Release Notes Funcoup 4.1 In this update of Funcoup: - Retrained networks with redundance-free Ensembl identifiers for Homo sapiens and Mus musculus. This means that all secondary instances of the same gene (all sharing the same gene symbol) have been removed from the input genomes, and the full networks for all species have been re-generated, resulting in new improved networks for all 17 species. This circumvents problems of gene multiplicity that could arise when using gene symbols that were translated into multiple Ensembl IDs. Details on the changes in number of links and genes for all species caused by this can be found below. - Example genes now selected from a list of well known oncogenes in Homo sapiens. - The Maxlink website is migrated to the Funcoup website. Citations as well as a downloadable version of maxlink can now be found at the Maxlink page in FunCoup: http://funcoup.sbc.su.se/maxlink/ Network Statistics: Version Species Total_Genes Total_Links 1.1 9 104 044 11 834 288 2.0 11 151 012 22 671 736 3.0 11 152 031 37 787 111 4.0 17 200 096 49 222 943 4.1 17 198 490 47 898 607 All previous versions of the funcoup networks can be downloaded as flatfiles from the archive page http://funcoup.sbc.su.se/archive/ Details on changes in the number of links and genes for each species between FunCoup 4.0 and 4.1: Species Nr genes in FC4.0 / FC4.1 Nr links FC4.0 / FC4.1 S. pombe 3 726 / 3 734 277 840 / 279 656 S. cerevisiae 6 232 / 6 232 806 515 / 811 984 R. norvegicus 18 322 / 18 354 5 560 189 / 5 522 500 P. falciparum 2 273 / 2 273 133 158 / 130 278 O. sativa 12 184 / 12 202 2 996 703 / 3 040 397 M. musculus 17 708 / 17 366 6 157 297 / 5 777 375 H. sapiens 18 355 / 17 402 6 403 719 / 5 315 787 G. gallus 12 289 / 12 015 1 608 939 / 1 610 319 E. coli 3 622 / 3 618 111 500 / 111 544 D. rerio 16 612 / 16 474 3 938 535 / 3 933 555 D. melanogaster 9 768 / 9 764 2 174 621 / 2 182 668 C. intestinalis 6 098 / 6 122 1 373 106 / 1 371 687 C. familiaris 17 742 / 17 767 3 853 720 / 4 050 280 C. elegans 13942 / 13915 3 618 485 / 3 605 504 B. taurus 17906 / 17848 4 551 013 / 4 487 849 B. subtilis 3 856 / 3 855 60 553 / 60 531 A. thaliana 19 461 / 19 549 5 597 050 / 5 606 693