Folker Meyer

Summary

Affiliation: Argonne National Laboratory
Country: USA

Publications

  1. pmc The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome
    Daniel McDonald
    Department of Computer Science, Northern Arizona University, Flagstaff, AZ, USA
    Gigascience 1:7. 2012
  2. pmc Short-read reading-frame predictors are not created equal: sequence error causes loss of signal
    William L Trimble
    Computation Institute, University of Chicago, Chicago, IL 60637, USA
    BMC Bioinformatics 13:183. 2012
  3. pmc The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools
    Andreas Wilke
    Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL 60439, USA
    BMC Bioinformatics 13:141. 2012
  4. pmc Functional predictions from inference and observation in sequence-based inflammatory bowel disease research
    Folker Meyer
    Institute for Genomics and Systems Biology, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL 60439, USA
    Genome Biol 13:169. 2012
  5. pmc BMP signaling components in embryonic transcriptomes of the hover fly Episyrphus balteatus (Syrphidae)
    Steffen Lemke
    University of Chicago, Dept, of Organismal Biology and Anatomy, CLSC 921B, 920 E, 58th Street, Chicago, IL 60637, USA
    BMC Genomics 12:278. 2011
  6. pmc Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG
    Suparna Mitra
    Center for Bioinformatics ZBIT, Tubingen University, Sand 14, 72076 Tubingen, Germany
    BMC Bioinformatics 12:S21. 2011
  7. pmc FIGfams: yet another set of protein families
    Folker Meyer
    Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, USA
    Nucleic Acids Res 37:6643-54. 2009
  8. pmc A platform-independent method for detecting errors in metagenomic sequencing data: DRISEE
    Kevin P Keegan
    Argonne National Laboratory, Argonne, Illinois, United States of America
    PLoS Comput Biol 8:e1002541. 2012
  9. pmc Draft genome sequence of Agrobacterium albertimagni strain AOL15
    William L Trimble
    Institute for Genomics and Systems Biology, Argonne National Laboratory, Argonne, Illinois, USA
    J Bacteriol 194:6986-7. 2012
  10. pmc Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset
    Peter E Larsen
    Argonne National Laboratory, 9700, S, Cass Ave, Argonne, Illinois, USA
    Microb Inform Exp 1:4. 2011

Collaborators

Detail Information

Publications14

  1. pmc The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome
    Daniel McDonald
    Department of Computer Science, Northern Arizona University, Flagstaff, AZ, USA
    Gigascience 1:7. 2012
    ....
  2. pmc Short-read reading-frame predictors are not created equal: sequence error causes loss of signal
    William L Trimble
    Computation Institute, University of Chicago, Chicago, IL 60637, USA
    BMC Bioinformatics 13:183. 2012
    ....
  3. pmc The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools
    Andreas Wilke
    Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL 60439, USA
    BMC Bioinformatics 13:141. 2012
    ..Sequence similarity search results encoded in an open, exchangeable format have the potential to limit the needs for computational reanalysis of these data sets. A prerequisite for sharing of similarity results is a common reference...
  4. pmc Functional predictions from inference and observation in sequence-based inflammatory bowel disease research
    Folker Meyer
    Institute for Genomics and Systems Biology, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL 60439, USA
    Genome Biol 13:169. 2012
    ..Meta-omics approaches such as metagenomics, metatranscriptomics and metaproteogenomics have the potential to improve our understanding of how the human microbiome affects digestive health and disease...
  5. pmc BMP signaling components in embryonic transcriptomes of the hover fly Episyrphus balteatus (Syrphidae)
    Steffen Lemke
    University of Chicago, Dept, of Organismal Biology and Anatomy, CLSC 921B, 920 E, 58th Street, Chicago, IL 60637, USA
    BMC Genomics 12:278. 2011
    ..These findings raise the question of whether the complement of BMP signaling components changed with the origin of the amnioserosa...
  6. pmc Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG
    Suparna Mitra
    Center for Bioinformatics ZBIT, Tubingen University, Sand 14, 72076 Tubingen, Germany
    BMC Bioinformatics 12:S21. 2011
    ..The program has subsequently been extended to support comparative analyses of multiple datasets...
  7. pmc FIGfams: yet another set of protein families
    Folker Meyer
    Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, USA
    Nucleic Acids Res 37:6643-54. 2009
    ..FIGfams are freely available under an open source license. These can be downloaded at ftp://ftp.theseed.org/FIGfams/. The web site for FIGfams is http://www.theseed.org/wiki/FIGfams/..
  8. pmc A platform-independent method for detecting errors in metagenomic sequencing data: DRISEE
    Kevin P Keegan
    Argonne National Laboratory, Argonne, Illinois, United States of America
    PLoS Comput Biol 8:e1002541. 2012
    ....
  9. pmc Draft genome sequence of Agrobacterium albertimagni strain AOL15
    William L Trimble
    Institute for Genomics and Systems Biology, Argonne National Laboratory, Argonne, Illinois, USA
    J Bacteriol 194:6986-7. 2012
    ..1 Mb in 55 contigs with 61.2% GC content and includes a 21-gene arsenic gene island. This is the first available genome for this species and the second Agrobacterium arsenic gene island...
  10. pmc Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset
    Peter E Larsen
    Argonne National Laboratory, 9700, S, Cass Ave, Argonne, Illinois, USA
    Microb Inform Exp 1:4. 2011
    ..abstract:..
  11. doi request reprint From genomics to metagenomics
    Narayan Desai
    Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL 60439, USA
    Curr Opin Biotechnol 23:72-6. 2012
    ..Data sharing and interoperability between tools are critical, since computation for metagenomic datasets is very high...
  12. pmc Draft genome sequence of Achromobacter piechaudii strain HLE
    William L Trimble
    Institute for Genomics and Systems Biology, Argonne National Laboratory, Argonne, Illinois, USA
    J Bacteriol 194:6355. 2012
    ..This draft genome of 6.89 Mb is the second available genome for this species in the opportunistic pathogen Alcaligenaceae family...
  13. ncbi request reprint Using the Metagenomics RAST Server (MG-RAST) for Analyzing Shotgun Metagenomes
    Elizabeth M Glass
    Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL 60439, USA
    CSH Protoc 2010:pdb.prot5368. 2010
    ..A submitted metagenome is visible only to the user, unless the user makes it public or shares with other registered users. Public metagenomes are available to all...
  14. doi request reprint Connecting genotype to phenotype in the era of high-throughput sequencing
    Christopher S Henry
    Argonne National Laboratory, Argonne, IL 60439, USA
    Biochim Biophys Acta 1810:967-77. 2011
    ....