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Publications du laboratoire en 2016

Publié le 4 août 2022
Bhajun R, Guyon L and Gidrol X
MicroRNA degeneracy and pluripotentiality within a Lavallière-tie architecture confers robustness to gene expression networks.
Cellular and Molecular Life Sciences, 2016, 73(15): 2821-2827

Burger T
Geometric views on conflicting mass functions: From distances to angles.
International Journal of Approximate Reasoning, 2016, 70: 36-50

Cerveau D, Kraut A, Stotz HU, Mueller MJ, Couté Y and Rey P
Characterization of the Arabidopsis thaliana 2-Cys peroxiredoxin interactome.
Plant Science, 2016, 252: 30-41

Dell'Aglio E, Salvi D, Kraut A, Baudet M, Macherel D, Neveu M, Ferro M, Curien G and Rolland N
No plastidial Calmodulin-like proteins detected by two targeted mass-spectrometry approaches and GFP fusion proteins.
New Negatives in Plant Science, 2016, 3: 19–26

Deutsch EW, Overall CM, Van Eyk JE, Baker MS, Paik YK, Weintraub ST, Lane L, Martens L, Vandenbrouck Y, Kusebauch U, Hancock WS, Hermjakob H, Aebersold R, Moritz RL and Omenn GS
Human proteome project mass spectrometry data interpretation guidelines 2.1.
Journal of Proteome Research, 2016, 15(11): 3961-3970

Do CV, Faouzi A, Barette C, Farce A, Fauvarque MO, Colomb E, Catry L, Berthier-Vergnes O, Haftek M, Barret R and Lomberget T
Synthesis and biological evaluation of thiophene and benzo[b]thiophene analogs of combretastatin A-4 and isocombretastatin A-4: A comparison between the linkage positions of the 3,4,5-trimethoxystyrene unit.
Bioorganic and Medicinal Chemistry Letters, 2016, 26(1): 174-180

Duek P, Bairoch A, Gateau A, Vandenbrouck Y and Lane L
Missing protein landscape of human chromosomes 2 and 14: Progress and current status.
Journal of Proteome Research, 2016, 15(11): 3971-3978

Farina F, Gaillard J, Guérin C, Couté Y, Sillibourne J, Blanchoin L and Théry M
The centrosome is an actin-organizing centre.
Nature Cell Biology, 2016, 18(1): 65-75

Garnaud C, Champleboux M, Maubon D, Cornet M and Govin J
Histone deacetylases and their Inhibition in Candida species.
Frontiers in Microbiology, 2016, 7: Article number 1238

Gautheron J, Vucur M, Schneider AT, Severi I, Roderburg C, Roy S, Bartneck M, Schrammen P, Diaz MB, Ehling J, Gremse F, Heymann F, Koppe C, Lammers T, Kiessling F, Van Best N, Pabst O, Courtois G, Linkermann A, Krautwald S, Neumann UP, Tacke F, Trautwein C, Green DR, Longerich T, Frey N, Luedde M, Bluher M, Herzig S, Heikenwalder M and Luedde T
The necroptosis-inducing kinase RIPK3 dampens adipose tissue inflammation and glucose intolerance.
Nature Communications, 2016, 7: 11869

Gay G, Braun L, Brenier-Pinchart MP, Vollaire J, Josserand V, Bertini RL, Varesano A, Touquet B, De Bock PJ, Coute Y, Tardieux I, Bougdour A and Hakimi MA
Toxoplasma gondii TgIST co-opts host chromatin repressors dampening STAT1-dependent gene regulation and IFN-γ-mediated host defenses.
Journal of Experimental Medecine, 2016, 213(9): 1779-1798

Gay O, Gilquin B, Assard N, Stuelsatz P, Delphin C, Lachuer J, Gidrol X and Baudier J
Refilins are short-lived Actin-bundling proteins that regulate lamellipodium protrusion dynamics.
Biology Open, 2016, 5(10): 1351-1361

Giai Gianetto Q, Combes F, Ramus C, Bruley C, Couté Y and Burger T
Calibration plot for proteomics: A graphical tool to visually check the assumptions underlying FDR control in quantitative experiments.
Proteomics, 2016, 16(1): 29-32

Giai Gianetto Q, Couté Y, Bruley C and Burger T
Uses and misuses of the fudge factor in quantitative discovery proteomics.
Proteomics, 2016, 16(14): 1955-1960

