Works by BERNT, MATTHIAS

Results: 47

Democratizing data-independent acquisition proteomics analysis on public cloud infrastructures via the Galaxy framework.

Published in:

GigaScience, 2022, v. 11, p. 1, doi. 10.1093/gigascience/giac005

By:

Fahrner, Matthias;
Föll, Melanie Christine;
Grüning, Björn Andreas;
Bernt, Matthias;
Röst, Hannes;
Schilling, Oliver

Publication type:

Article

Very particular, or rather universal? Gentrification through the lenses of Ghertner and López-Morales.

Published in:

City (1360-4813), 2016, v. 20, n. 4, p. 637, doi. 10.1080/13604813.2016.1143682

By:

Bernt, Matthias

Publication type:

Article

Is it, or is not? The conceptualisation of gentrification and displacement and its political implications in the case of Berlin-Prenzlauer Berg.

Published in:

City (1360-4813), 2009, v. 13, n. 2/3, p. 312, doi. 10.1080/13604810902982268

By:

Bernt, Matthias;
Holm, Andrej

Publication type:

Article

Power, politics and peripheralization: Two Eastern German cities.

Published in:

European Urban & Regional Studies, 2017, v. 24, n. 3, p. 258, doi. 10.1177/0969776416637207

By:

Kühn, Manfred;
Bernt, Matthias;
Colini, Laura

Publication type:

Article

Varieties of shrinkage in European cities.

Published in:

European Urban & Regional Studies, 2016, v. 23, n. 1, p. 86, doi. 10.1177/0969776413481985

By:

Haase, Annegret;
Bernt, Matthias;
Großmann, Katrin;
Mykhnenko, Vlad;
Rink, Dieter

Publication type:

Article

deepFPlearn<sup>+</sup>: enhancing toxicity prediction across the chemical universe using graph neural networks.

Published in:

Bioinformatics, 2023, v. 39, n. 12, p. 1, doi. 10.1093/bioinformatics/btad713

By:

Soulios, Kyriakos;
Scheibe, Patrick;
Bernt, Matthias;
Hackermüller, Jörg;
Schor, Jana

Publication type:

Article

Improved systematic tRNA gene annotation allows new insights into the evolution of mitochondrial tRNA structures and into the mechanisms of mitochondrial genome rearrangements.

Published in:

Nucleic Acids Research, 2012, v. 40, n. 7, p. 2833, doi. 10.1093/nar/gkr1131

By:

Jühling, Frank;
Pütz, Joern;
Bernt, Matthias;
Donath, Alexander;
Middendorf, Martin;
Florentz, Catherine;
Stadler, Peter F.

Publication type:

Article

CREx: inferring genomic rearrangements based on common intervals.

Published in:

Bioinformatics, 2007, v. 23, n. 21, p. 2957, doi. 10.1093/bioinformatics/btm468

By:

Matthias Bernt;
Daniel Merkle;
Kai Ramsch;
Guido Fritzsch;
Marleen Perseke;
Detlef Bernhard;
Martin Schlegel;
Peter F. Stadler;
Martin Middendorf

Publication type:

Article

POST‐SOCIALIST GENTRIFICATIONS: Similar, but Different.

Published in:

International Journal of Urban & Regional Research, 2025, v. 49, n. 3, p. 531, doi. 10.1111/1468-2427.13321

By:

Bernt, Matthias;
Ogrododwczyk, Agnieszka

Publication type:

Article

Privatization, Financialization and State Restructuring in Eastern Germany: The case of Am südpark.

Published in:

International Journal of Urban & Regional Research, 2017, v. 41, n. 4, p. 555, doi. 10.1111/1468-2427.12521

By:

Bernt, Matthias;
Colini, Laura;
Förste, Daniel

Publication type:

Article

The Limits of Shrinkage: Conceptual Pitfalls and Alternatives in the Discussion of Urban Population Loss.

Published in:

International Journal of Urban & Regional Research, 2016, v. 40, n. 2, p. 441, doi. 10.1111/1468-2427.12289

By:

Bernt, Matthias

Publication type:

Article

Global Gentrifications: Uneven Development and Displacement.

