Publications

352 entries « 1 of 8 »

Jan Eufinger Jan Korbel, Eva Winkler Oliver Kohlbacher ; Stegle, Oliver

Genomdaten FAIR und sicher teilen: Das Deutsche Humangenom-Phänom Archiv (GHGA) als Baustein der Nationalen Forschungsdateninfrastruktur

Bausteine Forschungsdatenmanagement, 2 , pp. 86-87, 2021.

(Links | BibTeX)

Leon Bichmann Shubham Gupta, George Rosenberger Leon Kuchenbecker Timo Sachsenberg Phil Ewels Oliver Alka Julianus Pfeuffer Oliver Kohlbacher ; Röst, Hannes

DIAproteomics: A Multifunctional Data Analysis Pipeline for Data-Independent Acquisition Proteomics and Peptidomics

J. Proteome Res., 2021.

(Abstract | Links | BibTeX)

Immel, A; Key, F M; Szolek, A; Barquera, R; Robinson, M K; Harrison, G F; Palmer, W H; Spyrou, M A; Susat, J; Krause-Kyora, B; Bos, K I; Forrest, S; Hernández-Zaragoza, D I; Sauter, J; Solloch, U; Schmidt, A H; Schuenemann, V J; Reiter, E; Kairies, M S; Weiß, R; Arnold, S; Wahl, J; Hollenbach, J A; Kohlbacher, O; Herbig, A; Norman, P J; Krause, J

Analysis of genomic ĐNA from medieval plague victims suggests long-term effect of Yersinia pestis on human immunity genes

Mol Biol Evol, 2021.

(Abstract | BibTeX)

Völkel, G; Fürstberger, A; Schwab, J D; Werle, S D; Ikonomi, N; Gscheidmeier, T; Kraus, J M; Groß, A; Holderried, M; Balig, J; Jobst, F; Kuhn, P; Kuhn, K A; Kohlbacher, O; Kaisers, U X; Seufferlein, T; Kestler, H A

Patient empowerment during the COVIĐ-19 pandemic: Ensuring safe and fast communication of test results

J Med Internet Res, 2021.

(Abstract | BibTeX)

Neidert, Ana Marcu; Leon Bichmann; Leon Kuchenbecker; Daniel Kowalewski; Lena Freudenmann; Linus Backert; Lena Mühlenbruch; Andras Szolek; Maren Lübke; Philipp Wagner; Tobias Engler; Sabine Matovina; Jian Wang; Mathias Hauri-Hohl; Roland Martin; Konstantina Kapolou; Juliane Walz; Julia Velz; Holger Moch; Luca Regli; Manuela Silginer; Michael Weller; Markus Löffler; Florian Erhard; Andreas Schlosser; Oliver Kohlbacher; Stefan Stevanović; Hans-Georg Rammensee; Marian

HLA Ligand Atlas: a benign reference of HLA-presented peptides to improve T-cell-based cancer immunotherapy

Journal for the ImmunoTherapy of Cancer, 9 (4), pp. e002071, 2021.

(Links | BibTeX)

Green, Anna; Elhabashy, Hadeer; Brock, Kelly; Maddamsetti, Rohan; Kohlbacher, Oliver; Marks, Debora S

Large-scale discovery of protein interactions at residue resolution using co-evolution calculated from genomic sequences

Nat. Commun., 12 (1), pp. 1396, 2021.

(Abstract | Links | BibTeX)

Immel, Alexander; Pierini, Federica; Rinne, Christoph; Meadows, John; Barquera, Rodrigo; Szolek, András; Susat, Julian; Böhme, Lisa; Dose, Janina; Bonczarowska, Joanna; Drummer, Clara; Fuchs, Katharina; Ellinghaus, David; Kässens, Jan Christian; Furholt, Martin; Kohlbacher, Oliver; Schade-Lindig, Sabine; Franke, Andre; Schreiber, Stefan; Krause, Johannes; Müller, Johannes; Lenz, Tobias L; Nebel, Almut; Krause-Kyora, Ben

Genome-wide study of a Neolithic Wartberg grave community reveals distinct HLA variation and hunter-gatherer ancestry

Communications Biology, 4 (1), pp. 113, 2021, ISSN: 2399-3642.

