Ecosyste.ms: Papers

10.15252/msb.20209539

Predictive features of gene expression variation reveal mechanistic link with differential expression
Cited by: 36
Author(s): Olga M. Sigalova, Amirreza Shaeiri, Mattia Forneris, Eileen E. M. Furlong, Judith B. Zaugg
Software Mentions: 30
Published: over 4 years ago

10.1186/s12859-019-3152-3

flowEMMi: an automated model-based clustering tool for microbial cytometric data
Cited by: 16
Author(s): Joachim Ludwig, Christian Höner zu Siederdissen, Zishu Liu, Peter F. Stadler, Susann Müller
Software Mentions: 18
Published: about 5 years ago

10.3389/fcell.2020.592490

Transcriptome Sequencing Reveals Potential Roles of ICOS in Primary Sjögren’s Syndrome
Cited by: 19
Author(s): Jing Luo, Xin Liao, Lihe Zhang, Xin Xu, Senhong Ying, Mengjiao Yu, Lixia Zhu, Suxian Lin, Xiaobing Wang
Software Mentions: 14
Published: about 4 years ago

10.1038/srep30325

In silico synchronization reveals regulators of nuclear ruptures in lamin A/C deficient model cells
Cited by: 72
Author(s): Joke Robijns, Freya Molenberghs, Tom Sieprath, Tobias Corne, Marlies Verschuuren, Winnok H. De Vos
Software Mentions: 14
Published: over 8 years ago

10.1371/journal.pone.0205742

The calm during the storm: Snowfall events decrease the movement rates of grey wolves (Canis lupus)
Cited by: 10
Author(s): Amanda Droghini, Stan Boutin
Software Mentions: 12
Published: about 6 years ago

10.3389/fimmu.2018.02191

Single Cell RNA Sequencing Identifies HSPG2 and APLNR as Markers of Endothelial Cell Injury in Systemic Sclerosis Skin
Cited by: 48
Author(s): Sokratis A. Apostolidis, Giuseppina Stifano, Tracy Tabib, Lisa Rice, Christina Morse, Bashar Kahaleh, Robert Lafyatis
Software Mentions: 11
Published: about 6 years ago

10.1242/bio.052993

Site-1 protease ablation in the osterix-lineage in mice results in bone marrow neutrophilia and hematopoietic stem cell alterations
Cited by: 2
Author(s): Debabrata Patra, Joongho Kim, Qiang Zhang, Eric Tycksen, Linda J. Sandell
Software Mentions: 9
Published: over 4 years ago

10.15252/msb.20199389

scClassify: sample size estimation and multiscale classification of cells using single and multiple reference
Cited by: 63
Author(s): Yingxin Lin, Yue Cao, Hani Jieun Kim, Agus Salim, T. P. Speed, David M. Lin, Pengyi Yang, Jean Yee Hwa Yang
Software Mentions: 9
Published: over 4 years ago

10.1038/s41598-018-29378-7

Epigenetic and transcriptional dysregulation of VWA2 associated with a MYC-driven oncogenic program in colorectal cancer
Cited by: 7
Author(s): Beatríz González, Ferran Fece de la Cruz, Johanna Samuelsson, Andreu Alibés, Sergio Alonso
Software Mentions: 8
Published: over 6 years ago

10.1186/s12864-019-6308-7

Human gene expression variability and its dependence on methylation and aging
Cited by: 23
Author(s): Nasser Bashkeel, Theodore J. Perkins, Mads Kærn, Jonathan M. Lee
Software Mentions: 7
Published: about 5 years ago

10.7554/eLife.69549

A precisely adjustable, variation-suppressed eukaryotic transcriptional controller to enable genetic discovery
Cited by: 15
Author(s): Aslı Azizoğlu, Roger Brent, Fabian Rudolf
Software Mentions: 7
Published: over 3 years ago

10.3389/fpls.2017.01677

Germination and Seedling Growth of Water Primroses: A Cross Experiment between Two Invaded Ranges with Contrasting Climates
Cited by: 14
Author(s): Morgane Gillard, Brenda J. Grewell, Caryn J. Futrell, Carole Deleu, Gabrielle Thiébaut
Software Mentions: 7
Published: about 7 years ago

10.7717/peerj.7863

Manx shearwater (<i>Puffinus puffinus</i>) rafting behaviour revealed by GPS tracking and behavioural observations
Cited by: 6
Author(s): Cerren Richards, Oliver Padget, Tim Guilford, Amanda E. Bates
Software Mentions: 7
Published: about 5 years ago

