Recently I was going through lots of my old xeroxed articles and thought I'd make a reference collection of some "oldies but goodies" – classic research articles that I liked. Here we go....
Genomics
Common sense for our genomes.
Brenner SE.
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SNP detection and genotyping from low-coverage sequencing data on multiple diploid samples.
Le SQ, Durbin R.
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Prostate cancer genomics: towards a new understanding.
Witte JS.
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Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution.
Shah SP, Morin RD, Khattra J, Prentice L, Pugh T, Burleigh A, Delaney A, Gelmon K, Guliany R, Senz J, Steidl C, Holt RA, Jones S, Sun M, Leung G, Moore R, Severson T, Taylor GA, Teschendorff AE, Tse K, Turashvili G, Varhol R, Warren RL, Watson P, Zhao Y, Caldas C,Huntsman D, Hirst M, Marra MA, Aparicio S.
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Repeatability of published microarray gene expression analyses.
Ioannidis JP, Allison DB, Ball CA, Coulibaly I, Cui X, Culhane AC, Falchi M, Furlanello C, Game L, Jurman G, Mangion J, Mehta T,Nitzberg M, Page GP, Petretto E, van Noort V.
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Genome re-annotation: a wiki solution?
Salzberg SL.
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Mining and Statistical Genetics
Mapping complex disease traits with global gene expression.
Cookson W, Liang L, Abecasis G, Moffatt M, Lathrop M.
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Genetic mapping in human disease.
Altshuler D, Daly MJ, Lander ES.
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The genetic basis for cancer treatment decisions.
Dancey JE, Bedard PL, Onetto N, Hudson TJ.
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Bayesian statistical methods for genetic association studies.
Stephens M, Balding DJ.
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Gene set enrichment analysis made simple.
Irizarry RA, Wang C, Zhou Y, Speed TP.
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Genomewide association studies--illuminating biologic pathways.
Hirschhorn JN.
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Detecting gene-gene interactions that underlie human diseases.
Cordell HJ.
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Equilibrium free energies from nonequilibrium measurements using maximum-likelihood methods.
Shirts MR, Bair E, Hooker G, Pande VS.
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On the use of DNA pooling to estimate haplotype frequencies.
Wang S, Kidd KK, Zhao H.
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Beyond odds ratios--communicating disease risk based on genetic profiles.
Kraft P, Wacholder S, Cornelis MC, Hu FB, Hayes RB, Thomas G, Hoover R, Hunter DJ, Chanock S.
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Networks
Complex brain networks: graph theoretical analysis of structural and functional systems.
Bullmore E, Sporns O.
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Evolvability and hierarchy in rewired bacterial gene networks.
Isalan M, Lemerle C, Michalodimitrakis K, Horn C, Beltrao P, Raineri E, Garriga-Canut M, Serrano L.
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Systems biology. Attractors and democratic dynamics.
Bar-Yam Y, Harmon D, de Bivort B.
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New surveyor tools for charting microbial metabolic maps.
Breitling R, Vitkup D, Barrett MP.
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Misc
Pharmacogenomics arrives.
Petsko GA.
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Use and misuse of the gene ontology annotations.
Rhee SY, Wood V, Dolinski K, Draghici S.
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The discovery of structural form.
Kemp C, Tenenbaum JB.
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The language of genes.
Searls DB.
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Genetics of athletic performance.
Ostrander EA, Huson HJ, Ostrander GK.
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Graduate education in the biomedical sciences: critical observations on training for research careers.
Kennedy TJ Jr.
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Creation of a bacterial cell controlled by a chemically synthesized genome.
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Diet and health: what should we eat?
Willett WC.
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Organization, development and function of complex brain networks.
Sporns O, Chialvo DR, Kaiser M, Hilgetag CC.
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Music theory. Geometrical music theory.
Hall RW.
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Social science. Computational social science.
Lazer D, Pentland A, Adamic L, Aral S, Barabasi AL, Brewer D, Christakis N, Contractor N, Fowler J, Gutmann M, Jebara T, King G,Macy M, Roy D, Van Alstyne M.
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Interpreting anonymous DNA samples from mass disasters--probabilistic forensic inference using genetic markers.
Lin TH, Myers EW, Xing EP.
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A diagnostic approach for going beyond panaceas.
Ostrom E.
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Genetic networks of liver metabolism revealed by integration of metabolic and transcriptional profiling.
Ferrara CT, Wang P, Neto EC, Stevens RD, Bain JR, Wenner BR, Ilkayeva OR, Keller MP, Blasiole DA, Kendziorski C, Yandell BS,Newgard CB, Attie AD.
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The scientific research potential of virtual worlds.
Bainbridge WS.
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New models of collaboration in genome-wide association studies: the Genetic Association Information Network.
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