(Abstract | Links | BibTeX)

Kapsner, Lorenz A; Kampf, Marvin O; Seuchter, Susanne A; Gruendner, Julian; Gulden, Christian; Mate, Sebastian; Mang, Jonathan M; Schüttler, Christina; Deppenwiese, Noemi; Krause, Linda; Zöller, Daniela; Balig, Julien; Fuchs, Timo; Fischer, Patrick; Haverkamp, Christian; Holderried, Martin; Maye, Gerhard; Stenzhorn, Holger; Stolnicu, Ana; Storck, Michael; Storf, Holger; Zohner, Jochen; Kohlbacher, Oliver; Strzelczyk, Adam; Schüttler, Jürgen; Acker, Till; Boeker, Martin; Kaisers, Udo X; Kestler, Hans A; Prokosch, Hans-Ulrich

Reduced Rate of Inpatient Hospital Admissions in 18 German University Hospitals during the COVID-19 Lockdown

Frontiers in Public Health, 8 , pp. 594117., 2021.

(Abstract | Links | BibTeX)

Arndt, Maike; Rurik, Marc; Drees, Alissa; Ahlers, Christian; Feldmann, Simon; Kohlbacher, Oliver; Fischer, Markus

Food Authentication: Determination of the geographical origin of almonds (Prunus dulcis MILL.) via near-infrared spectroscopy

Microchem. J., 160 (Part B), pp. 105702, 2021.

(Abstract | Links | BibTeX)

van van de Aschenbrenner AC Mouktaroudi M, Krämer Oestreich Antonakos Nuesch-Germano Gkizeli Bonaguro Reusch Baßler Saridaki Knoll Pecht Kapellos TS Doulou Kröger Herbert Holsten Horne Gemünd ID Rovina Agrawal Dahm Uelft Drews Lenkeit Bruse Gerretsen Gierlich Becker Händler Kraut Theis Mengiste De Domenico Schulte-Schrepping Seep Raabe Hoffmeister ToVinh Keitel Rieke Talevi Skowasch Aziz NA Pickkers Veerdonk FL Netea MG Schultze JL Kox Breteler MMB Nattermann Koutsoukou Giamarellos-Bourboulis EJ Ulas German COVID-19 Omics Initiative (DeCOI) B M N M K L N K M R T S C M L A N S K M A L N J J M K M H S E J L J C M V G V D P M J A T;

Disease severity-specific neutrophil signatures in blood transcriptomes stratify COVID-19 patients

Genome Med., 13 (1), pp. 7, 2021.

(Abstract | BibTeX)

Völkel, Gunnar; Fürstberger, Axel; Schwab, Julian D; Werle, Silke D; Ikonomi, Nansi; Gscheidmeier, Thomas; Kraus, Johann M; ß, Alexander Gro; Holderried, Martin; Balig, Julien; Jobst, Franz; Kuhn, Peter; Kuhn, Klaus A; Kohlbacher, Oliver; Kaisers, Udo X; Seufferlein, Thomas; Kestler, Hans A

Patient empowerment during the COVID-19 pandemic: Ensuring safe and fast communication of test results (Preprint)

Journal of Medical Internet Research, Forthcoming.

(Links | BibTeX)

Kittner, M; Lamping, M; Rieke, D T; Götze, J; Bajwa, B; Jelas, I; Rüter, G; Hautow, H; Sänger, M; Habibi, M; Zettwitz, M; de Bortoli, T; Ostermann, L; Ševa, J; Starlinger, J; Kohlbacher, O; Malek, N P; Keilholz, U; Leser, U

Annotation and initial evaluation of a large annotated German oncological corpus

JAMIA Open, 4 (2), 2021.