10.1371/journal.pone.0177840

Identifying artemisinin resistance from parasite clearance half-life data with a simple Shiny web application
Cited by: 3
Author(s): Tun Stt., Yoel Lubell, Arjen M. Dondorp, Tom Fieldman, Kyaw Myo Tun, O. Celhay, Xin Hui S Chan, Sompob Saralamba, Lisa J. White
Software Mentions: 6
Published: over 7 years ago

10.1038/srep32753

HIPSTR and thousands of lncRNAs are heterogeneously expressed in human embryos, primordial germ cells and stable cell lines
Cited by: 35
Author(s): Dinar Yunusov, Letícia Anderson, Luis DaSilva, Joanna Wysocka, Toshihiko Ezashi, R. M. Roberts, Sérgio Verjovski-Almeida
Software Mentions: 6
Published: over 8 years ago

10.3390/plants10071324

Heterogeneous Impact of Water Warming on Exotic and Native Submerged and Emergent Plants in Outdoor Mesocosms
Cited by: 0
Author(s): Morgane Gillard, Jean-Pierre Caudal, Carole Deleu, Gabrielle Thiébaut
Software Mentions: 6
Published: over 3 years ago

10.1186/s13073-015-0237-0

Identification of global regulators of T-helper cell lineage specification
Cited by: 36
Author(s): Kartiek Kanduri, Subhash Tripathi, Antti Larjo, Henrik Mannerström, Ubaid Ullah, Riikka Lund, R. David Hawkins, Bing Ren, Harri Lähdesmäki, Riitta Lahesmaa
Software Mentions: 6
Published: about 9 years ago

10.1186/1471-2105-14-S5-S10

An optimized algorithm for detecting and annotating regional differential methylation
Cited by: 101
Author(s): Shengyong Li, Francine E. Garrett-Bakelman, Altuna Akalin, Paul Zumbo, Ross L. Levine, Bik To, Ian D. Lewis, Anna L. Brown, Richard J. D’Andrea, Ari Melnick, Christopher E. Mason
Software Mentions: 6
Published: over 11 years ago

10.3389/fmicb.2018.02137

Traditional Norwegian Kveik Are a Genetically Distinct Group of Domesticated Saccharomyces cerevisiae Brewing Yeasts
Cited by: 36
Author(s): Richard Preiss, Caroline Tyrawa, Kristoffer Krogerus, Lars Marius Garshol, George van der Merwe
Software Mentions: 6
Published: over 6 years ago

10.1186/s12864-016-2963-0

iTAR: a web server for identifying target genes of transcription factors using ChIP-seq or ChIP-chip data
Cited by: 2
Author(s): Chi Yang, Erik H. Andrews, Min-Hsuan Chen, Wanyu Wang, Jeremy J.W. Chen, Mark Gerstein, Chun-Chi Liu, Chao Cheng
Software Mentions: 6
Published: over 8 years ago

10.3389/fmicb.2018.02253

A Unique Saccharomyces cerevisiae × Saccharomyces uvarum Hybrid Isolated From Norwegian Farmhouse Beer: Characterization and Reconstruction
Cited by: 38
Author(s): Kristoffer Krogerus, Richard Preiss, Brian Gibson
Software Mentions: 5
Published: about 6 years ago

10.3389/fgene.2018.00026

Transcriptomic and Proteomic Profiling Revealed High Proportions of Odorant Binding and Antimicrobial Defense Proteins in Olfactory Tissues of the House Mouse
Cited by: 26
Author(s): Barbora Kuntová, Romana Stopková, Pavel Stopka
Software Mentions: 5
Published: almost 7 years ago

10.1186/1471-2164-15-687

Species and gene divergence in Littorina snails detected by array comparative genomic hybridization
Cited by: 20
Author(s): Marina Panova, Tomas Johansson, Björn Canbäck, Johan Bentzer, Magnus Alm Rosenblad, Kerstin Johannesson, Anders Tunlid, Carl André
Software Mentions: 5
Published: almost 11 years ago

10.1002/ece3.1015

Crater lake cichlids individually specialize along the benthic–limnetic axis
Cited by: 39
Author(s): Henrik Kusche, Hans Recknagel, Axel Meyer
Software Mentions: 5
Published: almost 11 years ago

10.3390/s19214652

Dark Field Microscopy-Based Biosensors for the Detection of E. coli in Environmental Water Samples
Cited by: 7
Author(s): Rita La Spina, Diana C. António, Cloé Desmet, Andrea Valsesia, Radoslaw Bombera, Hedvig Norlén, Teresa Lettieri, Pascal Colpo
Software Mentions: 5
Published: about 5 years ago

