Significant correlation of cytoscape network. (XLS 51 kb)

Liver specific lncRNA analysis. (XLSX 349 kb)

Classification and subgroup analysis of downregulated lncRNAs. (XLSX 92 kb)

Classification and subgroup analysis of upregulated lncRNAs. (XLSX 206 kb)

Significantly differentially expressed lncRNAs and mRNAs. (XLS 2545 kb)

Target pathway enrichment. (XLSX 107 kb)

Target GO enrichment. (XLSX 443 kb)

N vs C pathway enrichment. (XLSX 351 kb)

N vs C GO enrichment. (XLSX 1980 kb)

Genes targeted for massively parallel sequencing. Table S3. Summary of sequencing metrics for 19 paired plasma and PBL DNA samples. Table S4. Acoustic shearing conditions. Table S5. Donor characteristics and KRAS variant allele frequency. (XLSX 19 kb)

Target prediction summary. (XLS 2 kb)

List of references included in the review made available through local sources. (XLSX 39 kb)

List of references included in the review retrieved through online international databases. (XLSX 30 kb)

Manual tracking of the left atrial endocardium from healthy controls (A) and patient cases (B). (ZIP 1184 kb)

Full volume image of the left atrium from healthy controls (A) and patient cases (B). (ZIP 1549 kb)

Genotypes of replicate samples. Table S2. Results of the Fisher’s exact test on differences in allele and genotype frequencies between sexes for the PDON pool. Table S3. Results of the Fisher’s exact test on differences in allele and genotype frequencies between sexes for the PAND pool. Table S4. Basic population genetics statistics per autosomal marker for both genetic pools. Table S5. Basic population genetics statistics per X-linked marker for both genetic pools. Table S6. Results...

Additional file 1. A spreadsheet containing all raw data generated and analyzed during this study. The first sheet contains the data for cultivar ‘RSL NFR’ and the second sheet contains the data for cultivar ‘Winter Density’.

OvineGeneticMap.IMF.txt. This file contains information about physical and genetics positions for the entire sheep genome assembly (ISGC Oar_v3.1). The first line gives the correct setting to load it in the UCSC genome browser. This file contains four columns, the chromosome, and the physical position for the previous markers, the physical position for the markers, and the genetic position for a marker. (TXT 1492 kb)

OvineExpectedRecombinationRate.txt. This file contains information about physical and expected recombination rate for the entire sheep genome assembly (ISGC Oar_v3.1). The first line gives the correct setting to load it in the UCSC genome browser. This file contains four columns, the chromosome, the physical position for the previous markers, the physical position for the markers, and the expected recombination rate between the two markers. (TXT 1492 kb)

List of primers used in ChIP-qPCR experiments. The first and second column indicate the loci the primers anneal to, and the name of the primer pairs, respectively. The right column indicates the sequences of the forward (F:) and reverse (R:) primers for each pair. (XLSX 12 kb)

Description of the markers used for the analyses including physical position, number of informative meiosis, number of meiosis with known phase. (XLSX 320 kb)

List of tissue-specific and shared candidates and their linked genes. Columns from the left to right indicate: candidate chromosome location and coordinates and ID followed by chromosome coordinates, IDs, orientation, expression levels in V2-IST and husk of upstream and downstream adjacent genes. The significance of differential expression for flanking genes is indicated. NA means that the upstream or downstream gene did not fulfil the requirement to be associated as a target gene. (XLSX 171 kb)

Clinico-pathological characteristics of GCT tumours included in this study. *Adult-GCT patient samples with unknown FIGO stage information and excluded from recurrence analysis; â  Adult-GCT patient sample with an aggressive clinical progression (progressive disease and tumour recurrence) and excluded from recurrence analysis; aClinical diagnosis based on histopathology; bStaged according to the International Federation of Gynaecology and Obstetrics (FIGO) system. (XLSX 13 kb)

Number of enhancer candidates overlapping with TEs in individual TE families. TE Superfamily column states which TE superfamily the TEs belong to, the TE family column provides the TE family IDs, the family members column lists the total number of elements remaining after removing short and intronic TEs (see methods). For V2-IST, Husk and total enhancer candidates, the number of candidates overlapping at least 80% with TEs within a family and the percent of TEs...

Description of the population based on pedigree information. The description of the populations based on pedigree information is given. (XLSX 15 kb)