Ecosyste.ms: Papers

10.1136/jitc-2020-002071

HLA Ligand Atlas: a benign reference of HLA-presented peptides to improve T-cell-based cancer immunotherapy
Cited by: 109
Author(s): Ana Marcu, Leon Bichmann, Lèon Kuchenbecker, Daniel J. Kowalewski, Lena Katharina Freudenmann, Linus Backert, Lena Mühlenbruch, András Szolek, Maren Lübke, Philipp Wagner, Tobias Engler, Sabine Matovina, Jian Wang, Mathias Hauri-Hohl, Thierry Martin, Konstantina Kapolou, Juliane S. Walz, Julia Velz, Holger Moch, Luca Regli, Manuela Silginer, Michael Weller, Markus Löffler, Florian Erhard, Andreas Schlösser, Oliver Kohlbacher, Stefan Stevanović, Hans Georg Rammensee, Marian C. Neidert
Software Mentions: 8
Published: over 3 years ago

10.3390/cancers12041028

Changes in the Expression of Pre-Replicative Complex Genes in hTERT and ALT Pediatric Brain Tumors
Cited by: 8
Author(s): Aurora Idilli, Francesca Pagani, Emanuela Kerschbamer, Francesco Berardinelli, Manuel Bernabé, María L. Cayuela, Silvano Piazza, Pietro Luigi Poliani, Emilio Cusanelli, Marina Mione
Software Mentions: 6
Published: over 4 years ago

10.1111/age.12873

Genomic regions influencing intramuscular fat in divergently selected rabbit lines
Cited by: 15
Author(s): Bolívar Samuel Sosa-Madrid, Pilar Hernández, A. Blasco, Chris Haley, Luca Fontanesi, M. A. Santacreu, Ramona N. Pena, Pau Navarro, Noelia Ibáñez‐Escriche
Software Mentions: 6
Published: almost 5 years ago

10.1093/bib/bbaa072

Scoring functions for drug-effect similarity
Cited by: 13
Author(s): Stephan Struckmann, Markus Ernst, Sarah Fischer, Nancy Mah, Georg Fuellen, Steffen Möller
Software Mentions: 5
Published: over 4 years ago

10.1038/s41398-021-01309-7

Gut microbial taxa elevated by dietary sugar disrupt memory function
Cited by: 42
Author(s): Emily E. Noble, C. Anders Olson, Elizabeth A. Davis, Linda Tsan, Yen‐Wei Chen, Ruth Schade, Clarissa Liu, Andrea N. Suarez, Roshonda B. Jones, Claire de La Serre, Xia Yang, Elaine Y. Hsiao, Scott E. Kanoski
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-018-33779-z

Chromatin accessibility landscape of articular knee cartilage reveals aberrant enhancer regulation in osteoarthritis
Cited by: 34
Author(s): Ye Liu, Jen-Chien Chang, Chung-Chau Hon, Naoshi Fukui, Nobuhiro Tanaka, Zhen Ya Zhang, Ming Ta Michael Lee, Aki Minoda
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-021-82910-0

Mutational processes in cancer preferentially affect binding of particular transcription factors
Cited by: 2
Author(s): Mo Liu, Arnoud Boot, Alvin Wei Tian Ng, Raluca Gordân, Steven G. Rozen
Software Mentions: 4
Published: over 3 years ago

10.1186/s40478-021-01186-7

VISTA regulates microglia homeostasis and myelin phagocytosis, and is associated with MS lesion pathology
Cited by: 3
Author(s): Malte Borggrewe, Susanne M. Kooistra, Evelyn Wesseling, Fenja L. Gierschek, Maaike L. Brummer, Elizabeth C. Nowak, Tiago Medeiros-Furquim, Tegan Otto, Sam W. Lee, Randolph J. Noelle, Bart J. L. Eggen, Jon D. Laman
Software Mentions: 3
Published: over 3 years ago

