Transcriptome architecture across tissues in the pig

doi:10.1186/1471-2164-9-173

BMC Genomics

Volume 9

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Ferraz AL
Ojeda A
López-Béjar M
Fernandes LT
Castelló A
Folch JM
Pérez-Enciso M

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Ojeda A
López-Béjar M
Fernandes LT
Castelló A
Folch JM
Pérez-Enciso M
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Research article

Transcriptome architecture across tissues in the pig

André LJ Ferraz¹^,2 , Ana Ojeda¹ , Manel López-Béjar³ , Lana T Fernandes⁴ , Anna Castelló¹ , Josep M Folch¹ and Miguel Pérez-Enciso¹^,5

¹Departament de Ciència Animal i dels Aliments, Facultat de Veterinària, Universitat Autònoma de Barcelona, 08193 Bellaterra, Spain

²Faculdade de Ciências Agrárias e Veterinária, Universidade Estadual Paulista (UNESP), 14884-900 Jaboticabal – SP, Brazil

³Departament de Sanitat i d'Anatomia Animals, Facultat de Veterinària, Universitat Autònoma de Barcelona, 08193 Bellaterra, Spain

⁴Centre de Recerca en Sanitat Animal (CReSA), Universitat Autònoma de Barcelona, 08193 Bellaterra, Spain

⁵Institut Català de Recerca i Estudis Avançats (ICREA), C/Lluis Companys 23, 08010 Barcelona, Spain

author email corresponding author email

BMC Genomics 2008, 9:173doi:10.1186/1471-2164-9-173


Published:	16 April 2008

Additional files

Additional file 1:

List of extreme probes for each of the tissues grouped according to the three embryonic layers. Ectoderm tissues were olfactory bulb, both hypophyses, pineal gland and hypothalamus; mesoderm comprised fat and muscle tissues; and endoderm, liver, stomach and ileum. An extreme probe for a given group was defined as one where all expression values in the tissue group were either higher or lower than the values in the rest of tissues (Material and Methods). The marginal difference is the difference between the maximum value of the extreme probe in the group of tissues under consideration and the minimum value in the rest of tissues (when marginal difference is negative) or between the minimum value in the group and the maximum value in the rest of tissues (a positive difference). Thus, a negative marginal diference means that the gene is underexpressed; a positive marginal difference, overexpressed. There are two sets of columns for negative and positive marginal differences, respectively.

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Additional file 2:

List of extreme genes for each of the 16 tissues studied. Notation is identical to that in additional file 1.

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Additional file 3:

Primers used for QRT-PCR.

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