10.1038/s41598-021-98176-5

Flow cytometry method for absolute counting and single-cell phenotyping of mycobacteria
Cited by: 5
Author(s): David Barr, Charles Onyango Omollo, Mandy K. Mason, Anastasia Koch, Robert J. Wilkinson, David G. Lalloo, Graeme Meintjes, Valerie Mizrahi, Digby F. Warner, Gerry Davies
Software Mentions: 5
Published: over 3 years ago

10.1186/s12859-018-2115-4

Notos - a galaxy tool to analyze CpN observed expected ratios for inferring DNA methylation types
Cited by: 6
Author(s): Ingo Bulla, Benoît Aliaga, Virginia Lacal, Jan Bulla, Christoph Grunau, Cristian Chaparro
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pgen.1005698

Developmental Dynamics of X-Chromosome Dosage Compensation by the DCC and H4K20me1 in C. elegans
Cited by: 43
Author(s): Maxwell Kramer, Anna Lena Kranz, Amanda Su, Lara Winterkorn, Sarah Elizabeth Albritton, Sevinç Ercan
Software Mentions: 5
Published: about 9 years ago

10.1186/s12859-015-0475-6

Pheno2Geno - High-throughput generation of genetic markers and maps from molecular phenotypes for crosses between inbred strains
Cited by: 9
Author(s): Konrad Zych, Yang Li, Joeri K. van der Velde, Ronny V.L. Joosen, Wilco Ligterink, Ritsert C. Jansen, Danny Arends
Software Mentions: 5
Published: almost 10 years ago

10.1371/journal.pone.0161476

Evolution of the Exon-Intron Structure in Ciliate Genomes
Cited by: 17
Author(s): Vladyslav Bondarenko, Mikhail S. Gelfand
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pone.0115680

Two-Stage Genome-Wide Search for Epistasis with Implementation to Recombinant Inbred Lines (RIL) Populations
Cited by: 2
Author(s): Pavel Goldstein, Abraham B. Korol, Anat Reiner-Benaim
Software Mentions: 5
Published: almost 10 years ago

10.1371/journal.pone.0250831

Environmentally triggered shifts in steelhead migration behavior and consequences for survival in the mid-Columbia River
Cited by: 5
Author(s): Jared E. Siegel, Lisa G. Crozier, Lauren E. Wiesebron, Daniel L. Widener
Software Mentions: 5
Published: over 3 years ago

10.7554/eLife.23645

Cooperation between a hierarchical set of recruitment sites targets the X chromosome for dosage compensation
Cited by: 27
Author(s): Sarah Elizabeth Albritton, Anna Lena Kranz, Lara Winterkorn, Lena Annika Street, Sevinç Ercan
Software Mentions: 5
Published: over 7 years ago

10.3389/fmicb.2020.00101

Predicting Microbiome Function Across Space Is Confounded by Strain-Level Differences and Functional Redundancy Across Taxa
Cited by: 26
Author(s): Elle M. Barnes, Erin L. Carter, James D. Lewis
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0222011

Human-induced fire regime shifts during 19th century industrialization: A robust fire regime reconstruction using northern Polish lake sediments
Cited by: 19
Author(s): Elisabeth Dietze, Dariusz Brykała, Laura T. Schreuder, Krzysztof Jażdżewski, Olivier Blarquez, Achim Brauer, Michael Dietze, Milena Obremska, Florian Ott, Anna Pieńczewska, Stefan Schouten, Ellen C. Hopmans, Michael Słowiński
Software Mentions: 4
Published: over 5 years ago

10.1002/ece3.849

Measuring and evaluating morphological asymmetry in fish: distinct lateral dimorphism in the jaws of scale‐eating cichlids
Cited by: 18
Author(s): Hiroki Hata, Masaki Yasugi, Yuichi Takeuchi, Satoshi Takahashi, Michio Hori
Software Mentions: 4
Published: about 11 years ago

10.1371/journal.pone.0255368

Application of endocrine biomarkers to update information on reproductive physiology in gray whale (Eschrichtius robustus)
Cited by: 13
Author(s): Valentina Melica, Shannon Atkinson, John Calambokidis, Aimée R. Lang, Jonathan J. Scordino, Franz J. Mueter
Software Mentions: 4
Published: over 3 years ago

