Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: stats
https://packages.ecosyste.ms/registries/pypi.org/packages/stats
Calculator-style statistical functions
3 versions
Latest release: over 13 years ago
2 dependent packages
15,224 downloads last month
Papers Mentioning stats 3,105
10.1038/s41437-018-0059-0
Unexpected mixed-mode transmission and moderate genetic regulation of Symbiodinium communities in a brooding coralCited by: 46
Author(s): Kate M. Quigley, Patricia A. Warner, Line K. Bay, Bette L. Willis
Software Mentions: 9
Published: over 6 years ago
10.18632/aging.203379
Integration of segmented regression analysis with weighted gene correlation network analysis identifies genes whose expression is remodeled throughout physiological aging in mouse tissuesCited by: 8
Author(s): Margarida Ferreira, Stephany Francisco, Ana Raquel Soares, Ana Nobre, Miguel Pinheiro, Andreia Reis, Sonya Neto, Ana João Rodrigues, Nuno Sousa, Gabriela Moura, Manuel A. S. Santos
Software Mentions: 9
Published: almost 3 years ago
10.1186/s12864-019-5870-3
Comprehensive assessment of multiple biases in small RNA sequencing reveals significant differences in the performance of widely used methodsCited by: 56
Author(s): Carrie Wright, Anandita Rajpurohit, Emily E. Burke, Courtney Williams, Leonardo Collado‐Torres, Martha Kimos, Nicholas J. Brandon, A.J. Cross, Daniel R. Weinberger, Joo Heon Shin
Software Mentions: 9
Published: almost 5 years ago
10.1186/s12915-020-00908-y
First evidence of convergent lifestyle signal in reptile skull roof microanatomyCited by: 11
Author(s): Roy Ebel, Johannes Müller, Till Ramm, Christy A. Hipsley, Eli Amson
Software Mentions: 9
Published: over 3 years ago
10.1093/gigascience/giy083
Clustering trees: a visualization for evaluating clusterings at multiple resolutionsCited by: 353
Author(s): Luke Zappia, Alicia Oshlack
Software Mentions: 9
Published: almost 6 years ago
10.1186/s13073-020-00731-8
Integrative -omics and HLA-ligandomics analysis to identify novel drug targets for ccRCC immunotherapyCited by: 28
Author(s): Anna Reustle, Moreno Di Marco, Carolin Meyerhoff, Annika Nelde, Juliane S. Walz, Stefan Winter, Siahei Kandabarau, Florian Büttner, Mathias Haag, Linus Backert, Daniel J. Kowalewski, Steffen Rausch, Jörg Hennenlotter, Viktoria Stühler, Marcus Scharpf, Falko Fend, Arnulf Stenzl, Hans‐Georg Rammensee, Jens Bedke, Stefan Stevanović, Matthias Schwab, Elke Schaeffeler
Software Mentions: 9
Published: about 4 years ago
10.1186/s13073-021-00902-1
Integrative statistical analyses of multiple liquid biopsy analytes in metastatic breast cancerCited by: 16
Author(s): Corinna Keup, Vinay Suryaprakash, Siegfried Hauch, Markus Storbeck, Peter F. Hahn, Markus Sprenger-Haussels, Hans‐Christian Kolberg, Mitra Tewes, Oliver Hoffmann, Rainer Kimmig, Sabine Kasimir‐Bauer
Software Mentions: 9
Published: about 3 years ago
10.1186/1471-2105-11-503
Challenges in microarray class discovery: a comprehensive examination of normalization, gene selection and clusteringCited by: 54
Author(s): Eva Freyhult, Mattias Landfors, Jenny Önskog, Torgeir R. Hvidsten, Patrik Rydén
Software Mentions: 9
Published: over 13 years ago
10.3390/cancers13040722
Prognostic and Predictive Value of Integrated Qualitative and Quantitative Magnetic Resonance Imaging Analysis in GlioblastomaCited by: 19
Author(s): Maikel Verduin, Sergey Primakov, Inge Compter, Henry C. Woodruff, Sander M. J. van Kuijk, Bram Ramaekers, Maarten te Dorsthorst, Elles G. M. Revenich, Mark ter Laan, Sjoert Pegge, Frederick J. A. Meijer, Jan Beckervordersandforth, Ernst-Jan M. Speel, Benno Küsters, Wendy W.J. de Leng, Monique M. Anten, Martijn P. G. Broen, Linda Ackermans, Olaf Schijns, Onno P.M. Teernstra, Koos E. Hovinga, Marc Vooijs, Vivianne C. G. Tjan‐Heijnen, Daniëlle Eekers, Alida A. Postma, Ann Hoeben
Software Mentions: 9
Published: over 3 years ago
10.1016/j.celrep.2019.01.041
RNA-Seq Signatures Normalized by mRNA Abundance Allow Absolute Deconvolution of Human Immune Cell TypesCited by: 510
Author(s): Gianni Monaco, Bernett Lee, Weili Xu, Seri Mustafah, You Yi Hwang, Christophe Carré, Nicolas Burdin, Lucian Visan, Michele Ceccarelli, Michael Poidinger, Alfred Zippelius, João Pedro de Magalhães, Anis Larbi
