; Jules J. Berman; G. Steven Bova; Alvis Brazma; Roger E. Bumgarner; David Campbell; Helen C. Causton; Jeffrey H. Christiansen; Fabrice Daian; Delphine Dauga; Duncan R. Davidson; Gregory Gimenez; Young Ah Goo; Sean Grimmond; Thorsten Henrich; Bernhard G. Herrmann; Michael H. Johnson; Martin Korb; Jason C. Mills; Asa J. Oudes; Helen E. Parkinson; Laura E. Pascal; Nicolas Pollet; John Quackenbush; Mirana Ramialison; Martin Ringwald; David Salgado; Susanna-Assunta Sansone; Gavin Sherlock; Christian J. Stoeckert; Jason Swedlow; Ronald C. Taylor; Laura Walashek; Anthony Warford; David G. Wilkinson; Yi Zhou; Leonard I. Zon; Alvin Y. Liu; Lawrence D. True

doi:10.1038/nbt1391

Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)

Eric W. Deutsch, Catherine A. Ball, Jules J. Berman, G. Steven Bova, Alvis Brazma, Roger E. Bumgarner, David Campbell, Helen C. Causton, Jeffrey H. Christiansen, Fabrice Daian, Delphine Dauga, Duncan R. Davidson, Gregory Gimenez, Young Ah Goo, Sean Grimmond, Thorsten Henrich, Bernhard G. Herrmann, Michael H. Johnson, Martin Korb, Jason C. MillsAsa J. Oudes, Helen E. Parkinson, Laura E. Pascal, Nicolas Pollet, John Quackenbush, Mirana Ramialison, Martin Ringwald, David Salgado, Susanna-Assunta Sansone, Gavin Sherlock, Christian J. Stoeckert, Jason Swedlow, Ronald C. Taylor, Laura Walashek, Anthony Warford, David G. Wilkinson, Yi Zhou, Leonard I. Zon, Alvin Y. Liu, Lawrence D. True

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

106 Citations (Scopus)

Abstract

One purpose of the biomedical literature is to report results in sufficient detail that the methods of data collection and analysis can be independently replicated and verified. Here we present reporting guidelines for gene expression localization experiments: the minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE). MISFISHIE is modeled after the Minimum Information About a Microarray Experiment (MIAME) specification for microarray experiments. Both guidelines define what information should be reported without dictating a format for encoding that information. MISFISHIE describes six types of information to be provided for each experiment: experimental design, biomaterials and treatments, reporters, staining, imaging data and image characterizations. This specification has benefited the consortium within which it was developed and is expected to benefit the wider research community. We welcome feedback from the scientific community to help improve our proposal.

Original language	English
Pages (from-to)	305-312
Number of pages	8
Journal	Nature Biotechnology
Volume	26
Issue number	3
DOIs	https://doi.org/10.1038/nbt1391
Publication status	Published - Mar 2008

Keywords

PROSTATE-CANCER METASTASIS
FUNCTIONAL GENOMICS
BREAST-CANCER
BIOCHEMICAL RECURRENCE
RESISTANCE PROTEIN
ANDROGEN RECEPTOR
SYSTEMS BIOLOGY
MICROARRAY DATA
SMOOTH-MUSCLE
OBJECT MODEL

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1038/nbt1391

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Deutsch, E. W., Ball, C. A., Berman, J. J., Bova, G. S., Brazma, A., Bumgarner, R. E., Campbell, D., Causton, H. C., Christiansen, J. H., Daian, F., Dauga, D., Davidson, D. R., Gimenez, G., Goo, Y. A., Grimmond, S., Henrich, T., Herrmann, B. G., Johnson, M. H., Korb, M., ... True, L. D. (2008). Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE). Nature Biotechnology, 26(3), 305-312. https://doi.org/10.1038/nbt1391

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title = "Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)",

abstract = "One purpose of the biomedical literature is to report results in sufficient detail that the methods of data collection and analysis can be independently replicated and verified. Here we present reporting guidelines for gene expression localization experiments: the minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE). MISFISHIE is modeled after the Minimum Information About a Microarray Experiment (MIAME) specification for microarray experiments. Both guidelines define what information should be reported without dictating a format for encoding that information. MISFISHIE describes six types of information to be provided for each experiment: experimental design, biomaterials and treatments, reporters, staining, imaging data and image characterizations. This specification has benefited the consortium within which it was developed and is expected to benefit the wider research community. We welcome feedback from the scientific community to help improve our proposal.",

keywords = "PROSTATE-CANCER METASTASIS, FUNCTIONAL GENOMICS, BREAST-CANCER, BIOCHEMICAL RECURRENCE, RESISTANCE PROTEIN, ANDROGEN RECEPTOR, SYSTEMS BIOLOGY, MICROARRAY DATA, SMOOTH-MUSCLE, OBJECT MODEL",