10.1155/2015/738030

Current Mathematical Models for Analyzing Anti-Malarial Antibody Data with an Eye to Malaria Elimination and Eradication
Cited by: 35
Author(s): Nuno Sepúlveda, Gillian Stresman, Michael T. White, Chris Drakeley
Software Mentions: 4
Published: almost 10 years ago

10.1186/gb-2014-15-1-r7

RIP-seq analysis of eukaryotic Sm proteins identifies three major categories of Sm-containing ribonucleoproteins
Cited by: 32
Author(s): Zhipeng Lu, Xiaojun Guan, Casey A. Schmidt, A. Gregory Matera
Software Mentions: 4
Published: almost 11 years ago

10.1038/srep32570

Use of the sun as a heading indicator when caching and recovering in a wild rodent
Cited by: 1
Author(s): Jamie Samson, Marta B. Manser
Software Mentions: 4
Published: over 8 years ago

10.3390/pathogens10020243

Non-Invasive Molecular Survey of Sarcoptic Mange in Wildlife: Diagnostic Performance in Wolf Faecal Samples Evaluated by Multi-Event Capture–Recapture Models
Cited by: 4
Author(s): J. Rousseau, Mónia Nakamura, Helena Rio-Maior, Francisco Álvares, Rémi Choquet, Luís Madeira de Carvalho, Raquel Godinho, Nuno Santos
Software Mentions: 4
Published: almost 4 years ago

10.1038/s41598-020-62578-8

Detecting qualitative changes in biological systems
Cited by: 5
Author(s): Cristina Mitrea, Aliccia Bollig‐Fischer, Călin Voichiţa, Michèle Donato, Roberto Romero, Sorin Drăghici
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0211827

A new approach to measure the resistance of fabric to liquid and viral penetration
Cited by: 6
Author(s): Min Li, Jennifer L. Furlong, Patrick L. Yorio, Lee Portnoff
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12916-020-01724-5

Antibody responses to a suite of novel serological markers for malaria surveillance demonstrate strong correlation with clinical and parasitological infection across seasons and transmission settings in The Gambia
Cited by: 20
Author(s): Lindsey Wu, Julia Mwesigwa, Muna Affara, Mamadou Bah, Simon Correa, Tom Hall, Susheel K. Singh, James G. Beeson, Kevin K. A. Tetteh, Immo Kleinschmidt, Umberto D’Alessandro, Chris Drakeley
Software Mentions: 4
Published: about 4 years ago

10.1002/ece3.7411

How to make use of unlabeled observations in species distribution modeling using point process models
Cited by: 2
Author(s): Emy Guilbault, Ian Renner, Michael Mahony, Eric J. Beh
Software Mentions: 4
Published: over 3 years ago

10.1093/jxb/erx032

Oscillatory signatures underlie growth regimes in Arabidopsis pollen tubes: computational methods to estimate tip location, periodicity, and synchronization in growing cells
Cited by: 43
Author(s): Daniel Santa Cruz Damineli, Maria Teresa Portes, José A. Feijó
Software Mentions: 4
Published: over 7 years ago

10.1242/jcs.215822

The adaptor proteins HAP1a and GRIP1 collaborate to activate kinesin-1 isoform KIF5C
Cited by: 36
Author(s): Alison E. Twelvetrees, Flavie Lesept, Erika L.F. Holzbaur, Josef T. Kittler
Software Mentions: 4
Published: almost 6 years ago

10.1098/rsob.160330

Comparative functional genomic screens of three yeast deletion collections reveal unexpected effects of genotype in response to diverse stress
Cited by: 10
Author(s): Erica Acton, Ahwon Lee, Pei Zhao, Stéphane Flibotte, Mauricio Neira, Sunita Sinha, Jennifer Chiang, Patrick Flaherty, Corey Nislow, Guri Giaever
Software Mentions: 3
Published: over 7 years ago

10.1186/s13195-020-00713-3

Four subgroups based on tau levels in Alzheimer’s disease observed in two independent cohorts
Cited by: 17
Author(s): Flora H. Duits, Kirsten E. J. Wesenhagen, Laura L. Ekblad, E.Ch. Wolters, Eline A.J. Willemse, Philip Scheltens, Wiesje M. van der Flier, Charlotte E. Teunissen, Pieter Jelle Visser, Betty M. Tijms
Software Mentions: 3
Published: almost 4 years ago

10.1002/ajpa.22280

The convergent evolution of blue iris pigmentation in primates took distinct molecular paths
Cited by: 14
Author(s): Wynn K. Meyer, Sidi Zhang, Shinya Hayakawa, Hiroo Imai, Molly Przeworski
Software Mentions: 3
Published: over 11 years ago