Software Mentions: 9
Published: over 5 years ago
10.1038/s41598-020-74691-9
Integration of geoscience frameworks into digital pathology analysis permits quantification of microarchitectural relationships in histological landscapesCited by: 4
Author(s): Timothy J. Kendall, Catherine Mary Duff, A. D. Thomson, John P. Iredale
Software Mentions: 9
Published: over 3 years ago
10.1038/s41598-020-74647-z
Passive acoustic listening stations (PALS) show rapid onset of ecological effects of harmful algal blooms in real timeCited by: 9
Author(s): Athena M. Rycyk, Reny B. Tyson Moore, Randall S. Wells, Katherine McHugh, Elizabeth J. Berens McCabe, David A. Mann
Software Mentions: 9
Published: over 3 years ago
10.3390/cancers12051076
Tumor-Infiltrating CD8 T Cells Predict Clinical Breast Cancer Outcomes in Young WomenCited by: 31
Author(s): Yong Won Jin, Pingzhao Hu
Software Mentions: 9
Published: about 4 years ago
10.1186/s13040-016-0086-4
Prediction of donor splice sites using random forest with a new sequence encoding approachCited by: 31
Author(s): Prabina Kumar Meher, Tanmaya Kumar Sahu, Atmakuri Ramakrishna Rao
Software Mentions: 9
Published: over 8 years ago
10.1186/s12870-019-1679-0
Inferring the regulatory network of the miRNA-mediated response to biotic and abiotic stress in melonCited by: 34
Author(s): Alejandro Sanz-Carbonell, Maria Carmen Marqués, Alexander Bustamante, Mario A. Fares, Guillermo Rodrigo, Gustavo Gómez
Software Mentions: 9
Published: over 5 years ago
10.1186/s12862-020-01671-y
Sex determination systems in reptiles are related to ambient temperature but not to the level of climatic fluctuationCited by: 12
Author(s): Paola Cornejo‐Páramo, Andrés Lira‐Noriega, Ciro Ramírez-Suástegui, Fausto Méndez-de-la-Cruz, Tamás Székely, Araxi O. Urrutia, Diego Cortez
Software Mentions: 9
Published: almost 4 years ago
10.3389/fmicb.2018.01323
Exposure to Arsenic Alters the Microbiome of Larval ZebrafishCited by: 37
Author(s): Dylan Dahan, Brooke A. Jude, Regina Lamendella, Felicia Keesing, Gabriel G. Perron
Software Mentions: 9
Published: almost 6 years ago
10.1093/femsec/fiab097
Host species shape the community structure of culturable endophytes in fruits of wild berry species (<i>Vaccinium myrtillus</i> L., <i>Empetrum nigrum</i> L. and <i>Vaccinium vitis-idaea</i> L.)Cited by: 9
Author(s): Minh-Phuong Nguyen, Kaisa Lehosmaa, Françoise Martz, Janne J. Koskimäki, Anna Maria Pirttilä, Hely Häggman
Software Mentions: 9
Published: almost 3 years ago
10.3390/microorganisms8010038
Tomato RNA-seq Data Mining Reveals the Taxonomic and Functional Diversity of Root-Associated MicrobiotaCited by: 13
Author(s): Matteo Chialva, Stefano Ghignone, Mara Novero, Wael N. Hozzein, Luisa Lanfranco, Paola Bonfante
Software Mentions: 9
Published: over 4 years ago
10.1186/1471-2148-14-9
Caves as microrefugia: Pleistocene phylogeography of the troglophilic North American scorpion Pseudouroctonus reddelliCited by: 36
Author(s): Robert W. Bryson, Lorenzo Prendini, Warren E. Savary, Peter B. Pearman
Software Mentions: 9
Published: over 10 years ago
10.3390/ani10050889
Combination of Bacillus licheniformis and Salinomycin: Effect on the Growth Performance and GIT Microbial Populations of Broiler ChickensCited by: 15
Author(s): Jacek Trela, Bartosz Kierończyk, Veerle Hautekiet, Damian Józefiak
Software Mentions: 8
Published: about 4 years ago
10.1038/s41598-021-92658-2
Profiling temporal dynamics of acetogenic communities in anaerobic digesters using next-generation sequencing and T-RFLPCited by: 10
Author(s): Abhijeet Singh, Bettina Müller, Anna Schnürer
Software Mentions: 8
Published: almost 3 years ago
10.3389/fmicb.2021.676615
Attributes of Drying Define the Structure and Functioning of Microbial Communities in Temperate Riverbed SedimentCited by: 7
Author(s): José Schreckinger, Michael Mutz, Clara Mendoza‐Lera, Aline Frossard
Software Mentions: 8
Published: almost 3 years ago
10.1002/1878-0261.12139
Transcription instability in high-risk neuroblastoma is associated with a global perturbation of chromatin domainsCited by: 4
Author(s): Carlo Zanon, Gian Paolo Tonini
