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Comparative Analysis of Gene Regulatory Networks: From Network Reconstruction to Evolution

, , and . Annu. Rev. Cell Dev. Biol., 31 (1): 399--428 (November 2015)
DOI: 10.1146/annurev-cellbio-100913-012908

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Comparative Analysis of Gene Regulatory Networks: From Network Reconstruction to Evolution, , and . Annu. Rev. Cell Dev. Biol., 31 (1): 399--428 (November 2015)Ballast: Blast post-processing based on locally conserved segments., , and . Bioinform., 16 (9): 750-759 (2000)MACSIMS : multiple alignment of complete sequences information management system., , , , , , and . BMC Bioinform., (2006)PipeAlign: a new toolkit for protein family analysis., , , , , , , , , and 6 other author(s). Nucleic Acids Res., 31 (13): 3829-3832 (2003)Improved sensitivity of profile searches through the use of sequence weights and gap excision., , and . Comput. Appl. Biosci., 10 (1): 19-29 (1994)Full-length transcriptome assembly from RNA-Seq data without a reference genome, , , , , , , , , and 11 other author(s). Nat Biotechnol, 29 (7): 644--652 (July 2011)Comparative analysis of RNA sequencing methods for degraded or low-input samples., , , , , , , , , and 4 other author(s). Nat Methods, 10 (7): 623--629 (July 2013)BAliBASE (Benchmark Alignment dataBASE): enhancements for repeats, transmembrane sequences and circular permutations., , , and . Nucleic Acids Res., 29 (1): 323-326 (2001)A new protein linear motif benchmark for multiple sequence alignment software., , , , and . BMC Bioinform., (2008)MEMSA: A Robust Parisian EA for Multidimensional Multiple Sequence Alignment., , and . Artificial Evolution, volume 10764 of Lecture Notes in Computer Science, page 88-99. Springer, (2017)