(Abstract | BibTeX)

Dai, C; Füllgrabe, A; Pfeuffer, J; Solovyeva, E M; Deng, J; Moreno, P; Kamatchinathan, S; Kundu, D J; George, N; Fexova, S; Grüning, B; Föll, M C; Griss, J; Vaudel, M; Audain, E; Locard-Paulet, M; Turewicz, M; Eisenacher, M; Uszkoreit, J; Bossche, Van Den T; Schwämmle, V; Webel, H; Schulze, S; Bouyssié, D; Jayaram, S; Duggineni, V K; Samaras, P; Wilhelm, M; Choi, M; Wang, M; Kohlbacher, O; Brazma, A; Papatheodorou, I; Bandeira, N; Deutsch, E W; Vizcaíno, J A; Bai, M; Sachsenberg, T; Levitsky, L I; Perez-Riverol, Y

A proteomics sample metadata representation for multiomics integration and big data analysis

Nat Commun, 12 (1), pp. 5854, 2021, ([DOI:hrefhttps://dx.doi.org/10.1038/nature1800310.1038/nature18003] [PubMed:hrefhttps://www.ncbi.nlm.nih.gov/pubmed/3166547931665479]).

(Abstract | BibTeX)

E, Netz; TMH, Dijkstra; T, Sachsenberg; L, Zimmermann; M, Walzer; T, Monecke; R, Ficner; O, Dybkov; H, Urlaub; O, Kohlbacher

OpenPepXL: An open-source tool for sensitive identification of cross-linked peptides in XL-MS

Mol. Cell. Prot., 19 (12), pp. 2157-2168, 2020.

(Links | BibTeX)

Klare Juliane; Rurik, Marc; Rottmann Eric; Bollen Anke; Kohlbacher Oliver; Fischer Markus; Hackl Thomas

Determination of the Geographical Origin of Asparagus officinalis L. by 1H‐NMR‐Spectroscopy

J. Agricult. Food Chem., 68 (49), pp. 14353-14363, 2020.

(Abstract | Links | BibTeX)

Alexander Leitner Alexandre M.J.J. Bonvin, Christoph Borchers Robert Chalkley Julia Chamot-Rooke Colin Combe Jürgen Cox Meng-Qiu Dong Lutz Fischer Michael Götze Fabio Gozzo Albert Heck Michael Hoopmann Lan Huang Yasushi Ishihama Andrew Jones Nir Kalisman Oliver Kohlbacher Karl Mechtler Robert Moritz Eugen Netz Petr Novak Evgeniy Petrotchenko Andrej Sali Richard Scheltema Carla Schmidt David Schriemer Andrea Sinz Frank Sobott Florian Stengel Konstantinos Thalassinos Henning Urlaub Rosa Viner Juan Vizcaino Marc Wilkins Juri Rappsilber H J W C J R R R L A A R

Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry

Structure, 28 (11), pp. 1259-1268, 2020.

(Abstract | Links | BibTeX)

Abbas, Syed Saiden; Dijkstra, Tjeerd M H

Detection and stage classification of Plasmodium falciparum from images of Giemsa stained thin blood films using random forest classifiers

Diagnostic Pathology, 15 (130), 2020.

(Abstract | Links | BibTeX)

Schulte-Schrepping, J; Reusch, N; Paclik, D; Ba?ler, K; Schlickeiser, S; Zhang, B; Kr?mer, B; Krammer, T; Brumhard, S; Bonaguro, L; Domenico, De E; Wendisch, D; Grasshoff, M; Kapellos, T S; Beckstette, M; Pecht, T; Saglam, A; Dietrich, O; Mei, H E; Schulz, A R; Conrad, C; Kunkel, D; Vafadarnejad, E; Xu, C J; Horne, A; Herbert, M; Drews, A; Thibeault, C; Pfeiffer, M; Hippenstiel, S; Hocke, A; M?ller-Redetzky, H; Heim, K M; Machleidt, F; Uhrig, A; de Jarcy, Bosquillon L; J?rgens, L; Stegemann, M; Gl?senkamp, C R; Volk, H D; Goffinet, C; Landthaler, M; Wyler, E; Georg, P; Schneider, M; Dang-Heine, C; Neuwinger, N; Kappert, K; Tauber, R; Corman, V; Raabe, J; Kaiser, K M; Vinh, M T; Rieke, G; Meisel, C; Ulas, T; Becker, M; Geffers, R; Witzenrath, M; Drosten, C; Suttorp, N; von Kalle, C; Kurth, F; H?ndler, K; Schultze, J L; Aschenbrenner, A C; Li, Y; Nattermann, J; Sawitzki, B; Saliba, A E; Sander, L E; Angelov, A; Bals, R; Bartholom?us, A; Becker, A; Bezdan, D; Bonifacio, E; Bork, P; Clavel, T; Colome-Tatche, M; Diefenbach, A; Dilthey, A; Fischer, N; F?rstner, K; Frick, J S; Gagneur, J; Goesmann, A; Hain, T; Hummel, M; Janssen, S; Kalinowski, J; Kallies, R; Kehr, B; Keller, A; Kim-Hellmuth, S; Klein, C; Kohlbacher, O; Korbel, J O; Kurth, I; Landthaler, M; Li, Y; Ludwig, K; Makarewicz, O; Marz, M; McHardy, A; Mertes, C; N?then, M; N?rnberg, P; Ohler, U; Ossowski, S; Overmann, J; Peter, S; Pfeffer, K; Poetsch, A R; P?hler, A; Rajewsky, N; Ralser, M; Rie?, O; Ripke, S; da Rocha, Nunes U; Rosenstiel, P; Saliba, A E; Sander, L E; Sawitzki, B; Schiffer, P; Schulte, E C; Schultze, J L; Sczyrba, A; Stegle, O; Stoye, J; Theis, F; Vehreschild, J; Vogel, J; von Kleist, M; Walker, A; Walter, J; Wieczorek, D; Ziebuhr, J

Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment

Cell, 182 (6), pp. 1419-1440.e23, 2020.

(Abstract | Links | BibTeX)

Nelde, A; Bilich, T; Heitmann, J S; Maringer, Y; Salih, H R; Roerden, M; L?bke, M; Bauer, J; Rieth, J; Wacker, M; Peter, A; H?rber, S; Traenkle, B; Kaiser, P D; Rothbauer, U; Becker, M; Junker, D; Krause, G; Strengert, M; Schneiderhan-Marra, N; Templin, M F; Joos, T O; Kowalewski, D J; Stos-Zweifel, V; Fehr, M; Rabsteyn, A; Mirakaj, V; Karbach, J; J?ger, E; Graf, M; Gruber, L C; Rachfalski, D; Preu?, B; Hagelstein, I; M?rklin, M; Bakchoul, T; Gouttefangeas, C; Kohlbacher, O; Klein, R; Stevanovi?, S; Rammensee, H G; Walz, J S

SARS-CoV-2-derived peptides define heterologous and COVIĐ-19-induced Ŧ cell recognition

Nat Immunol, 2020.

(BibTeX)

Nothias, L F; Petras, D; Schmid, R; D?hrkop, K; Rainer, J; Sarvepalli, A; Protsyuk, I; Ernst, M; Tsugawa, H; Fleischauer, M; Aicheler, F; Aksenov, A A; Alka, O; Allard, P M; Barsch, A; Cachet, X; Caraballo-Rodriguez, A M; Silva, Da R R; Dang, T; Garg, N; Gauglitz, J M; Gurevich, A; Isaac, G; Jarmusch, A K; Kamen?k, Z; Kang, K B; Kessler, N; Koester, I; Korf, A; Gouellec, Le A; Ludwig, M; H, Martin C; McCall, L I; McSayles, J; Meyer, S W; Mohimani, H; Morsy, M; Moyne, O; Neumann, S; Neuweger, H; Nguyen, N H; Nothias-Esposito, M; Paolini, J; Phelan, V V; Pluskal, T; Quinn, R A; Rogers, S; Shrestha, B; Tripathi, A; van der Hooft, J J J; Vargas, F; Weldon, K C; Witting, M; Yang, H; Zhang, Z; Zubeil, F; Kohlbacher, O; B?cker, S; Alexandrov, T; Bandeira, N; Wang, M; Dorrestein, P C

Feature-based molecular networking in the GNPS analysis environment

Nat Methods, 17 (9), pp. 905–908, 2020.

(BibTeX)

Identifying Đisease-Causing Mutations with Privacy Protection

Bioinformatics, 2020.

(Abstract | BibTeX)

Gleim, L C; Karim, M R; Zimmermann, L; Kohlbacher, O; Stenzhorn, H; Decker, S; Beyan, O

Enabling ad-hoc reuse of private data repositories through schema extraction

J Biomed Semantics, 11 (1), pp. 6, 2020.