Software Mentions: 8
Published: over 6 years ago
10.3389/fmicb.2021.644828
The Cheese Production Facility Microbiome Exhibits Temporal and Spatial VariabilityCited by: 12
Author(s): Jared Johnson, Chris Curtin, Joy Waite‐Cusic
Software Mentions: 8
Published: about 3 years ago
10.1038/s41389-019-0157-8
DeepCC: a novel deep learning-based framework for cancer molecular subtype classificationCited by: 119
Author(s): Feng Gao, Wei Wang, Miaomiao Tan, Lina Zhu, Yuchen Zhang, Evelyn Fessler, Louis Vermeulen, Xin Wang
Software Mentions: 8
Published: almost 5 years ago
10.1038/s41598-021-91559-8
Uridine and pyruvate protect T cells’ proliferative capacity from mitochondrial toxic antibiotics: a clinical pilot studyCited by: 8
Author(s): Stefano Battaglia, Stefania De Santis, Monica Rutigliano, Fabio Sallustio, Angela Picerno, Maria Antonia Frassanito, Ingo Schaefer, Angelo Vacca, Antonio Moschetta, Peter Seibel, Michele Battaglia, Gaetano Villani
Software Mentions: 8
Published: almost 3 years ago
10.1093/bib/bbaa290
NetCoMi: network construction and comparison for microbiome data in RCited by: 165
Author(s): Stefanie Peschel, Christian L. Müller, Erika von Mutius, Anne‐Laure Boulesteix, Martin Depner
Software Mentions: 8
Published: over 3 years ago
10.3389/fimmu.2018.00462
Analyzing Immunoglobulin RepertoiresCited by: 77
Author(s): Neha Chaudhary, Duane R. Wesemann
Software Mentions: 8
Published: about 6 years ago
10.3389/fmicb.2015.01269
Prokaryotes in Subsoil—Evidence for a Strong Spatial Separation of Different Phyla by Analysing Co-occurrence NetworksCited by: 39
Author(s): Marie Uksa, Michael Schloter, David Endesfelder, Susanne Kublik, Marion Engel, Timo Kautz, Ulrich Köpke, Doreen Fischer
Software Mentions: 8
Published: over 8 years ago
10.1371/journal.pone.0230262
So far, so good… Similar fitness consequences and overall energetic costs for short and long-distance migrants in a seabirdCited by: 10
Author(s): David Pelletier, Yannick Seyer, Stefan Garthe, Salomé Bonnefoi, Richard A. Phillips, Magella Guillemette
Software Mentions: 8
Published: about 4 years ago
10.1186/s12864-015-2319-1
Global expression differences and tissue specific expression differences in rice evolution result in two contrasting types of differentially expressed genesCited by: 3
Author(s): Youko Horiuchi, Yoshiaki Harushima, Hironori Fujisawa, Takako Mochizuki, Masahiro Fujita, Hajime Ohyanagi, Nori Kurata
Software Mentions: 8
Published: over 8 years ago
10.1136/jitc-2020-002071
HLA Ligand Atlas: a benign reference of HLA-presented peptides to improve T-cell-based cancer immunotherapyCited 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: about 3 years ago
10.1371/journal.pone.0206077
Demographic characteristics of an avian predator, Louisiana Waterthrush (Parkesia motacilla), in response to its aquatic prey in a Central Appalachian USA watershed impacted by shale gas developmentCited by: 6
Author(s): Mack W. Frantz, Petra Bohall Wood, George T. Merovich
Software Mentions: 8
Published: over 5 years ago
10.1038/s41598-020-75541-4
Stromal microenvironment promoted infiltration in esophageal adenocarcinoma and squamous cell carcinoma: a multi-cohort gene-based analysisCited by: 6
Author(s): Jiali Li, Zhao-Yi Zeng, Xueping Jiang, Nannan Zhang, Yanping Gao, Yuan Luo, Wenjie Sun, Shuying Li, Jiangbo Ren, Yan Gong, Conghua Xie
Software Mentions: 8
Published: over 3 years ago
10.1038/s41598-020-80881-2
Comprehensive analysis of metastatic gastric cancer tumour cells using single-cell RNA-seqCited by: 24
Author(s): Bin Wang, Yingyi Zhang, Tao Qing, Kaichen Xing, Jie Li, Timing Zhen, Sibo Zhu, Xi Zhan
Software Mentions: 8
Published: over 3 years ago
10.1186/s12870-020-02739-z
Candidate genes and SNPs associated with stomatal conductance under drought stress in VitisCited by: 7
Author(s): Massimiliano Trenti, Silvia Lorenzi, P. Bianchedi, Daniele Grossi, O. Failla, M. S. Grando, F. Emanuelli
Software Mentions: 8
Published: over 3 years ago
10.1371/journal.pone.0183264
The transcriptional profiling of human in vivo-generated plasma cells identifies selective imbalances in monoclonal gammopathiesCited by: 12