10.1186/1471-2148-13-206

Electrophoretic mobility confirms reassortment bias among geographic isolates of segmented RNA phages
Cited by: 19
Author(s): Samuel L. Díaz‐Muñoz, Olivier Tenaillon, Daniel H. Goldhill, Kristen Brao, Paul Turner, Lin Chao
Software Mentions: 3
Published: almost 12 years ago

10.1186/s12870-020-02461-w

Molecular footprints of selection effects and whole genome duplication (WGD) events in three blueberry species: detected by transcriptome dataset
Cited by: 14
Author(s): Yunsheng Wang, Fude Nie, Muhammad Qasim Shahid, Faheem Shehzad Baloch
Software Mentions: 3
Published: over 4 years ago

10.1002/yea.3246

Alternative<i>Saccharomyces</i>interspecies hybrid combinations and their potential for low-temperature wort fermentation
Cited by: 54
Author(s): Jarkko Nikulin, Kristoffer Krogerus, Brian Gibson
Software Mentions: 3
Published: over 7 years ago

10.1186/s13071-018-2686-y

Evaluation of a Chlamydia trachomatis-specific, commercial, real-time PCR for use with ocular swabs
Cited by: 10
Author(s): Harry Pickering, Martin J. Holland, Matthew J. Burton, Sarah E. Burr
Software Mentions: 3
Published: almost 7 years ago

10.7717/peerj.5773

Unimodal head-width distribution of the European eel (<i>Anguilla anguilla</i> L.) from the Zeeschelde does not support disruptive selection
Cited by: 4
Author(s): Pieterjan Verhelst, Jens De Meyer, Jan Reubens, Johan Coeck, Peter Goethals, Tom Moens, Ans Mouton
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0123009

Parasite Load Induces Progressive Spleen Architecture Breakage and Impairs Cytokine mRNA Expression in Leishmania infantum-Naturally Infected Dogs
Cited by: 50
Author(s): Amanda dos Santos Cavalcanti, Marcelo Ribeiro-Alves, Luiza de Oliveira Ramos Pereira, Gustavo Leandro da Cruz Mestre, Anna Beatriz Robottom Ferreira, Fernanda Nazaré Morgado, Mariana Côrtes Boité, Elisa Cupolillo, Milton Ozório Moraes, Renato Porrozzi
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0244308

Revisiting discrete versus continuous models of human behavior: The case of absolute pitch
Cited by: 4
Author(s): Stephen C. Van Hedger, John P. Veillette, Shannon L. M. Heald, Howard C. Nusbaum
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pone.0231724

Novel insights into serodiagnosis and epidemiology of Erysipelothrix rhusiopathiae, a newly recognized pathogen in muskoxen (Ovibos moschatus)
Cited by: 14
Author(s): Fabien Mavrot, Karin Orsel, Wendy Hutchins, Layne G. Adams, Kimberlee B. Beckmen, John E. Blake, Sylvia Checkley, Tracy Davison, Juliette Di Francesco, Brett Elkin, Lisa‐Marie Leclerc, Angela Schneider, Matilde Tomaselli, Susan Kutz
Software Mentions: 3
Published: over 4 years ago

10.1002/ece3.3281

Analyzing time‐ordered event data with missed observations
Cited by: 4
Author(s): Adriaan M. Dokter, E. Emiel van Loon, Wimke Fokkema, Thomas K. Lameris, Bart A. Nolet, Henk P. van der Jeugd
Software Mentions: 3
Published: over 7 years ago

10.3390/e21090906

A Hierarchical Gamma Mixture Model-Based Method for Classification of High-Dimensional Data
Cited by: 1
Author(s): Muhammad Azhar, Mark Junjie Li, Joshua Zhexue Huang
Software Mentions: 3
Published: over 5 years ago

10.3389/fpsyg.2015.02035

Talker-Specific Generalization of Pragmatic Inferences based on Under- and Over-Informative Prenominal Adjective Use
Cited by: 71
Author(s): Amanda Pogue, Chigusa Kurumada, Michael K. Tanenhaus
Software Mentions: 3
Published: almost 9 years ago

10.3390/insects11110742

Not All Slugs Are the Same: Variation in Growth and Development of the Slug Deroceras reticulatum
Cited by: 1
Author(s): Mark Shirley, Sally Howlett, Gordon Port
Software Mentions: 3
Published: about 4 years ago