Published in:

International Journal of Urban & Regional Research, 2015, v. 39, n. 6, p. 1284, doi. 10.1111/1468-2427.12308

By:

Bernt, Matthias

Publication type:

Article

How does(n't) Urban Shrinkage get onto the Agenda? Experiences from Leipzig, Liverpool, Genoa and Bytom.

Published in:

International Journal of Urban & Regional Research, 2014, v. 38, n. 5, p. 1749, doi. 10.1111/1468-2427.12101

By:

Bernt, Matthias;
Haase, Annegret;
Großmann, Katrin;
Cocks, Matthew;
Couch, Chris;
Cortese, Caterina;
Krzysztofik, Robert

Publication type:

Article

‘Not Relevant to the System’: The Crisis in the Backyards.

Published in:

2010

By:

BERNT, MATTHIAS;
RINK, DIETER

Publication type:

Essay

Partnerships for Demolition: The Governance of Urban Renewal in East Germany's Shrinking Cities.

Published in:

International Journal of Urban & Regional Research, 2009, v. 33, n. 3, p. 754, doi. 10.1111/j.1468-2427.2009.00856.x

By:

BERNT, MATTHIAS

Publication type:

Article

Gentrification between urban and rural.

Published in:

Dialogues in Human Geography, 2018, v. 8, n. 1, p. 31, doi. 10.1177/2043820617752001

By:

Bernt, Matthias

Publication type:

Article

Aberrant Mitochondrial tRNA Genes Appear Frequently in Animal Evolution.

Published in:

Genome Biology & Evolution, 2024, v. 16, n. 11, p. 1, doi. 10.1093/gbe/evae232

By:

Ozerova, Iuliia;
Fallmann, Jörg;
Mörl, Mario;
Bernt, Matthias;
Prohaska, Sonja J;
Stadler, Peter F

Publication type:

Article

Mitogenomics Reveals a Novel Genetic Code in Hemichordata.

Published in:

Genome Biology & Evolution, 2019, v. 11, n. 1, p. 29, doi. 10.1093/gbe/evy254

By:

Li, Yuanning;
Kocot, Kevin M;
Tassia, Michael G;
Cannon, Johanna T;
Bernt, Matthias;
Halanych, Kenneth M

Publication type:

Article

The Perils of Commodification Gaps.

Published in:

Dialogues in Urban Research, 2024, v. 2, n. 2, p. 257, doi. 10.1177/27541258241258716

By:

Bernt, Matthias

Publication type:

Article

Residential Segregation.

Published in:

Encyclopedia, 2023, v. 3, n. 4, p. 1401, doi. 10.3390/encyclopedia3040100

By:

Bernt, Matthias;
Volkmann, Anne

Publication type:

Article

AI for predicting chemical-effect associations at the chemical universe level—deepFPlearn.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 5, p. 1, doi. 10.1093/bib/bbac257

By:

Schor, Jana;
Scheibe, Patrick;
Bernt, Matthias;
Busch, Wibke;
Lai, Chih;
Hackermüller, Jörg

Publication type:

Article

A Galaxy of informatics resources for MS-based proteomics.

Published in:

Expert Review of Proteomics, 2023, v. 20, n. 11, p. 251, doi. 10.1080/14789450.2023.2265062

By:

Mehta, Subina;
Bernt, Matthias;
Chambers, Matthew;
Fahrner, Matthias;
Föll, Melanie Christine;
Gruening, Bjoern;
Horro, Carlos;
Johnson, James E.;
Loux, Valentin;
Rajczewski, Andrew T.;
Schilling, Oliver;
Vandenbrouck, Yves;
Gustafsson, Ove Johan Ragnar;
Thang, W. C. Mike;
Hyde, Cameron;
Price, Gareth;
Jagtap, Pratik D.;
Griffin, Timothy J.

Publication type:

Article

The enigmatic mitochondrial genome of Rhabdopleura compacta (Pterobranchia) reveals insights into selection of an efficient tRNA system and supports monophyly of Ambulacraria.