Author(s): Luis M. Valor, Beatriz Rodrı́guez-Bayona, Ana Ramos-Amaya, José A. Brieva, Antonio Campos‐Caro
Software Mentions: 8
Published: almost 7 years ago
10.1371/journal.pone.0234537
Prairie plants harbor distinct and beneficial root-endophytic bacterial communitiesCited by: 0
Author(s): Boahemaa Adu-Oppong, Scott A. Mangan, Cláudia Stein, Christopher P. Catano, Jonathan A. Myers, Gautam Dantas
Software Mentions: 8
Published: almost 4 years ago
10.3389/fgene.2019.01221
Increased Adaptive Variation Despite Reduced Overall Genetic Diversity in a Rapidly Adapting InvaderCited by: 39
Author(s): D. Selechnik, Mark F. Richardson, Richard Shine, Jayna L. DeVore, Simon Ducatez, Lee A. Rollins
Software Mentions: 8
Published: over 4 years ago
10.1038/s41598-020-66567-9
Texture features explain the susceptibility of grapevine cultivars to Drosophila suzukii (Diptera: Drosophilidae) infestation in ripening and drying grapesCited by: 14
Author(s): Lorenzo Tonina, Folco Giomi, Manuel Sancassani, M. Ajelli, Nicola Mori, L. Giongo
Software Mentions: 8
Published: almost 4 years ago
10.3758/s13420-016-0255-9
Effects of forced movements on learning: Findings from a choice reaction time task in ratsCited by: 3
Author(s): Hidekazu Kaneko, Hiroto Sano, Yasuhisa Hasegawa, Hiroshi Tamura, Shinya Suzuki
Software Mentions: 8
Published: over 7 years ago
10.3389/fgene.2018.00123
Inferring Variation in Copy Number Using High Throughput Sequencing Data in RCited by: 15
Author(s): Brian J. Knaus, Niklaus J. Grünwald
Software Mentions: 8
Published: about 6 years ago
10.3390/microorganisms9020378
Differences in the Concentration of the Fecal Neurotransmitters GABA and Glutamate Are Associated with Microbial Composition among Healthy Human SubjectsCited by: 18
Author(s): Hend Altaib, Kohei Nakamura, Mayuko Abe, Yassien Badr, Emiko Yanase, Izumi Nomura, Tomohiko Suzuki
Software Mentions: 8
Published: over 3 years ago
10.1038/s41598-020-59524-z
Cryptic species in the parasitic Amoebophrya species complex revealed by a polyphasic approachCited by: 16
Author(s): Ruibo Cai, Ehsan Kayal, Catharina Alves‐de‐Souza, Estelle Bigeard, Erwan Corre, Christian Jeanthon, Dominique Marie, Betina M. Porcel, Raffaele Siano, Jeremy Szymczak, Matthias Wolf, Laure Guillou
Software Mentions: 8
Published: over 4 years ago
10.1371/journal.pone.0206662
Predicting hospital and emergency department utilization among community-dwelling older adults: Statistical and machine learning approachesCited by: 15
Author(s): Aaron Jones, Andrew P. Costa, Angelina Pesevski, Paul D. McNicholas
Software Mentions: 8
Published: over 5 years ago
10.1186/s13058-018-1022-y
Clonal relatedness in tumour pairs of breast cancer patientsCited by: 14
Author(s): Jana Biermann, Toshima Z. Parris, Szilárd Nemes, Anna Danielsson, Hanna Engqvist, Elisabeth Werner Rönnerman, Eva Forssell-Aronsson, Anikó Kovács, Per Karlsson, Khalil Helou
Software Mentions: 8
Published: almost 6 years ago
10.1038/s41598-019-50642-x
Transcriptome Sequencing of Peripheral Blood Mononuclear Cells from Elite Controller-Long Term Non ProgressorsCited by: 11
Author(s): Francisco Díez-Fuertes, Humberto Erick De La Torre Tarazona, Esther Calonge, María Pernas, María del Mar Alonso-Socas, Laura Capa, Javier García-Pérez, Anavaj Sakuntabhai, José Alcamı́
Software Mentions: 8
Published: over 4 years ago
10.3390/foods8100488
Effect of Product Involvement on Panels’ Vocabulary Generation, Attribute Identification, and Sample Configurations in BeerCited by: 4
Author(s): Line Elgaard, Line Holler Mielby, Hildegarde Heymann, Derek V. Byrne
Software Mentions: 8
Published: over 4 years ago
10.1038/s41598-019-50858-x
Landscape determinants of density of blacklegged ticks, vectors of Lyme disease, at the northern edge of their distribution in CanadaCited by: 19
Author(s): Benoit Talbot, Andreea Slatculescu, Charles Thickstun, Jules K. Koffi, Patrick A. Leighton, Roman McKay, Manisha A. Kulkarni
Software Mentions: 8
Published: over 4 years ago
10.1038/s41598-017-14785-z
Poly-β-hydroxybutyrate administration during early life: effects on performance, immunity and microbial community of European sea bass yolk-sac larvaeCited by: 18