10.1098/rsos.150039

Temporal modelling of ballast water discharge and ship-mediated invasion risk to Australia
Cited by: 19
Author(s): Robert C. Cope, Thomas A. A. Prowse, Joshua V. Ross, Talia A. Wittmann, Phillip Cassey
Software Mentions: 3
Published: over 9 years ago

10.1098/rsos.191161

Identifying fishing grounds from vessel tracks: model-based inference for small scale fisheries
Cited by: 14
Author(s): Tania Mendo, Sophie Smout, Theoni Photopoulou, Mark James
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-017-12021-2

Differential regulation of vaginal lipocalins (OBP, MUP) during the estrous cycle of the house mouse
Cited by: 25
Author(s): Martina Černá, Barbora Kuntová, Pavel Talacko, Romana Stopková, Pavel Stopka
Software Mentions: 3
Published: over 7 years ago

10.7554/eLife.14625

Spontaneous mutations and the origin and maintenance of quantitative genetic variation
Cited by: 57
Author(s): Wen Huang, Richard F. Lyman, Rachel A Lyman, Mary Anna Carbone, Susan T Harbison, Michael M. Magwire, Trudy F. C. Mackay
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0175103

Audio-visual interactions uniquely contribute to resolution of visual conflict in people possessing absolute pitch
Cited by: 4
Author(s): Sujin Kim, Randolph Blake, Minyoung Lee, Chai-Youn Kim
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2019.00591

Defining the Transcriptional and Post-transcriptional Landscapes of Mycobacterium smegmatis in Aerobic Growth and Hypoxia
Cited by: 53
Author(s): María Carla Martini, Ying Zhou, Huaming Sun, Scarlet S. Shell
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0044670

Handed Foraging Behavior in Scale-Eating Cichlid Fish: Its Potential Role in Shaping Morphological Asymmetry
Cited by: 24
Author(s): Hyuk Je Lee, Henrik Kusche, Axel Meyer
Software Mentions: 2
Published: over 12 years ago

10.7554/eLife.55667

Live-cell single particle imaging reveals the role of RNA polymerase II in histone H2A.Z eviction
Cited by: 46
Author(s): Anand Ranjan, Vu Q. Nguyen, Sheng Liu, Jan Wiśniewski, Jee Min Kim, Xiaona Tang, Gaku Mizuguchi, Ejlal Elalaoui, Timothy J Nickels, Vivian Jou, Brian P. English, Qinsi Zheng, Ed Luk, Luke D. Lavis, Timothée Lionnet, Carl Wu
Software Mentions: 2
Published: over 4 years ago

10.3389/fpsyg.2021.628660

Identifying Mixture Components From Large-Scale Keystroke Log Data
Cited by: 0
Author(s): Tingxuan Li
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0130746

Mapping Fishing Effort through AIS Data
Cited by: 159
Author(s): Franca Natale, Maurizio Gibin, Alfredo Alessandrini, Michele Vespe, Anton Paulrud
Software Mentions: 2
Published: over 9 years ago

10.1186/s13059-016-0880-9

Evolutionary analysis across mammals reveals distinct classes of long non-coding RNAs
Cited by: 126
Author(s): Jenny Chen, A.A. Shishkin, Xiaopeng Zhu, Sabah Kadri, Itay Maza, Mitchell Guttman, Jacob Hanna, Aviv Regev, Manuel Garber
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pmed.1001823

Defining the In Vivo Phenotype of Artemisinin-Resistant Falciparum Malaria: A Modelling Approach
Cited by: 35
Author(s): Lisa J. White, Jennifer A. Flegg, Aung Pyae Phyo, Ja Hser Wiladpai-ngern, Delia Bethell, Christopher V. Plowe, Tim Anderson, Standwell C. Nkhoma, Shalini Nair, Rupam Tripura, Kasia Stepniewska, Wirichada Pan-ngum, Kamolrat Silamut, Ben S. Cooper, Yoel Lubell, Elizabeth A. Ashley, Chea Nguon, François Nosten, Nicholas J. White, Arjen M. Dondorp
Software Mentions: 2
Published: over 9 years ago

10.1186/s40478-021-01119-4

Neuroligin-1 in brain and CSF of neurodegenerative disorders: investigation for synaptic biomarkers
Cited by: 15
Author(s): Elena Camporesi, Tammaryn Lashley, Johan Gobom, Juan Lantero-Rodríguez, Oskar Hansson, Henrik Zetterberg, Kaj Blennow, Bruno Becker
Software Mentions: 2
Published: almost 4 years ago

