Michael Riffle
TitleCited byYear
Dissecting DNA damage response pathways by analysing protein localization and abundance changes during DNA replication stress
JM Tkach, A Yimit, AY Lee, M Riffle, M Costanzo, D Jaschob, JA Hendry, ...
Nature cell biology 14 (9), 966, 2012
3222012
Assigning function to yeast proteins by integration of technologies
TR Hazbun, L Malmström, S Anderson, BJ Graczyk, B Fox, M Riffle, ...
Molecular cell 12 (6), 1353-1365, 2003
3052003
Transmembrane topology and signal peptide prediction using dynamic bayesian networks
SM Reynolds, L Käll, ME Riffle, JA Bilmes, WS Noble
PLoS computational biology 4 (11), e1000213, 2008
1992008
Integrative phenomics reveals insight into the structure of phenotypic diversity in budding yeast
DA Skelly, GE Merrihew, M Riffle, CF Connelly, EO Kerr, M Johansson, ...
Genome research 23 (9), 1496-1504, 2013
1232013
Large-scale prediction of protein-protein interactions from structures
M Hue, M Riffle, JP Vert, WS Noble
BMC bioinformatics 11 (1), 144, 2010
952010
Kojak: efficient analysis of chemically cross-linked protein complexes
MR Hoopmann, A Zelter, RS Johnson, M Riffle, MJ MacCoss, TN Davis, ...
Journal of proteome research 14 (5), 2190-2198, 2015
862015
Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology
L Malmström, M Riffle, CEM Strauss, D Chivian, TN Davis, R Bonneau, ...
PLoS biology 5 (4), e76, 2007
562007
Bir1 is required for the tension checkpoint
MM Shimogawa, PO Widlund, M Riffle, M Ess, TN Davis
Molecular biology of the cell 20 (3), 915-923, 2009
432009
The yeast resource center public data repository
M Riffle, L Malmström, TN Davis
Nucleic acids research 33 (suppl_1), D378-D382, 2005
412005
The Proteome Folding Project: proteome-scale prediction of structure and function
K Drew, P Winters, GL Butterfoss, V Berstis, K Uplinger, J Armstrong, ...
Genome research 21 (11), 1981-1994, 2011
372011
The molecular architecture of the Dam1 kinetochore complex is defined by cross-linking based structural modelling
A Zelter, M Bonomi, J ook Kim, NT Umbreit, MR Hoopmann, R Johnson, ...
Nature communications 6, 8673, 2015
362015
The yeast resource center public image repository: a large database of fluorescence microscopy images
M Riffle, TN Davis
BMC bioinformatics 11 (1), 263, 2010
352010
Proteomics data repositories
M Riffle, JK Eng
Proteomics 9 (20), 4653-4663, 2009
312009
Regulation of outer kinetochore Ndc80 complex-based microtubule attachments by the central kinetochore Mis12/MIND complex
EM Kudalkar, EA Scarborough, NT Umbreit, A Zelter, DR Gestaut, M Riffle, ...
Proceedings of the National Academy of Sciences 112 (41), E5583-E5589, 2015
292015
The Ndc80 complex bridges two Dam1 complex rings
J ook Kim, A Zelter, NT Umbreit, A Bollozos, M Riffle, R Johnson, ...
Elife 6, e21069, 2017
262017
Critical decisions in metaproteomics: Achieving high confidence protein annotations in a sea of unknowns
E Timmins-Schiffman, DH May, M Mikan, M Riffle, C Frazar, HR Harvey, ...
The ISME journal 11 (2), 309, 2017
262017
Localization of proteins that are coordinately expressed with Cln2 during the cell cycle
BA Sundin, CH Chiu, M Riffle, TN Davis, EGD Muller
Yeast 21 (9), 793-800, 2004
252004
ProXL (Protein Cross-Linking Database): a platform for analysis, visualization, and sharing of protein cross-linking mass spectrometry data
M Riffle, D Jaschob, A Zelter, TN Davis
Journal of proteome research 15 (8), 2863-2870, 2016
242016
De novo identification of DNA modifications enabled by genome-guided nanopore signal processing
MH Stoiber, J Quick, R Egan, JE Lee, SE Celniker, R Neely, N Loman, ...
BioRxiv, 094672, 2016
242016
A mass spectrometry proteomics data management platform
V Sharma, JK Eng, MJ MacCoss, M Riffle
Molecular & Cellular Proteomics 11 (9), 824-831, 2012
232012
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Articles 1–20