Author(s): Andrea Franke, Olivia Roth, Peter De Schryver, Till Bayer, Linsey Garcia‐Gonzalez, Sven Künzel, Peter Bossier, Joanna J. Miest, Catriona Clemmesen
Software Mentions: 8
Published: over 6 years ago
10.12688/f1000research.14361.1
freesurfer: Connecting the Freesurfer software with RCited by: 7
Author(s): John Muschelli, Elizabeth Sweeney, Ciprian M. Crainiceanu
Software Mentions: 8
Published: about 6 years ago
10.1186/s12866-021-02222-1
Patterns of yeast diversity distribution and its drivers in rhizosphere soil of Hami melon orchards in different regions of XinjiangCited by: 7
Author(s): Shanshan Zhu, Yonghui Lei, Chong Wang, Yu‐Mei Wei, Chuncheng Wang, Yanfei Sun
Software Mentions: 8
Published: almost 3 years ago
10.3390/ani10112127
Vultures and Livestock: The Where, When, and Why of Visits to FarmsCited by: 6
Author(s): Marina García‐Alfonso, Thijs van Overveld, Laura Gangoso, David Serrano, José A. Donázar
Software Mentions: 8
Published: over 3 years ago
10.1038/s41598-019-38483-0
Metabotyping as a Stopover in Genome-to-Phenome MappingCited by: 31
Author(s): Pubudu Handakumbura, Bryan Stanfill, Albert Rivas‐Ubach, Dan Fortin, John P. Vogel, Christer Jansson
Software Mentions: 8
Published: over 5 years ago
10.1007/s00787-020-01535-2
Visual search in ADHD, ASD and ASD + ADHD: overlapping or dissociating disorders?Cited by: 13
Author(s): Divya Seernani, K. Damania, Chara Ioannou, N. Penkalla, Holger Hill, Tom Foulsham, Alan Kingstone, Nicola Anderson, Giuseppe Boccignone, Stephan Bender, N. Smyrnis, Monica Biscaldi, Ulrich W. Ebner‐Priemer, Christoph Klein
Software Mentions: 8
Published: about 4 years ago
10.3390/e23010072
Unraveling of a Strongly Correlated Dynamical Network of Residues Controlling the Permeation of Potassium in KcsA Ion ChannelCited by: 2
Author(s): Salvatore M. Cosseddu, Eunju Julia Choe, I. A. Khovanov
Software Mentions: 8
Published: over 3 years ago
10.3390/jcm10010111
Evaluating the Effect of Topical Atropine Use for Myopia Control on Intraocular Pressure by Using Machine LearningCited by: 19
Author(s): Tzu-En Wu, Hsin‐An Chen, Mao-Jhen Jhou, Yen-Ning Chen, Ting-Jen Chang, Chi-Jie Lu
Software Mentions: 8
Published: over 3 years ago
10.3390/jcm9113569
Seroprevalence of SARS-CoV-2 IgG Antibodies in Corsica (France), April and June 2020Cited by: 11
Author(s): Lisandru Capai, Nazlı Ayhan, Shirley Masse, Jean Canarelli, Stéphane Priet, Marie-Hélène Simeoni, Rémi N. Charrel, Xavier de Lamballerie, Alessandra Falchi
Software Mentions: 8
Published: over 3 years ago
10.3390/insects12080701
Anthonomus rubi on Strawberry Fruit: Its Biology, Ecology, Damage, and Control from an IPM PerspectiveCited by: 5
Author(s): Lorenzo Tonina, Giulia Zanettin, Paolo Miorelli, Simone Puppato, Andrew G. S. Cuthbertson, A. Grassi
Software Mentions: 8
Published: almost 3 years ago
10.1016/j.immuni.2019.02.006
Anti-commensal IgG Drives Intestinal Inflammation and Type 17 Immunity in Ulcerative ColitisCited by: 121
Author(s): Tomas Castro‐Dopico, Thomas W. Dennison, John R. Ferdinand, Rebeccah J. Mathews, Aaron Fleming, Dean Clift, Benjamin J Stewart, Chenzhi Jing, Konstantina Strongili, Larisa I. Labzin, Edward J M Monk, Kourosh Saeb‐Parsy, Clare E. Bryant, Simon Clare, Miles Parkes, Menna R. Clatworthy
Software Mentions: 8
Published: about 5 years ago
10.1186/s40168-019-0716-4
The association between pneumococcal vaccination, ethnicity, and the nasopharyngeal microbiota of children in FijiCited by: 11
Author(s): Laura K. Boelsen, Eileen M. Dunne, Moana Mika, Stefanie Eggers, Cattram Nguyen, Felisita Tupou Ratu, Fiona M. Russell, E. Kim Mulholland, Markus Hilty, Catherine Satzke
Software Mentions: 8
Published: almost 5 years ago
10.1093/bioinformatics/bts438
iBBiG: iterative binary bi-clustering of gene setsCited by: 44
Author(s): Daniel Gusenleitner, Eleanor Howe, Stefan Bentink, John Quackenbush, Aedín C. Culhane
Software Mentions: 8
Published: almost 12 years ago
10.1186/s40478-021-01240-4
Experimental colitis promotes sustained, sex-dependent, T-cell-associated neuroinflammation and parkinsonian neuropathologyCited by: 26
Author(s): Madelyn C. Houser, W. Michael Caudle, Jianjun Chang, George T. Kannarkat, Yuan Yang, Sean D. Kelly, Danielle Oliver, Valerie Joers, Kathleen M. Shannon, Ali Keshavarzian, Malú G. Tansey