10.1177/0748730419850917

Comparing Methods for Measurement Error Detection in Serial 24-h Hormonal Data
Cited by: 7
Author(s): Evie van der Spoel, Jung-Yeon Choi, Ferdinand Roelfsema, Saskia le Cessie, Diana van Heemst, Olaf M. Dekkers
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pgen.1007221

Conditional genetic screen in Physcomitrella patens reveals a novel microtubule depolymerizing-end-tracking protein
Cited by: 16
Author(s): Xinxin Ding, Leah Marie Pervere, Carl Bascom, Jeffrey P. Bibeau, Sakshi Khurana, Allison M. Butt, Robert G. Orr, Patrick Flaherty, Magdalena Bezanilla, Luis Vidali
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pgen.1003437

Extensive Natural Epigenetic Variation at a De Novo Originated Gene
Cited by: 91
Author(s): Amanda Bortolini Silveira, Charlotte Trontin, Sandra Cortijo, Joan Barau, Luiz-Eduardo Del-Bem, Olivier Loudet, Vincent Colot, Michel Vincentz
Software Mentions: 2
Published: over 11 years ago

10.1186/s13195-020-00585-7

Quantification of total apolipoprotein E and its isoforms in cerebrospinal fluid from patients with neurodegenerative diseases
Cited by: 27
Author(s): Karolina Minta, Gunnar Brinkmalm, Randall J. Bateman, Simon Sjödin, Erik Portelius, Erik Stomrud, Henrik Zetterberg, Kaj Blennow, Oskar Hansson, Ulf Andréasson
Software Mentions: 2
Published: almost 5 years ago

10.7554/eLife.35856

Trajectories of childhood immune development and respiratory health relevant to asthma and allergy
Cited by: 20
Author(s): Howard H.F. Tang, Shu Mei Teo, Danielle Belgrave, Michael D. Evans, Daniel J. Jackson, Marta Brożyńska, Merci Kusel, Sebastian L. Johnston, James E. Gern, Robert F. Lemanske, Angela Simpson, Adnan Čustović, Peter D. Sly, Patrick G. Holt, Kathryn E. Holt, Michael Inouye
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pcbi.1005911

Integration of pan-cancer transcriptomics with RPPA proteomics reveals mechanisms of epithelial-mesenchymal transition
Cited by: 31
Author(s): Simon Koplev, Katie Lin, Anders B. Dohlman, Avi Ma’ayan
Software Mentions: 2
Published: almost 7 years ago

10.12688/wellcomeopenres.10646.1

Revisiting olfactory receptors as putative drivers of cancer
Cited by: 43
Author(s): Marco Ranzani, Iyer, Ximena Ibarra-Soria, Martín Del Castillo Velasco-Herrera, Mathew J. Garnett, Darren W. Logan, David J. Adams
Software Mentions: 2
Published: almost 8 years ago

10.1007/s12035-018-1298-z

Targeting Neuroplasticity, Cardiovascular, and Cognitive-Associated Genomic Variants in Familial Alzheimer’s Disease
Cited by: 7
Author(s): Jorge Íván Bonilla Vélez, Francisco Lopera, Penelope K. Creagh, Laura Piñeros, Debjani Das, Martha L Cervantes-Henríquez, Johan E. Acosta-López, Mario A. Isaza-Ruget, Lady G. Espinosa, Simon Easteal, Gustavo A. Quintero, Claudia Tamar Silva, Claudio A. Mastronardi, Mauricio Arcos‐Burgos
Software Mentions: 2
Published: over 6 years ago

10.1186/s13195-021-00851-2

Arterial stiffening acts synergistically with APOE genotype and AD biomarker status to influence memory in older adults without dementia
Cited by: 5
Author(s): Katherine J. Bangen, Denis S. Smirnov, Lisa Delano‐Wood, Christina E. Wierenga, Mark W. Bondi, David P. Salmon, Douglas Galasko
Software Mentions: 2
Published: over 3 years ago

10.1016/j.canep.2020.101802

The world cancer patient population (WCPP): An updated standard for international comparisons of population-based survival
Cited by: 28
Author(s): Adalberto Miranda‐Filho, Freddie Bray, Hadrien Charvat, Rajaraman Swaminathan, Isabelle Soerjomataram
Software Mentions: 2
Published: about 4 years ago