Gilquin B, Louwagie M, Jaquinod M, Cez A, Picard G, El Kholy L, Surin B, Garin J, Ferro M, Kofman T, Barau C, Plaisier E, Ronco P and Brun V
Multiplex and accurate quantification of acute kidney injury biomarker candidates in urine using Protein Standard Absolute Quantification (PSAQ) and targeted proteomics.
Talanta, 2016, 164: 77-84

Goold HD, Cuiné S, Légeret B, Liang Y, Brugière S, Auroy P, Javot H, Tardif M, Jones B, Beisson F, Peltier G and Li-Beisson Y
Saturating light induces sustained accumulation of oil in plastidal lipid droplets in Chlamydomonas reinhardtii.
Plant Physiology, 2016, 171(4): 2406-2417

Hesse AM, Dupierris V, Adam C, Court M, Barthe D, Emadali A, Masselon C, Ferro M and Bruley C
hEIDI: An intuitive application tool to organize and treat large-scale proteomics data.
Journal of Proteome Research, 2016, 15(10): 3896-3903

Hodille E, Alekseeva L, Berkova N, Serrier A, Badiou C, Gilquin B, Brun V, Vandenesch F, Terman DS and Lina G
Staphylococcal enterotoxin O exhibits cell cycle modulating activity.
Frontiers in Microbiology, 2016, 7: 441

Jacomin AC, Fauvarque MO and Taillebourg E
A functional endosomal pathway is necessary for lysosome biogenesis in Drosophila.
BMC Cell Biology, 2016, 17(1): 36

Lazar C, Gatto L, Ferro M, Bruley C and Burger T
Accounting for the multiple natures of missing values in label-free quantitative proteomics data sets to compare imputation strategies.
Journal of Proteome Research, 2016, 15(4): 1116-1125

Lee H, Mun DG, So JE, Bae J, Kim H, Masselon C and Lee SW
Efficient exploitation of separation space in two-dimensional liquid chromatography system for comprehensive and efficient proteomic analyses.
Analytical Chemistry, 2016, 88(23): 11734-11741

Ma S, Martin-Laffon J, Mininno M, Gigarel O, Brugiere S, Bastien O, Tardif M, Ravanel S and Alban C
Molecular evolution of the substrate specificity of chloroplastic aldolases/rubisco lysine methyltransferases in plants.
Molecular Plant, 2016, 9(4): 569-581

Michaud M, Gros V, Tardif M, Brugière S, Ferro M, Prinz W, Toulmay A, Mathur J, Wozny M, Falconet D, Maréchal E, Block M and Jouhet J
AtMic60 is involved in plant mitochondria lipid trafficking and is part of a large complex.
Current Biology, 2016, 26(5): 627-639

Momey F, Berdeu A, Bordy T, Dinten JM, Kermarrec Marcel F, Picollet-D’hahan N, Gidrol X and Allier C
Lensfree diffractive tomography for the imaging of 3D cell cultures.
Biomedical Optics Express, 2016, 7(3): 949-962

Monkkonen L, Edgar JS, Winters D, Heron SR, Mackay CL, Masselon CD, Stokes AA, Langridge-Smith PRR and Goodlett DR
Screen-printed digital microfluidics combined with surface acoustic wave nebulization for hydrogen-deuterium exchange measurements.
Journal of Chromatography A, 2016, 1439: 161-166

Osseni A, Sebastien M, Sarrault O, Baudet M, Coute Y, Faure J, Fourest-Lieuvin A and Marty I
Triadin and CLIMP-63 form a link between triads and microtubules in muscle cells.
Journal of Cell Science, 2016, 129(20): 3744-3755

Picollet-D'hahan N, Dolega ME, Liguori L, Marquette C, Le Gac S, Gidrol X and Martin DK
A 3D toolbox to enhance physiological relevance of human tissue models.
Trends in Biotechnology, 2016, 34(9): 757-769

Pinaud S, Portela J, Duval D, Nowacki FC, Olive MA, Allienne JF, Galinier R, Dheilly NM, Kieffer-Jaquinod S, Mitta G, Theron A and Gourbal B
A shift from cellular to humoral responses contributes to innate immune memory in the vector snail Biomphalaria glabrata.
PLoS Pathogens, 2016, 12(1): e1005361