(Abstract | BibTeX)

Starke, R; Oliphant, K; Jehmlich, N; Sch?pe, S S; Sachsenberg, T; Kohlbacher, O; Allen-Vercoe, E; von Bergen, M

Corrigendum to Ŧracing incorporation of heavy water into proteins for species-specific metabolic activity in complex communities

J Proteomics, 224 , pp. 103829, 2020.

(BibTeX)

Scheidt, T; Alka, O; Gonczarowska-Jorge, H; Gruber, W; Rathje, F; DellÁica, M; Rurik, M; Kohlbacher, O; Zahedi, R P; Aberger, F; Huber, C G

Phosphoproteomics of short-term hedgehog signaling in human medulloblastoma cells

Cell Commun. Signal, 18 (1), pp. 99, 2020.

(Abstract | BibTeX)

Samonig, L; Loipetzberger, A; Bl?chl, C; Rurik, M; Kohlbacher, O; Aberger, F; Huber, C G

Proteins and Molecular Pathways Relevant for the Malignant Properties of Ŧumor-Initiating Pancreatic Cancer Cells

Cells, 9 (6), 2020.

(Abstract | BibTeX)

Starke, R; Oliphant, K; Jehmlich, N; Sch?pe, S S; Sachsenberg, T; Kohlbacher, O; Allen-Vercoe, E; von Bergen, M

Ŧracing incorporation of heavy water into proteins for species-specific metabolic activity in complex communities

J Proteomics, 222 , pp. 103791, 2020.

(Abstract | BibTeX)

Jeong, Kyowon; Kim, Jihyung; Gaikwad, Manasi; Hidayah, Siti Nurul; Heikaus, Laura; Schlüter, Hartmut; Kohlbacher, Oliver

FLASHDeconv: Ultrafast, High-Quality Feature Deconvolution for Top-Down Proteomics

Cell Systems, 10 (2), pp. 213-218, 2020, ISSN: 2405-4712.

(Abstract | Links | BibTeX)

Samuel Wein Byron Andrews, Timo Sachsenberg Helena Santos-Rosa Oliver Kohlbacher Tony Kouzarides Benjamin Garcia ; Weisser, Hendrik

A computational platform for high-throughput analysis of RNA sequences and modifications by mass spectrometry

Nat. Commun., 11 (1), pp. 926, 2020.

(Abstract | Links | BibTeX)

Pfeuffer Julianus; Sachsenberg, Timo; Dijkstra Tjeerd Serang Oliver; Reinert Knut; Kohlbacher Oliver M H ;

EPIFANY - A method for efficient high-confidence protein inference

J. Proteome Res., 2020.

(Abstract | Links | BibTeX)

Hentrich, T; Koch, A; Weber, N; Kilzheimer, A; Burkhardt, S; Rall, K; Casadei, N; Kohlbacher, O; Riess, O; Schulze-Hentrich, JM; Brucker, SY

The endometrial transcription landscape of MRKH syndrome

bioRxiv, 2020.

(Abstract | Links | BibTeX)

Voelkel, Gunnar; Fuerstberger, Axel; Schwab, Julian D; Kuehlwein, Silke D; Gscheidmeier, Thomas; Kraus, Johann M; Gross, Alexander; Kohlmayer, Florian; Kuhn, Peter; Kuhn, Klaus A; Kohlbacher, Oliver; Seufferlein, Thomas; Kestler, Hans A

A secure and rapid query-software for COVID-19 test results that can easily be integrated into the clinical workflow to avoid communication overload

medRxiv, 2020.

(Abstract | Links | BibTeX)

Jeong, K; Kim, J; Gaikwad, M; Hidayah, S N; Heikaus, L; Schl?ter, H; Kohlbacher, O

FLASĦĐeconv: Ultrafast, Ħigh-Quality Feature Đeconvolution for Ŧop-Đown Proteomics

Cell Syst, 10 (2), pp. 213–218, 2020.

(Abstract | BibTeX)

Wein, S; Andrews, B; Sachsenberg, T; Santos-Rosa, H; Kohlbacher, O; Kouzarides, T; Garcia, B A; Weisser, H

A computational platform for high-throughput analysis of RNA sequences and modifications by mass spectrometry

Nat Commun, 11 (1), pp. 926, 2020.