Published in:

BMC Evolutionary Biology, 2011, v. 11, n. 1, p. 134, doi. 10.1186/1471-2148-11-134

By:

Perseke, Marleen;
Hetmank, Joerg;
Bernt, Matthias;
Stadler, Peter F.;
Schlegel, Martin;
Bernhard, Detlef

Publication type:

Article

EqualTDRL: illustrating equivalent tandem duplication random loss rearrangements.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2170-x

By:

Hartmann, Tom;
Bernt, Matthias;
Middendorf, Martin

Publication type:

Article

When the tap stays dry: water networks in eastern Germany.

Published in:

Local Environment, 2009, v. 14, n. 5, p. 461, doi. 10.1080/13549830902903781

By:

Naumann, Matthias;
Bernt, Matthias

Publication type:

Article

Fully automated annotation of mitochondrial genomes using a cluster-based approach with de Bruijn graphs.

Published in:

Frontiers in Genetics, 2023, p. 1, doi. 10.3389/fgene.2023.1250907

By:

Fiedler, Lisa;
Middendorf, Martin;
Bernt, Matthias

Publication type:

Article

„Das ging ja nur hier...“ -- Wohneigentümerstrukturen und Segregation in ostdeutschen Großwohnsiedlungen.

Published in:

Raumforschung und Raumordnung, 2023, v. 81, n. 3, p. 239, doi. 10.14512/rur.472

By:

Bernt, Matthias;
Böhmer, Felix

Publication type:

Article

Wachsen durch wen? Stadtentwicklungsstrategien in Bremen und Leipzig im Umgang mit Migration.

Published in:

Raumforschung und Raumordnung, 2019, v. 77, n. 5, p. 493, doi. 10.2478/rara-2019-0014

By:

Kühn, Manfred;
Bernt, Matthias

Publication type:

Article

Bevölkerungsrückgang und Alterung als maßgebliche Entwicklungsdeterminanten: der Fall Weißwasser.

Published in:

Raumforschung und Raumordnung, 2005, v. 63, n. 3, p. 216, doi. 10.1007/BF03182954

By:

Bernt, Matthias;
Peter, Andreas

Publication type:

Article

Mitochondrial genome evolution in species belonging to the Phialocephala fortinii s.l. - Acephala applanata species complex.

Published in:

BMC Genomics, 2012, v. 13, n. 1, p. 166, doi. 10.1186/1471-2164-13-166

By:

Duï¿½, Angelo;
Bruggmann, Rï¿½my;
Zoller, Stefan;
Bernt, Matthias;
Grï¿½nig, Christoph R.

Publication type:

Article

The political economy of managing decline and rightsizing.

Published in:

Urban Geography, 2019, v. 40, n. 2, p. 165, doi. 10.1080/02723638.2018.1524654

By:

Aalbers, Manuel B.;
Bernt, Matthias

Publication type:

Article

The emergence of "Stadtumbau Ost".

Published in:

Urban Geography, 2019, v. 40, n. 2, p. 174, doi. 10.1080/02723638.2017.1332926

By:

Bernt, Matthias

Publication type:

Article

DeGeCI 1.1: a web platform for gene annotation of mitochondrial genomes.

Published in:

Bioinformatics Advances, 2024, v. 4, n. 1, p. 1, doi. 10.1093/bioadv/vbae072

By:

Fiedler, Lisa;
Bernt, Matthias;
Middendorf, Martin

Publication type:

Article

Expanding the Galaxy's reference data.

Published in:

Bioinformatics Advances, 2022, v. 2, n. 1, p. 1, doi. 10.1093/bioadv/vbac030

By:

VijayKrishna, Nagampalli;
Joshi, Jayadev;
Coraor, Nate;
Hillman-Jackson, Jennifer;
Bouvier, Dave;
van den Beek, Marius;
Eguinoa, Ignacio;
Coppens, Frederik;
Davis, John;
Stolarczyk, Michał;
Sheffield, Nathan C;
Gladman, Simon;
Cuccuru, Gianmauro;
Grüning, Björn;
Soranzo, Nicola;
Rasche, Helena;
Langhorst, Bradley W;
Bernt, Matthias;
Fornika, Dan;
Morais, David Anderson de Lima

Publication type:

Article

Partially local three-way alignments and the sequence signatures of mitochondrial genome rearrangements.