10.1002/1878-0261.12446

Expression of long non‐coding <scp>RNA ENSG</scp>00000226738 (Lnc<scp>KLHDC</scp>7B) is enriched in the immunomodulatory triple‐negative breast cancer subtype and its alteration promotes cell migration, invasion, and resistance to cell death
Cited by: 27
Author(s): Fredy Omar Beltrán-Anaya, Sandra Romero-Córdoba, Rosa Rebollar-Vega, Óscar Arrieta, Verónica Bautista-Piña, Carlos Alberto Domínguez-Reyes, Felipe Villegas-Carlos, Alberto Tenorio-Torres, Luis Alfaro-Riuz, Silvia Jiménez-Morales, Alberto Cedro‐Tanda, Magdalena Ríos-Romero, Juan Pablo Reyes‐Grajeda, Elda Tagliabue, Marilena V. Iorio, Alfredo Hidalgo-Miranda
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0176172

Tracking disease progression by searching paths in a temporal network of biological processes
Cited by: 7
Author(s): Rajat Anand, Samrat Chatterjee
Software Mentions: 3
Published: over 7 years ago

10.1038/s42003-021-02142-w

A combined approach for single-cell mRNA and intracellular protein expression analysis
Cited by: 52
Author(s): Johan Reimegård, Marcel Tarbier, Marcus Danielsson, Jens Schuster, Sathishkumar Baskaran, Styliani Panagiotou, Niklas Dahl, Marc R. Friedländer, Caroline J. Gallant
Software Mentions: 3
Published: over 3 years ago

10.3389/fgene.2020.00808

Gender Differential Transcriptome in Gastric and Thyroid Cancers
Cited by: 8
Author(s): Abel Sousa, Marta Ferreira, Carla Oliveira, Pedro G. Ferreira
Software Mentions: 3
Published: about 4 years ago

10.3389/fcell.2021.730475

An Ovarian Cancer Susceptible Gene Prediction Method Based on Deep Learning Methods
Cited by: 4
Author(s): Ye Lu, Yi Zhang, Xiaohong Yang, Fei Shen, Bo Xu
Software Mentions: 2
Published: about 3 years ago

10.3390/mps2010008

Fast Proteome Identification and Quantification from Data-Dependent Acquisition–Tandem Mass Spectrometry (DDA MS/MS) Using Free Software Tools
Cited by: 15
Author(s): Jesse G. Meyer
Software Mentions: 2
Published: over 5 years ago

10.18632/aging.103068

Integrated data analysis reveals significant associations of KEAP1 mutations with DNA methylation alterations in lung adenocarcinomas
Cited by: 7
Author(s): Mohamed Elshaer, Ahmed Islam El-Manawy, Ahmed Hammad, Akhileshwar Namani, Xiu Jun Wang, Xiuwen Tang
Software Mentions: 1
Published: over 4 years ago

10.1002/ctm2.427

Dual role of the miR‐146 family in rhinovirus‐induced airway inflammation and allergic asthma exacerbation
Cited by: 21
Author(s): Anet Laanesoo, Egon Urgard, Kapilraj Periyasamy, Martti Laan, Yury A. Bochkov, Alar Aab, Nathaniel Magilnick, Margus Pooga, James E. Gern, Sebastian L. Johnston, Jonathan M. Coquet, Mark Boldin, Jesper Wengel, Alan Altraja, Grażyna Bochenek, Bogdan Jakieła, Ana Rebane
Software Mentions: 1
Published: over 3 years ago

10.1002/acn3.369

Genomics implicates adaptive and innate immunity in Alzheimer's and Parkinson's diseases
Cited by: 74
Author(s): Sarah A. Gagliano, J Pouget, John Hardy, Jo Knight, Michael R. Barnes, Mina Ryten, Michael E. Weale
Software Mentions: 1
Published: almost 8 years ago

10.3389/fcell.2021.606971

Elavl1 Impacts Osteogenic Differentiation and mRNA Levels of Genes Involved in ECM Organization
Cited by: 6
Author(s): Satya K. Kota, Zhu Wei Lim, Savithri Balasubramanian Kota
Software Mentions: 1
Published: over 3 years ago