Software Mentions: 8
Published: almost 3 years ago
10.1371/journal.pgen.1008754
Single-nucleus RNA-seq identifies divergent populations of FSHD2 myotube nucleiCited by: 24
Author(s): Shan Jiang, Katherine Williams, Xiangduo Kong, Weihua Zeng, Nam Viet Nguyen, Xinyi Ma, Rabi Tawil, Kyoko Yokomori, A Mortazavi
Software Mentions: 8
Published: about 4 years ago
10.1093/gigascience/giz003
Comparative analyses identify genomic features potentially involved in the evolution of birds-of-paradiseCited by: 21
Author(s): Stefan Prost, Ellie E. Armstrong, Johan A. A. Nylander, Gregg W.C. Thomas, Alexander Suh, Bent Petersen, Love Dalén, Brett W. Benz, Mozes P. K. Blom, Eleftheria Palkopoulou, Per G. P. Ericson, Martin Irestedt
Software Mentions: 8
Published: over 5 years ago
10.1038/s42003-021-01658-5
Colonization and genetic diversification processes of Leishmania infantum in the AmericasCited by: 30
Author(s): Philipp Schwabl, Mariana Côrtes Boité, Giovanni Bussotti, Arne Jacobs, Björn Andersson, Otacílio C. Moreira, Anita Leocádio Freitas-Mesquita, José Roberto Meyer‐Fernandes, Erich Loza Telleria, Yara M. Traub-Csekö, Slavica Vaselek, Tereza Leštinová, Petr Volf, Fernanda Nazaré Morgado, Renato Porrozzi, Martin S. Llewellyn, Gérald F. Späth, Elisa Cupolillo
Software Mentions: 8
Published: over 3 years ago
10.1186/s42523-021-00111-6
Characterization of the gut microbiome in wild rocky mountainsnails (Oreohelix strigosa)Cited by: 2
Author(s): Bridget Chalifour, Jingchun Li
Software Mentions: 8
Published: almost 3 years ago
10.1038/s42003-021-02509-z
Species diversity and food web structure jointly shape natural biological control in agricultural landscapesCited by: 10
Author(s): Fan Yang, Bing Liu, Zhao Yu, Kris A.G. Wyckhuys, Wopke Van der Werf, Yanhui Lu
Software Mentions: 8
Published: almost 3 years ago
10.1186/s12877-020-01644-2
Dysbiosis, gut barrier dysfunction and inflammation in dementia: a pilot studyCited by: 87
Author(s): Vanessa Stadlbauer, Lara Engertsberger, Irina Komarova, Nicole Feldbacher, Bettina Leber, Gerhard Pichler, Nicole Fink, Monika Scarpatetti, Walter Schippinger, Reinhold Schmidt, Angela Horvath
Software Mentions: 8
Published: almost 4 years ago
10.1186/s13148-021-01144-z
Whole-genome methylation analysis of testicular germ cells from cryptozoospermic men points to recurrent and functionally relevant DNA methylation changesCited by: 9
Author(s): Sara Di Persio, Elsa Leitão, Marius Wöste, Tobias Tekath, Jann‐Frederik Cremers, Martin Dugas, Xiaolin Liao, Gerd Meyer zu Hörste, Sabine Kliesch, Sandra Laurentino, Nina Neuhaus, Bernhard Horsthemke
Software Mentions: 8
Published: over 2 years ago
10.1038/s41598-019-55706-6
Tailings microbial community profile and prediction of its functionality in basins of tungsten mineCited by: 26
Author(s): Ana Paula Chung, Carina Coimbra, Pedro Farias, Romeu Francisco, Rita Branco, Francisco Veiga Simão, Érico Rodrigues Gomes, Alcides Pereira, Maria Cristina Vila, António Fiúza, Martin Steen Mortensen, Søren J. Sørensen, Paula V. Morais
Software Mentions: 8
Published: over 4 years ago
10.1093/gbe/evaa191
Coexpression Clusters and Allele-Specific Expression in Metabolism-Based Herbicide ResistanceCited by: 17
Author(s): Darci A. Giacomini, Eric Patterson, Anita Küpper, Roland Beffa, Todd A. Gaines, Patrick J. Tranel
Software Mentions: 8
Published: over 3 years ago
10.1534/g3.114.010298
Parametric and Nonparametric Statistical Methods for Genomic Selection of Traits with Additive and Epistatic Genetic ArchitecturesCited by: 132
Author(s): Réka Howard, Alicia L. Carriquiry, William D. Beavis
Software Mentions: 8
Published: almost 10 years ago
10.1186/s12864-020-6653-6
Novel approach in whole genome mining and transcriptome analysis reveal conserved RiPPs in Trichoderma sppCited by: 14
Author(s): Gabriel A. Vignolle, Robert L. Mach, Astrid R. Mach-Aigner, Christian Derntl
Software Mentions: 8
Published: about 4 years ago
10.1002/acn3.51441
Gut microbiome is associated with multiple sclerosis activity in childrenCited by: 18