author = "Deutsch, {Eric W.} and Ball, {Catherine A.} and Berman, {Jules J.} and Bova, {G. Steven} and Alvis Brazma and Bumgarner, {Roger E.} and David Campbell and Causton, {Helen C.} and Christiansen, {Jeffrey H.} and Fabrice Daian and Delphine Dauga and Davidson, {Duncan R.} and Gregory Gimenez and Goo, {Young Ah} and Sean Grimmond and Thorsten Henrich and Herrmann, {Bernhard G.} and Johnson, {Michael H.} and Martin Korb and Mills, {Jason C.} and Oudes, {Asa J.} and Parkinson, {Helen E.} and Pascal, {Laura E.} and Nicolas Pollet and John Quackenbush and Mirana Ramialison and Martin Ringwald and David Salgado and Susanna-Assunta Sansone and Gavin Sherlock and Stoeckert, {Christian J.} and Jason Swedlow and Taylor, {Ronald C.} and Laura Walashek and Anthony Warford and Wilkinson, {David G.} and Yi Zhou and Zon, {Leonard I.} and Liu, {Alvin Y.} and True, {Lawrence D.}",

year = "2008",

month = mar,

doi = "10.1038/nbt1391",

language = "English",

volume = "26",

pages = "305--312",

journal = "Nature Biotechnology",

issn = "1087-0156",

publisher = "Nature Publishing Group",

number = "3",

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Deutsch, EW, Ball, CA, Berman, JJ, Bova, GS, Brazma, A, Bumgarner, RE, Campbell, D, Causton, HC, Christiansen, JH, Daian, F, Dauga, D, Davidson, DR, Gimenez, G, Goo, YA, Grimmond, S, Henrich, T, Herrmann, BG, Johnson, MH, Korb, M, Mills, JC, Oudes, AJ, Parkinson, HE, Pascal, LE, Pollet, N, Quackenbush, J, Ramialison, M, Ringwald, M, Salgado, D, Sansone, S-A, Sherlock, G, Stoeckert, CJ, Swedlow, J, Taylor, RC, Walashek, L, Warford, A, Wilkinson, DG, Zhou, Y, Zon, LI, Liu, AY & True, LD 2008, 'Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)', Nature Biotechnology, vol. 26, no. 3, pp. 305-312. https://doi.org/10.1038/nbt1391

TY - JOUR

T1 - Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)

AU - Deutsch, Eric W.

AU - Ball, Catherine A.

AU - Berman, Jules J.

AU - Bova, G. Steven

AU - Brazma, Alvis

AU - Bumgarner, Roger E.

AU - Campbell, David

AU - Causton, Helen C.

AU - Christiansen, Jeffrey H.

AU - Daian, Fabrice

AU - Dauga, Delphine

AU - Davidson, Duncan R.

AU - Gimenez, Gregory

AU - Goo, Young Ah

AU - Grimmond, Sean

AU - Henrich, Thorsten

AU - Herrmann, Bernhard G.

AU - Johnson, Michael H.

AU - Korb, Martin

AU - Mills, Jason C.

AU - Oudes, Asa J.

AU - Parkinson, Helen E.

AU - Pascal, Laura E.

AU - Pollet, Nicolas

AU - Quackenbush, John

AU - Ramialison, Mirana

AU - Ringwald, Martin

AU - Salgado, David

AU - Sansone, Susanna-Assunta

AU - Sherlock, Gavin

AU - Stoeckert, Christian J.

AU - Swedlow, Jason

AU - Taylor, Ronald C.

AU - Walashek, Laura

AU - Warford, Anthony

AU - Wilkinson, David G.

AU - Zhou, Yi

AU - Zon, Leonard I.

AU - Liu, Alvin Y.

AU - True, Lawrence D.

PY - 2008/3

Y1 - 2008/3

N2 - One purpose of the biomedical literature is to report results in sufficient detail that the methods of data collection and analysis can be independently replicated and verified. Here we present reporting guidelines for gene expression localization experiments: the minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE). MISFISHIE is modeled after the Minimum Information About a Microarray Experiment (MIAME) specification for microarray experiments. Both guidelines define what information should be reported without dictating a format for encoding that information. MISFISHIE describes six types of information to be provided for each experiment: experimental design, biomaterials and treatments, reporters, staining, imaging data and image characterizations. This specification has benefited the consortium within which it was developed and is expected to benefit the wider research community. We welcome feedback from the scientific community to help improve our proposal.

AB - One purpose of the biomedical literature is to report results in sufficient detail that the methods of data collection and analysis can be independently replicated and verified. Here we present reporting guidelines for gene expression localization experiments: the minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE). MISFISHIE is modeled after the Minimum Information About a Microarray Experiment (MIAME) specification for microarray experiments. Both guidelines define what information should be reported without dictating a format for encoding that information. MISFISHIE describes six types of information to be provided for each experiment: experimental design, biomaterials and treatments, reporters, staining, imaging data and image characterizations. This specification has benefited the consortium within which it was developed and is expected to benefit the wider research community. We welcome feedback from the scientific community to help improve our proposal.

KW - PROSTATE-CANCER METASTASIS

KW - FUNCTIONAL GENOMICS

KW - BREAST-CANCER

KW - BIOCHEMICAL RECURRENCE

KW - RESISTANCE PROTEIN

KW - ANDROGEN RECEPTOR

KW - SYSTEMS BIOLOGY

KW - MICROARRAY DATA

KW - SMOOTH-MUSCLE

KW - OBJECT MODEL

U2 - 10.1038/nbt1391

DO - 10.1038/nbt1391

M3 - Article

C2 - 18327244

SN - 1087-0156

VL - 26

SP - 305

EP - 312

JO - Nature Biotechnology

JF - Nature Biotechnology

IS - 3

ER -

Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)

Abstract

Keywords

UN SDGs

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