bovine conceptuses were collected at day 18 post - insemination ( or dpi ; day of insemination as day 0 ) . for each conceptus , the embryonic disc was dissected out and the extra - embryonic tissues stored in dmem supplemented with 10% fetal calf serum ( fcs ) , on ice , until tissue digestion . animal use and care were performed in accordance with the international guiding principles for biomedical research involving animals at the inra experimental farm ( registered under no . frtb910 in the national registry ) and the protocols for these studies were approved by the local ethics committee ( comit d'ethique en exprimentation animale du centre inra de jouy - en - josas et agroparistech ( or comethea ) , registered as 12/084 and 12/086 in the national ethics committee registry . for the microarray analyses , 3 independent isolation and culture procedures were performed , each starting from 10 to 12 d18 embryos . each derivation included the three cell types which were grown for up to 1  week . btcs , bxecs , and bxmcs were isolated as previously described for human trophoblast cells . briefly , the extra - embryonic tissues were digested with a sterile 0.05% ( w / v ) collagenase / trypsin solution ( gibco life sciences ) at 37  c . the pelleted cells were resuspended in dmem and filtered through a sterile 70-m filter ( bd biosciences ) prior to separation on a 55%20% percoll density gradient . all fractions were collected and cell viability was determined with trypan blue dye ( invitrogen ) . btcs were grown either on collagen iv- or matrigel - coated culture dishes , whereas bxecs and bxmcs were grown directly on plastic culture dishes in dmem ( supplemented with 10% fcs , 2  mm glutamine , 100  iu / ml penicillin , and 100  g / ml streptomycin ) . btcs , bxecs , and bxmcs were scraped off the culture dishes , put into 1.5  ml tubes , and centrifuged , and the cell pellets were snap - frozen and stored at   80  c until used . to isolate the three extra - embryonic cell populations , frozen d18 bovine conceptuses were sectioned into 10-m slices . from these , the trophoblast , extra - embryonic endoderm , and extra - embryonic mesoderm cells were micro - dissected , using the laser pressure catapulting technique adapted from a previous study . total rna was isolated using the rneasy mini kit with in - column dnase digestion ( qiagen ) and t7 linear amplification was performed using the messageamp arna kit ( ambion )   after bias assessment . briefly , 1  g of total rna was incubated with 500  ng of an anchored t7-(dt ) primer in 12  l ( water ) at 70  c for 10  min . the 1st cdna strand was synthesized by the addition of 2  l first - strand buffer , 1  l rnase inhibitor , 4  l dntp mix and 1  l reverse transcriptase mix and incubation at 42  c for 2  h. the second strand synthesis was performed by the addition of 63  l depc - treated water , 10  l  second - strand buffer , 4  l dntp mix , 2  l dna polymerase , 1  l rnase h and incubation at 16  c for 2  h. dna was extracted with phenol : chloroform : isoamyl alcohol and precipitated in ethanol with 20  g glycogen ( ambion ) . in vitro transcription was carried out at 37  c for 10  h in a 20  l reaction volume . 1  l dnase was added and incubated at 37  c for 30  min . rna was purified on mini quick spin rna columns ( roche diagnostic ) and its quality verified on rna 6000 lab - chips ( bioanalyser 2100 ; agilent technologies ) . briefly , 500  ng of amplified rna ( arna ) was labeled with [ p ] datp by reverse - transcription and hybridized to an inra bovine 10k array ( gpl7417 ) using expresshyb hybridization solution ( clontech ) at 68  c overnight . arrays were washed four times in 2   ssc , 1% sds and once in 0.1   ssc , 0.5% sds at 68  c for 30  min each . the hybridization signals were quantified with imagene 5.5 software ( biodiscovery ) on the pict / ice platform . these datasets are available in the gene expression omnibus database ( http://www.ncbi.nlm.nih.gov/geo , gse52967 ) . bovine conceptuses were collected at day 18 post - insemination ( or dpi ; day of insemination as day 0 ) . for each conceptus , the embryonic disc was dissected out and the extra - embryonic tissues stored in dmem supplemented with 10% fetal calf serum ( fcs ) , on ice , until tissue digestion . animal use and care were performed in accordance with the international guiding principles for biomedical research involving animals at the inra experimental farm ( registered under no . frtb910 in the national registry ) and the protocols for these studies were approved by the local ethics committee ( comit d'ethique en exprimentation animale du centre inra de jouy - en - josas et agroparistech ( or comethea ) , registered as 12/084 