Ramus C, Hovasse A, Marcellin M, Hesse A-M, Mouton-Barbosa E, Bouyssié D, Vaca S, Carapito C, Chaoui K, Bruley C, Garin J, Cianférani S, Ferro M, Dorssaeler AV, Burlet-Schiltz O, Schaeffer C, Couté Y and Gonzalez de Peredo A
Spiked proteomic standard dataset for testing label-free quantitative software and statistical methods.
Data in Brief, 2016, 6: 286-294

Ramus C, Hovasse A, Marcellin M, Hesse AM, Mouton-Barbosa E, Bouyssié D, Vaca S, Carapito C, Chaoui K, Bruley C, Garin J, Cianférani S, Ferro M, Van Dorssaeler A, Burlet-Schiltz O, Schaeffer C, Couté Y and Gonzalez de Peredo A
Benchmarking quantitative label-free LC-MS data processing workflows using a complex spiked proteomic standard dataset.
Journal of Proteomics, 2016, 132: 51-62

Rulina AV, Mittler F, Obeid P, Gerbaud S, Guyon L, Sulpice E, Kermarrec F, Assard N, Dolega ME, Gidrol X and Balakirev MY
Distinct outcomes of CRL-Nedd8 pathway inhibition reveal cancer cell plasticity.
Cell Death and Disease, 2016, 7(12): Article number e2505

Sabra A, Leiba J, Mas L, Louwagie M, Couté Y, Journet A, Cosson P and Aubry L
Pycnosomes: Condensed endosomal structures secreted by dictyostelium amoebae.
PLoS One, 2016, 11(5): e0154875

Salvetti A, Couté Y, Epstein A, Arata L, Kraut A, Navratil V, Bouvet P and Greco A
Nuclear functions of nucleolin through global proteomics and interactomic approaches.
Journal of Proteome Research, 2016, 15(5): 1659-1669

Steingruber M, Kraut A, Socher E, Sticht H, Reichel A, Stamminger T, Amin B, Couté Y, Hutterer C and Marschall M
Proteomic interaction patterns between human cyclins, the cyclin-dependent kinase ortholog pUL97 and additional cytomegalovirus proteins.
Viruses, 2016, 8(8): Article number 219

Tarasova IA, Masselon CD, Gorshkov AV and Gorshkov MV
Predictive chromatography of peptides and proteins as a complementary tool for proteomics.
Analyst, 2016, 141(16): 4816-4832

Vaillier C, Honegger T, Kermarrec F, Gidrol X and Peyrade D
Label-free electric monitoring of human cancer cells as a potential diagnostic tool.
Analytical Chemistry, 2016, 88(18): 9022-9028

Vandenbrouck Y, Lane L, Carapito C, Duek P, Rondel K, Bruley C, Macron C, Gonzalez de Peredo A, Coute Y, Chaoui K, Com E, Gateau A, Hesse AM, Marcellin M, Mear L, Mouton-Barbosa E, Robin T, Burlet-Schiltz O, Cianferani S, Ferro M, Freour T, Lindskog C, Garin J and Pineau C
Looking for missing proteins in the proteome of human spermatozoa: An update.
Journal of Proteome Research, 2016, 15(11): 3998-4019

Wagner R, von Sydow L, Aigner H, Netotea S, Brugiere S, Sjogren L, Ferro M, Clarke A and Funk C
Deletion of FtsH11 protease has impact on chloroplast structure and function in Arabidopsis thaliana when grown under continuous light.
Plant Cell and Environment, 2016, 39(11): 2530-2544

Yang Z, Chen KM, Pandey RR, Homolka D, Reuter M, Janeiro BK, Sachidanandam R, Fauvarque MO, McCarthy AA and Pillai RS
PIWI slicing and EXD1 drive biogenesis of nuclear piRNAs from cytosolic targets of the mouse piRNA pathway.
Molecular Cell, 2016, 61(1): 138–152

Zatylny-Gaudin C, Cornet V, Leduc A, Zanuttini B, Corre E, Le Corguillé G, Bernay B, Garderes J, Kraut A, Couté Y and Henry J
Neuropeptidome of the cephalopod Sepia officinalis: Identification, tissue mapping, and expression pattern of neuropeptides and neurohormones during egg laying.
Journal of Proteome Research, 2016, 15(1): 48-67