Author(s): Mary Horton, Kathryn McCauley, Douglas Fadrosh, Kei E. Fujimura, Jennifer Graves, Jayne Ness, Yolanda Wheeler, Mark Gorman, Leslie Benson, Bianca Weinstock‐Guttman, Amy Waldman, Moses Rodriguez, Jan‐Mendelt Tillema, Lauren Krupp, Anita Belman, Soe Mar, Mary Rensel, Tanuja Chitnis, T. Charles Casper, John Rose, Janace Hart, Xiaorong Shao, Helen Tremlett, Susan V. Lynch, Lisa F. Barcellos, Emmanuelle Waubant
Software Mentions: 8
Published: almost 3 years ago
10.1186/1471-2105-14-133
How cyanobacteria pose new problems to old methods: challenges in microarray time series analysisCited by: 23
Author(s): Robert Lehmann, Rainer Machné, Jens Georg, Manuela Benary, Ilka M. Axmann, Ralf Steuer
Software Mentions: 8
Published: about 11 years ago
10.3390/cancers12010045
N-Terminal Truncated Myb with New Transcriptional Activity Produced Through Use of an Alternative MYB Promoter in Salivary Gland Adenoid Cystic CarcinomaCited by: 11
Author(s): Candace A. Frerich, Hailey N. Sedam, Huining Kang, Yoshitsugu Mitani, Adel K. El‐Naggar, Scott A. Ness
Software Mentions: 8
Published: over 4 years ago
10.3390/cancers13143621
HPV Infection Leaves a DNA Methylation Signature in Oropharyngeal Cancer Affecting Both Coding Genes and Transposable ElementsCited by: 10
Author(s): Diego Camuzi, Luisa Aguirre Buexm, Simone De Queiroz Chaves Lourenço, Davide Degli Esposti, Cyrille Cuenin, Monique de Souza Almeida Lopes, Francesca Manara, Fazlur Rahman Talukdar, Zdenko Herceg, Luís Felipe Ribeiro Pinto, Sheila Coelho Soares-Lima
Software Mentions: 8
Published: almost 3 years ago
10.3390/cancers12113089
CT-Based Radiomics Analysis to Predict Malignancy in Patients with Intraductal Papillary Mucinous Neoplasm (IPMN) of the PancreasCited by: 28
Author(s): David Tobaly, João Santinha, Riccardo Sartoris, Marco Dioguardi Burgio, Celso Matos, Jérôme Cros, Anne Couvelard, Vinciane Rebours, Alain Sauvanet, Maxime Ronot, Nikolaos Papanikolaou, Valérie Vilgrain
Software Mentions: 8
Published: over 3 years ago
10.1371/journal.pone.0220926
Gut microbiome shifts with urbanization and potentially facilitates a zoonotic pathogen in a wading birdCited by: 50
Author(s): Maureen H. Murray, Emily W. Lankau, Anjelika D. Kidd, Catharine N. Welch, Taylor Ellison, Henry Adams, Erin K. Lipp, Sonia M. Hernández
Software Mentions: 8
Published: about 4 years ago
10.1186/s12917-015-0593-4
A preliminary study of the effect of closed incision management with negative pressure wound therapy over high-risk incisionsCited by: 14
Author(s): Karen L Perry, Lynda Rutherford, D. Sajik, Mieghan Bruce
Software Mentions: 8
Published: over 8 years ago
10.3389/fpsyg.2021.703892
“It All Makes Us Feel Together”: Young People's Experiences of Virtual Group Music-Making During the COVID-19 PandemicCited by: 10
Author(s): Maruša Levstek, Rubie Mai Barnby, Katherine Pocock, Robin Banerjee
Software Mentions: 8
Published: almost 3 years ago
10.7554/eLife.19545
Splicing repression allows the gradual emergence of new Alu-exons in primate evolutionCited by: 52
Author(s): Jan Attig, Igor Ruiz de los Mozos, Nejc Haberman, Zhen Wang, Warren Emmett, Kathi Zarnack, Julian König, Jernej Ule
Software Mentions: 8
Published: over 7 years ago
10.1371/journal.pone.0245029
Experimental warming influences species abundances in a Drosophila host community through direct effects on species performance rather than altered competition and parasitismCited by: 8
Author(s): Mélanie Thierry, Nicholas A. Pardikes, Chia‐Hua Lue, Owen T. Lewis, Jan Hrček
Software Mentions: 8
Published: over 3 years ago
10.1038/s41598-019-44597-2
NOMePlot: analysis of DNA methylation and nucleosome occupancy at the single moleculeCited by: 3
Author(s): Francisco Requena, Helena G Asenjo, Guillermo Barturen, Jordi Martorell-Marugán, Pedro Carmona-Sáez, David Landeira
Software Mentions: 8
Published: almost 5 years ago
10.3389/fmicb.2017.02512
Worldwide Phylogenetic Group Patterns of Escherichia coli from Commensal Human and Wastewater Treatment Plant IsolatesCited by: 69
Author(s): Nancy de Castro Stoppe, Juliana Saragiotto Silva, Camila Carlos, Maria Inês Z. Sato, Antônio Mauro Saraiva, Laura Maria Mariscal Ottoboni, Tatiana Teixeira Torres
Software Mentions: 8
Published: over 6 years ago