(Abstract | BibTeX)

Schulte-Schrepping, J; Reusch, N; Paclik, D; Ba?ler, K; Schlickeiser, S; Zhang, B; Kr?mer, B; Krammer, T; Brumhard, S; Bonaguro, L; Domenico, De E; Wendisch, D; Grasshoff, M; Kapellos, T S; Beckstette, M; Pecht, T; Saglam, A; Dietrich, O; Mei, H E; Schulz, A R; Conrad, C; Kunkel, D; Vafadarnejad, E; Xu, C J; Horne, A; Herbert, M; Drews, A; Thibeault, C; Pfeiffer, M; Hippenstiel, S; Hocke, A; M?ller-Redetzky, H; Heim, K M; Machleidt, F; Uhrig, A; de Jarcy, Bosquillon L; J?rgens, L; Stegemann, M; Gl?senkamp, C R; Volk, H D; Goffinet, C; Landthaler, M; Wyler, E; Georg, P; Schneider, M; Dang-Heine, C; Neuwinger, N; Kappert, K; Tauber, R; Corman, V; Raabe, J; Kaiser, K M; Vinh, M T; Rieke, G; Meisel, C; Ulas, T; Becker, M; Geffers, R; Witzenrath, M; Drosten, C; Suttorp, N; von Kalle, C; Kurth, F; H?ndler, K; Schultze, J L; Aschenbrenner, A C; Li, Y; Nattermann, J; Sawitzki, B; Saliba, A E; Sander, L E; Angelov, A; Bals, R; Bartholom?us, A; Becker, A; Bezdan, D; Bonifacio, E; Bork, P; Clavel, T; Colome-Tatche, M; Diefenbach, A; Dilthey, A; Fischer, N; F?rstner, K; Frick, J S; Gagneur, J; Goesmann, A; Hain, T; Hummel, M; Janssen, S; Kalinowski, J; Kallies, R; Kehr, B; Keller, A; Kim-Hellmuth, S; Klein, C; Kohlbacher, O; Korbel, J O; Kurth, I; Landthaler, M; Li, Y; Ludwig, K; Makarewicz, O; Marz, M; McHardy, A; Mertes, C; N?then, M; N?rnberg, P; Ohler, U; Ossowski, S; Overmann, J; Peter, S; Pfeffer, K; Poetsch, A R; P?hler, A; Rajewsky, N; Ralser, M; Rie?, O; Ripke, S; da Rocha, Nunes U; Rosenstiel, P; Saliba, A E; Sander, L E; Sawitzki, B; Schiffer, P; Schulte, E C; Schultze, J L; Sczyrba, A; Stegle, O; Stoye, J; Theis, F; Vehreschild, J; Vogel, J; von Kleist, M; Walker, A; Walter, J; Wieczorek, D; Ziebuhr, J

Severe COVIĐ-19 Is Marked by a Đysregulated Myeloid Cell Compartment

Cell, 182 (6), pp. 1419–1440, 2020.

(BibTeX)

Wibberg, D; Batut, B; Belmann, P; Blom, J; Glöckner, FO; Grüning, B; Hoffmann, N; Kleinbölting, N; Rahn, R; Rey, M; Scholz, U; Sharan, M; Tauch, A; Trojahn, U; Usadel, B; Kohlbacher, O

The de.NBI / ELIXIR-DE training platform - Bioinformatics training in Germany and across Europe within ELIXIR [version 2; peer review: 2 approved]

F1000Research, 8 (1877), 2020.

(Links | BibTeX)

Kutuzova, Svetlana; Colaianni, Pasquale; Röst, Hannes; Sachsenberg, Timo; Alka, Oliver; Kohlbacher, Oliver; Burla, Bo; Torta, Federico; Schrübbers, Lars; Kristensen, Mette; Nielsen, Lars; Herrgård, Markus J; McCloskey, Douglas

SmartPeak automates targeted and quantitative metabolomics data processing

2020.