and 12/086 in the national ethics committee registry . for the microarray analyses , 3 independent isolation and culture procedures were performed , each starting from 10 to 12 d18 embryos . each derivation included the three cell types which were grown for up to 1  week . btcs , bxecs , and bxmcs were isolated as previously described for human trophoblast cells . briefly , the extra - embryonic tissues were digested with a sterile 0.05% ( w / v ) collagenase / trypsin solution ( gibco life sciences ) at 37  c . the pelleted cells were resuspended in dmem and filtered through a sterile 70-m filter ( bd biosciences ) prior to separation on a 55%20% percoll density gradient . all fractions were collected and cell viability was determined with trypan blue dye ( invitrogen ) . btcs were grown either on collagen iv- or matrigel - coated culture dishes , whereas bxecs and bxmcs were grown directly on plastic culture dishes in dmem ( supplemented with 10% fcs , 2  mm glutamine , 100  iu / ml penicillin , and 100  g / ml streptomycin ) . btcs , bxecs , and bxmcs were scraped off the culture dishes , put into 1.5  ml tubes , and centrifuged , and the cell pellets were snap - frozen and stored at   80  c until used . to isolate the three extra - embryonic cell populations , frozen d18 bovine conceptuses were sectioned into 10-m slices . from these , the trophoblast , extra - embryonic endoderm , and extra - embryonic mesoderm cells were micro - dissected , using the laser pressure catapulting technique adapted from a previous study . total rna was isolated using the rneasy mini kit with in - column dnase digestion ( qiagen ) and t7 linear amplification was performed using the messageamp arna kit ( ambion )   after bias assessment . briefly , 1  g of total rna was incubated with 500  ng of an anchored t7-(dt ) primer in 12  l ( water ) at 70  c for 10  min . the 1st cdna strand was synthesized by the addition of 2  l first - strand buffer , 1  l rnase inhibitor , 4  l dntp mix and 1  l reverse transcriptase mix and incubation at 42  c for 2  h. the second strand synthesis was performed by the addition of 63  l depc - treated water , 10  l  second - strand buffer , 4  l dntp mix , 2  l dna polymerase , 1  l rnase h and incubation at 16  c for 2  h. dna was extracted with phenol : chloroform : isoamyl alcohol and precipitated in ethanol with 20  g glycogen ( ambion ) . in vitro transcription was carried out at 37  c for 10  h in a 20  l reaction volume . 1  l dnase was added and incubated at 37  c for 30  min . rna was purified on mini quick spin rna columns ( roche diagnostic ) and its quality verified on rna 6000 lab - chips ( bioanalyser 2100 ; agilent technologies ) . briefly , 500  ng of amplified rna ( arna ) was labeled with [ p ] datp by reverse - transcription and hybridized to an inra bovine 10k array ( gpl7417 ) using expresshyb hybridization solution ( clontech ) at 68  c overnight . arrays were washed four times in 2   ssc , 1% sds and once in 0.1   ssc , 0.5% sds at 68  c for 30  min each . the hybridization signals were quantified with imagene 5.5 software ( biodiscovery ) on the pict / ice platform . these datasets are available in the gene expression omnibus database ( http://www.ncbi.nlm.nih.gov/geo , gse52967 ) .
the dataset described in this article pertains to the article by hue et al . 
 ( 2015 ) entitled  primary bovine extra - embryonic cultured cells : a new resource for the study of in vivo peri - implanting phenotypes and mesoderm formation  [ 1 ] . in mammals , 
 extra - embryonic tissues are essential to support not only embryo patterning but also embryo survival , especially in late implanting species . 
 these tissues are composed of three cell types : trophoblast ( btcs ) , endoderm ( bxecs ) and mesoderm ( bxmcs ) . until now , it is unclear how these cells interact . in this study , we have established primary cell cultures of extra - embryonic tissues from bovine embryos collected at day-18 after artificial insemination . 
 we used our homemade bovine 10k array ( gpl7417 ) to analyze the gene expression profiles of these primary extra - embryonic cultured cells compared to the corresponding cells from in vivo micro - dissected embryos . here , we described the experimental design , the isolation of bovine extra - embryonic cell types as well as the microarray expression analysis . 
 the dataset has been deposited in gene expression omnibus ( geo ) ( accession number gse52967 ) . 
 finally , these primary cell cultures were a powerful tool to start studying their cellular properties , and will further allow in vitro studies on cellular interactions among extra - embryonic tissues , and potentially between extra - embryonic vs embryonic tissues .