Published in:

Algorithms for Molecular Biology, 2017, v. 12, p. 1, doi. 10.1186/s13015-017-0113-0

By:

Al Arab, Marwa;
Bernt, Matthias;
Siederdissen, Christian Höner zu;
Tout, Kifah;
Stadler, Peter F.

Publication type:

Article

A method for computing an inventory of metazoan mitochondrial gene order rearrangements.

Published in:

BMC Bioinformatics, 2011, v. 12, n. Suppl 9, p. 1, doi. 10.1186/1471-2105-12-S9-S6

By:

Bernt, Matthias;
Middendorf, Martin

Publication type:

Article

Local Similarity Search to Find Gene Indicators in Mitochondrial Genomes.

Published in:

Biology (2079-7737), 2014, v. 3, n. 1, p. 220, doi. 10.3390/biology3010220

By:

Moritz, Ruby L. V.;
Bernt, Matthias;
Middendorf, Martin

Publication type:

Article

Improved annotation of protein-coding genes boundaries in metazoan mitochondrial genomes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 20, p. 10543, doi. 10.1093/nar/gkz833

By:

Donath, Alexander;
Jühling, Frank;
Al-Arab, Marwa;
Bernhart, Stephan H;
Reinhardt, Franziska;
Stadler, Peter F;
Middendorf, Martin;
Bernt, Matthias

Publication type:

Article

Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 16, p. 8044, doi. 10.1093/nar/gkv746

By:

Sahyoun, Abdullah H.;
Hölzer, Martin;
Jühling, Frank;
zu Siederdissen, Christian Höner;
Al-Arab, Marwa;
Tout, Kifah;
Marz, Manja;
Middendorf, Martin;
Stadler, Peter F.;
Bernt, Matthias

Publication type:

Article

‘URBAN REGIMES' AND ‘MIGRATION REGIMES': CONTRADICTIONS, CONNECTIONS AND POTENTIALS.

Published in:

Erdkunde, 2019, v. 73, n. 1, p. 9, doi. 10.3112/erdkunde.2019.01.03

By:

BERNT, MATTHIAS

Publication type:

Article

Detecting gene breakpoints in noisy genome sequences using position-annotated colored de-Bruijn graphs.

Published in:

BMC Bioinformatics, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s12859-023-05371-4

By:

Fiedler, Lisa;
Bernt, Matthias;
Middendorf, Martin;
Stadler, Peter F.

Publication type:

Article

How post-socialist is gentrification? Observations in East Berlin and Saint Petersburg.

Published in:

Eurasian Geography & Economics, 2016, v. 57, n. 4/5, p. 565, doi. 10.1080/15387216.2016.1259079

By:

Bernt, Matthias

Publication type:

Article

Migration and Strategic Urban Planning: The Case of Leipzig.

Published in:

disP: The Planning Review, 2019, v. 55, n. 3, p. 56, doi. 10.1080/02513625.2019.1671002

By:

Bernt, Matthias

Publication type:

Article

Governance im Peripherisierungskontext – Handlungsansätze der Stadtpolitik.

Published in:

2012

By:

Bernt, Matthias;
Liebmann, Heike

Publication type:

Case Study

Special issue Intro: housing estates in the era of marketization – governance practices and urban planning.

Published in:

Journal of Housing & the Built Environment, 2023, v. 38, n. 1, p. 1, doi. 10.1007/s10901-022-09976-8

By:

Leetmaa, Kadri;
Bernt, Matthias

Publication type:

Article

Dwelling in failure: power and uncertainty in a socialist large housing estate regeneration program in Saint Petersburg, Russia.

Published in:

Journal of Housing & the Built Environment, 2023, v. 38, n. 1, p. 85, doi. 10.1007/s10901-021-09892-3

By:

Korableva, Ekaterina;
Shirobokova, Irina;
Pachenkov, Oleg;
Bernt, Matthias

Publication type:

Article

Correction to: Dwelling in failure: power and uncertainty in a socialist large housing estate regeneration program in Saint Petersburg, Russia.

Published in:

2022

By:

Korableva, Ekaterina;
Shirobokova, Irina;
Pachenkov, Oleg;
Bernt, Matthias

Publication type:

Correction Notice