J
Jens Allmer
Researcher at İzmir Institute of Technology
Publications - 79
Citations - 3872
Jens Allmer is an academic researcher from İzmir Institute of Technology. The author has contributed to research in topics: MiRBase & Regulation of gene expression. The author has an hindex of 19, co-authored 75 publications receiving 3465 citations. Previous affiliations of Jens Allmer include İzmir University of Economics & University of Pennsylvania.
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Journal ArticleDOI
The Chlamydomonas Genome Reveals the Evolution of Key Animal and Plant Functions
Sabeeha S. Merchant,Simon E. Prochnik,Olivier Vallon,Elizabeth H. Harris,Steven J. Karpowicz,George B. Witman,Astrid Terry,Asaf Salamov,Lillian K. Fritz-Laylin,Laurence Maréchal-Drouard,Wallace F. Marshall,Liang-Hu Qu,David R. Nelson,Anton A. Sanderfoot,Martin H. Spalding,Vladimir V. Kapitonov,Qinghu Ren,Patrick J. Ferris,Erika Lindquist,Harris Shapiro,Susan Lucas,Jane Grimwood,Jeremy Schmutz,Pierre Cardol,Pierre Cardol,Heriberto Cerutti,Guillaume Chanfreau,Chun-Long Chen,Valérie Cognat,Martin T. Croft,Rachel M. Dent,Susan K. Dutcher,Emilio Fernández,Hideya Fukuzawa,David González-Ballester,Diego González-Halphen,Armin Hallmann,Marc Hanikenne,Michael Hippler,William Inwood,Kamel Jabbari,Ming Kalanon,Richard Kuras,Paul A. Lefebvre,Stéphane D. Lemaire,Alexey V. Lobanov,Martin Lohr,Andrea L Manuell,Iris Meier,Laurens Mets,Maria Mittag,Telsa M. Mittelmeier,James V. Moroney,Jeffrey L. Moseley,Carolyn A. Napoli,Aurora M. Nedelcu,Krishna K. Niyogi,Sergey V. Novoselov,Ian T. Paulsen,Greg Pazour,Saul Purton,Jean-Philippe Ral,Diego Mauricio Riaño-Pachón,Wayne R. Riekhof,Linda A. Rymarquis,Michael Schroda,David B. Stern,James G. Umen,Robert D. Willows,Nedra F. Wilson,Sara L. Zimmer,Jens Allmer,Janneke Balk,Katerina Bisova,Chong-Jian Chen,Marek Eliáš,Karla C Gendler,Charles R. Hauser,Mary Rose Lamb,Heidi K. Ledford,Joanne C. Long,Jun Minagawa,M. Dudley Page,Junmin Pan,Wirulda Pootakham,Sanja Roje,Annkatrin Rose,Eric Stahlberg,Aimee M. Terauchi,Pinfen Yang,Steven G. Ball,Chris Bowler,Carol L. Dieckmann,Vadim N. Gladyshev,Pamela J. Green,Richard A. Jorgensen,Stephen P. Mayfield,Bernd Mueller-Roeber,Sathish Rajamani,Richard T. Sayre,Peter Brokstein,Inna Dubchak,David Goodstein,Leila Hornick,Y. Wayne Huang,Jinal Jhaveri,Yigong Luo,Diego Martinez,Wing Chi Abby Ngau,Bobby Otillar,Alexander Poliakov,Aaron Porter,Lukasz Szajkowski,Gregory Werner,Kemin Zhou,Igor V. Grigoriev,Daniel S. Rokhsar,Daniel S. Rokhsar,Arthur R. Grossman +118 more
TL;DR: Analyses of the Chlamydomonas genome advance the understanding of the ancestral eukaryotic cell, reveal previously unknown genes associated with photosynthetic and flagellar functions, and establish links between ciliopathy and the composition and function of flagella.
Journal ArticleDOI
Comparative quantitative proteomics to investigate the remodeling of bioenergetic pathways under iron deficiency in Chlamydomonas reinhardtii
Bianca Naumann,Andreas Busch,Andreas Busch,Jens Allmer,Jens Allmer,Elisabeth Ostendorf,Martin Zeller,Helmut Kirchhoff,Michael Hippler,Michael Hippler +9 more
TL;DR: Iron‐deprivation induces a transition from photoheterotrophic to primarily heterotrophic metabolism, indicating that a hierarchy for iron allocations within organelles of a single cell exists that is closely linked with the metabolic state of the cell.
Journal ArticleDOI
Algorithms for the de novo sequencing of peptides from tandem mass spectra
TL;DR: De novo sequencing can be used to directly assign a peptide sequence to a tandem mass spectrometry spectrum and many algorithms have been proposed and a selection of them are detailed in this article.
Journal ArticleDOI
On the performance of pre-microRNA detection algorithms.
TL;DR: An extensible framework is presented, izMiR, which allows for the unbiased comparison of existing algorithms, adding new ones, and combining multiple approaches into ensemble methods and demonstrates that combining all of the methods into one ensemble approach, for the first time, allows reliable purely computational pre-miRNA detection in large eukaryotic genomes.
Journal ArticleDOI
Mass spectrometric genomic data mining: Novel insights into bioenergetic pathways in Chlamydomonas reinhardtii.
Jens Allmer,Jens Allmer,Bianca Naumann,Bianca Naumann,Christine Markert,Monica Zhang,Michael Hippler +6 more
TL;DR: A new high‐throughput computational strategy was established that improves genomic data mining from MS experiments, resulting in the identification of novel proteins, improved annotation of gene models, and evidence of alternative splicing.