(BibTeX)

Bernardes, Joana P; Mishra, Neha; Tran, Florian; Bahmer, Thomas; Best, Lena; Blase, Johanna I; Bordoni, Dora; Franzenburg, Jeanette; Geisen, Ulf; Josephs-Spaulding, Jonathan; Köhler, Philipp; Künstner, Axel; Rosati, Elisa; Aschenbrenner, Anna C; Bacher, Petra; Baran, Nathan; Boysen, Teide; Brandt, Burkhard; Bruse, Niklas; Dörr, Jonathan; Dräger, Andreas; Elke, Gunnar; Ellinghaus, David; Fischer, Julia; Forster, Michael; Franke, Andre; Franzenburg, Sören; Frey, Norbert; Friedrichs, Anette; Fuß, Janina; Glück, Andreas; Hamm, Jacob; Hinrichsen, Finn; Hoeppner, Marc P; Imm, Simon; Junker, Ralf; Kaiser, Sina; Kan, Ying H; Knoll, Rainer; Lange, Christoph; Laue, Georg; Lier, Clemens; Lindner, Matthias; Marinos, Georgios; Markewitz, Robert; Nattermann, Jacob; Noth, Rainer; Pickkers, Peter; Rabe, Klaus F; Renz, Alina; Röcken, Christoph; Rupp, Jan; Schaffarzyk, Annika; Scheffold, Alexander; Schulte-Schrepping, Jonas; Schunk, Domagoj; Skowasch, Dirk; Ulas, Thomas; Wandinger, Klaus-Peter; Wittig, Michael; Zimmermann, Johannes; Busch, Hauke; Hoyer, Bimba F; Kaleta, Christoph; Heyckendorf, Jan; Kox, Matthijs; Rybniker, Jan; Schreiber, Stefan; Schultze, Joachim L; Rosenstiel, Philip; HCA Lung Biological Network, ; Deutsche COVID-19 Omics Initiative (DeCOI),

Longitudinal Multi-omics Analyses Identify Responses of Megakaryocytes, Erythroid Cells, and Plasmablasts as Hallmarks of Severe COVID-19

Immunity, 2020.

(Abstract | BibTeX)

Samonig, Lisa; Loipetzberger, Andrea; Blöchl, Constantin; Rurik, Marc; Kohlbacher, Oliver; Aberger, Fritz; Huber, Christian G

Proteins and molecular pathways relevant for the malignant properties of tumor-initiating pancreatic cancer cells

Cells, 9 (6), pp. 1397, 2020.

(Abstract | BibTeX)

Lichao Zhang Sebastian Winkler, Fabian Schlottmann Oliver Kohlbacher Josh Elias Jan Skotheim Jennifer Ewald P E M C

Multiple Layers of Phospho-Regulation Coordinate Metabolism and the Cell Cycle in Budding Yeast

Front. Cell Dev. Biol., 2019.

(Abstract | Links | BibTeX)

Lara Schneider Tim Kehl, Kristina Thedinga Nadja Grammes Christina Backes Christopher Mohr Benjamin Schubert Kerstin Lenhof Nico Gerstner Andreas Daniel Hartkopf Markus Wallwiener Oliver Kohlbacher Andreas Keller Eckart Meese Norbert Graf Hans-Peter Lenhof L

ClinOmicsTrailbc: a visual analytics tool for breast cancer treatment stratification

Bioinformatics, 35 (24), pp. 5171-5181, 2019.

(Abstract | Links | BibTeX)

L, Schneider; T, Kehl; K, Thedinga; NL, Grammes; C, Backes; C, Mohr; B, Schubert; K, Lenhof; N, Gerstner; AD, Hartkopf; M, Wallwiener; O, Kohlbacher; A, Keller; E, Meese; N, Graf; HP, Lenhof

ClinOmicsTrailbc: a visual analytics tool for breast cancer treatment stratification.

Bioinformatics, 35 (24), pp. 5171-5181, 2019.

(Abstract | Links | BibTeX)

Lederer, S; Dijkstra, ; T.M.H., ; Heskes, T

Additive Dose Response Models: Defining Synergy

Frontiers of Pharmacology, 10 (1284), 2019.

(Abstract | Links | BibTeX)

Richter, Bernadette; Rurik, Marc; Gurk, Stephanie; Kohlbacher, Oliver; Fischer, Markus

Food monitoring: Screening of the geographical origin of white asparagus using FT-NIR and machine learning

Food Control, 104 , pp. 318-325, 2019.