10.3389/fmicb.2020.01987
Development and Analysis of a Stable, Reduced Complexity Model Soil MicrobiomeCited by: 15
Author(s): Ryan McClure, Dan Naylor, Yuliya Farris, Michelle Davison, Sarah Fansler, Kirsten Hofmockel, Janet K. Jansson
Software Mentions: 8
Published: over 3 years ago
10.3390/cells8080920
The Snapdragon LATE ELONGATED HYPOCOTYL Plays A Dual Role in Activating Floral Growth and Scent EmissionCited by: 9
Author(s): Marta I. Terry, Fernando Pérez-Sánz, Pedro J. Navarro, Julia Weiß, Marcos Egea‐Cortines
Software Mentions: 8
Published: almost 5 years ago
10.3389/fpsyg.2017.02229
Work Engagement among Rescue Workers: Psychometric Properties of the Portuguese UWESCited by: 18
Author(s): Jorge Sinval, Alexandra Marqués Pinto, Cristina Queirós, João Marôco
Software Mentions: 8
Published: over 6 years ago
10.1038/s41375-020-01096-y
Copy number evolution and its relationship with patient outcome—an analysis of 178 matched presentation-relapse tumor pairs from the Myeloma XI trialCited by: 21
Author(s): James Croft, Sidra Ellis, Amy L. Sherborne, Kim A. Sharp, Amy Price, Matthew Jenner, Mark T. Drayson, Roger G. Owen, Sally Chown, Jindriska Lindsay, Kamaraj Karunanithi, Hannah Hunter, Walter M. Gregory, Faith E. Davies, Gareth J. Morgan, Gordon Cook, Lilit Atanesyan, Suvi Savola, David A. Cairns, Graham Jackson, Richard S. Houlston, Martin Kaiser
Software Mentions: 8
Published: over 3 years ago
10.3389/fvets.2020.00523
Mind the Queue: A Case Study in Visualizing Heterogeneous Behavioral Patterns in Livestock Sensor Data Using Unsupervised Machine Learning TechniquesCited by: 11
Author(s): Catherine McVey, Fushing Hsieh, Diego Manríquez, Pablo Pinedo, Kristina Horback
Software Mentions: 8
Published: almost 4 years ago
10.1002/ece3.4535
Determining social and population structures requires multiple approaches: A case study of the desert ant<i>Cataglyphis israelensis</i>Cited by: 3
Author(s): Tali Reiner Brodetzki, Abraham Hefetz
Software Mentions: 8
Published: over 5 years ago
10.3389/fonc.2020.00832
Diagnostic Value of Combinatorial Markers in Colorectal CarcinomaCited by: 7
Author(s): Veronika Voronova, Petr Glybochko, Andrey Svistunov, В В Фомин, Philipp Kopylov, Peter Tzarkov, А. В. Егоров, E. P. Gitel, А. А. Рагимов, Alexander Boroda, Elena Poddubskaya, Marina Sekacheva
Software Mentions: 8
Published: almost 4 years ago
10.1371/journal.pbio.2002054
Genomic dissection of conserved transcriptional regulation in intestinal epithelial cellsCited by: 76
Author(s): Colin R. Lickwar, J. Gray Camp, Matthew Weiser, Jordan L. Cocchiaro, David M. Kingsley, Terrence S. Furey, Shehzad Z. Sheikh, John F. Rawls
Software Mentions: 8
Published: over 6 years ago
10.18632/oncotarget.16961
RNA sequencing-based cell proliferation analysis across 19 cancers identifies a subset of proliferation-informative cancers with a common survival signatureCited by: 24
Author(s): Ryne C. Ramaker, Brittany N. Lasseigne, Andrew A. Hardigan, Laura Palacio, David S. Gunther, R Myers, Sara J. Cooper
Software Mentions: 8
Published: about 7 years ago
10.1098/rspb.2020.1158
Parasite infection disrupts escape behaviours in fish shoalsCited by: 3
Author(s): Nicolle Demandt, Marit Praetz, Ralf H. J. M. Kurvers, Jens Krause, Joachim Kurtz, Jörn P. Scharsack
Software Mentions: 8
Published: over 3 years ago
10.3389/fonc.2019.01243
Identification of Subtype-Specific Three-Gene Signature for Prognostic Prediction in Diffuse Type Gastric CancerCited by: 12
Author(s): Bowen Bao, Chunlei Zheng, Bowen Yang, Yue Jin, Kezuo Hou, Zhi Li, Xueying Zheng, Shitong Yu, Xiaojie Zhang, Yibo Fan, Xiujuan Qu, Yunpeng Liu, Xiaofang Che
Software Mentions: 8
Published: over 4 years ago
10.1155/2021/9048375
Nomograms for Predicting Prognosis of Primary Mediastinal Seminoma: A Population-Based StudyCited by: 2
Author(s): Weining Huang, Jingwen Luo, Xianghong Zhou, Ying Zhao, Tao Zhang, Xuelei Ma
Software Mentions: 8
Published: about 3 years ago
10.1002/ece3.5289
Disturbance history mediates climate change effects on subtropical forest biomass and dynamicsCited by: 16
Author(s): Alexandre F. Souza, Solon Jonas Longhi
Software Mentions: 8
Published: almost 5 years ago