(Abstract | Links | BibTeX)

B, Richter; M, Rurik; S, Gurk; O, Kohlbacher; M, Fischer

Food monitoring: Screening of the geographical origin of white asparagus using FT-NIR and machine learning

Food Control, 104 , pp. 318-325, 2019.

(Abstract | Links | BibTeX)

Choobdar, Sarvenaz; Ahsen, Mehmet E; Crawford, Jake; Tomasoni, Mattia; Fang, Tao; Lamparter, David; Lin, Junyuan; Hescott, Benjamin; Hu, Xiaozhe; Mercer, Johnathan; Natoli, Ted; Narayan, Rajiv; and Subramanian, Aravind; Zhang, Jitao D; Stolovitzky, Gustavo; Kutalik, Zoltán; Lage, Kasper; Slonim, Donna K; Saez-Rodriguez, Julio; Cowen, Lenore J; Bergmann, Sven; Marbach, Daniel

Assessment of network module identification across complex diseases

Nat. Methods, 16 (9), pp. 843–852, 2019.

(Abstract | Links | BibTeX)

S, Choobdar; ME, Ahsen; J, Crawford; M, Tomasoni; T, Fang; D, Lamparter; J, Lin; B, Hescott; X, Hu; andNatoli T, Mercer J; R, Narayan; Consortium, DREAM Module Identification Challenge; A, Subramanian; JD, Zhang; G, Stolovitzky; Z, Kutalik; K, Lage; DK, Slonim; J, Saez-Rodriguez; LJ, Cowen; S, Bergmann; D, Marbach

Assessment of network module identification across complex diseases

Nature Methods, 16 (9), pp. 843-852, 2019.

(Abstract | Links | BibTeX)

S, Fillinger; de la L, Garza; A, Peltzer; O, Kohlbacher; S, Nahnsen

Challenges of big data integration in the life sciences

Analytical and Bioanalytical Chemistry, 411 (26), pp. 6791–6800, 2019.

(Abstract | Links | BibTeX)

van den Brand, J A J G; Dijkstra, T M H; J., Wetzels; Stengel, B; Metzger, M; Blankestijn, P J; Heerspink, Lambers; H.J., ; R.T., Gansevoort

Predicting kidney failure from longitudinal kidney function trajectory: a comparison of models

PLOS One, 14 (5), 2019.

(Abstract | Links | BibTeX)

Bilich, Tatjana; Nelde, Annika; Bichmann, Leon; Roerden, Malte; Salih, Helmut R; Kowalewski, Daniel J; Schuster, Heiko; Tsou, Chih-Chiang; Marcu, Ana; Neidert, Marian C; Lübke, Maren; Rieth, Jonas; Schemionek, Mirle; Brümmendorf, Tim H; Vucinic, Vladan; Niederwieser, Dietger; Bauer, Jens; Märklin, Melanie; Peper, Janet K; Klein, Reinhild; Kanz, Lothar; Rammensee, Hans-Georg; Stevanovic, Stefan; Walz, Juliane S

The HLA ligandome landscape of chronic myeloid leukemia delineates novel T-cell epitopes for immunotherapy

Blood, 133 (6), pp. 550-565, 2019.

(Abstract | Links | BibTeX)

Löffler, Markus W; Mohr, Christopher; Bichmann, Leon; Freudenmann, Lena Katharina; Walzer, Mathias; Schroeder, Christopher W; Trautwein, Nico; Hilke, Franz J; Zinser, Raphael S; Mühlenbruch, Lena; Kowalewski, Daniel J; Schuster, Heiko; Sturm, Marc; Matthes, Jakob; Riess, Olaf; Czemmel, Stefan; Nahnsen, Sven; Königsrainer, Ingmar; Thiel, Karolin; Nadalin, Silvio; Beckert, Stefan; Bösmüller, Hans; Fend, Falko; Velic, Ana; Macek, Boris; Haen, Sebastian P; Buonaguro, Luigi; Kohlbacher, Oliver; Königsrainer, Alfred; Rammensee, Hans-Georg; Consortium, The HepaVac

Multi-omics discovery of exome-derived neoantigens in hepatocellular carcinoma

Genome Med., Forthcoming.

(Abstract | BibTeX)

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