10.1038/s41598-019-56067-w

Distinct metabolic profiles in Drosophila sperm and somatic tissues revealed by two-photon NAD(P)H and FAD autofluorescence lifetime imaging
Cited by: 13
Author(s): Cornelia Wetzker, Klaus Reinhardt
Software Mentions: 2
Published: about 5 years ago

10.1098/rsbl.2014.0977

Stay or stray? Evidence for alternative mating strategy phenotypes in both men and women
Cited by: 20
Author(s): Rafael Wlodarski, John T. Manning, Robin Dunbar
Software Mentions: 2
Published: almost 10 years ago

10.1038/s41598-020-72199-w

Short-term behavioural impact contrasts with long-term fitness consequences of biologging in a long-lived seabird
Cited by: 20
Author(s): Natasha Gillies, Annette L. Fayet, Oliver Padget, Martyna Syposz, Joe Wynn, Sarah Bond, James Evry, Holly Kirk, Akiko Shoji, Ben Dean, Robin Freeman, Tim Guilford
Software Mentions: 2
Published: over 4 years ago

10.1186/s12919-018-0141-x

Detection and analysis of CpG sites with multimodal DNA methylation level distributions and their relationships with SNPs
Cited by: 3
Author(s): Ke Hu, Jing Li
Software Mentions: 2
Published: over 6 years ago

10.1186/s12874-020-01188-4

Quantifying the under-reporting of uncorrelated longitudal data: the genital warts example
Cited by: 5
Author(s): David Moriña, Amanda Fernández‐Fontelo, Alejandra Cabaña, Pedro Puig, Laura Monfil, María Brotons, Mireia Díaz
Software Mentions: 2
Published: almost 4 years ago

10.1007/s00439-015-1615-9

A multi-parametric workflow for the prioritization of mitochondrial DNA variants of clinical interest
Cited by: 33
Author(s): Mariangela Santorsola, Claudia Calabrese, Giulia Girolimetti, Maria Angela Diroma, Giuseppe Gasparre, Marcella Attimonelli
Software Mentions: 2
Published: about 9 years ago

10.1084/jem.20201601

VISTA is an activating receptor in human monocytes
Cited by: 14
Author(s): Bryan M Rogers, Leonard S. Smith, Zoltán Dezsö, Xu Shi, Enrico L. DiGiammarino, Denny Nguyen, Sunantha Sethuraman, Pingping Zheng, Donghee Choi, Dong Zhang, Andrew Nguyen, Kathleen L. McGuire, Wei Liu, Namjin Chung, Debra T. Chao, Shiming Ye, Gabriel R. Starbeck-Miller
Software Mentions: 2
Published: over 3 years ago

10.1186/1471-2164-11-483

DNA methylation patterns provide insight into epigenetic regulation in the Pacific oyster (Crassostrea gigas)
Cited by: 143
Author(s): Mackenzie R. Gavery, Steven B. Roberts
Software Mentions: 2
Published: almost 15 years ago

10.3389/fcvm.2016.00033

An Algorithm Measuring Donor Cell-Free DNA in Plasma of Cellular and Solid Organ Transplant Recipients That Does Not Require Donor or Recipient Genotyping
Cited by: 25
Author(s): Paul M. Gordon, Aneal Khan, Umair Sajid, Nicholas Chang, Varun Suresh, Leo S. Dimnik, Ryan E. Lamont, Jillian S. Parboosingh, Steven R. Martin, Richard T. Pon, Shelly Wegener, Debra Isaac, Steven C. Greenway
Software Mentions: 2
Published: about 8 years ago

10.1093/conphys/cov069

Links between parasitism, energy reserves and fecundity of European anchovy,<i>Engraulis encrasicolus</i>, in the northwestern Mediterranean Sea
Cited by: 20
Author(s): Dolors Ferrer-Maza, Josep Lloret, Marta Muñoz, Elisabeth Faliex, Sílvia Vilà, Pierre Sasal
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0165282

Analysis of TaqMan Array Cards Data by an Assumption-Free Improvement of the maxRatio Algorithm Is More Accurate than the Cycle-Threshold Method
Cited by: 7
Author(s): Luigi Marongiu, Eric B. Shain, Lydia N Drumright, Reidun Lillestøl, Donald Somasunderam, Martin D. Curran
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0254374

Network-based repurposing identifies anti-alarmins as drug candidates to control severe lung inflammation in COVID-19
Cited by: 12
Author(s): Emiko Desvaux, Antoine Hamon, Sandra Hubert, Cheïma Boudjeniba, Bastien Chassagnol, Jack Swindle, Audrey Aussy, Laurence Laigle, Jessica Laplume, Perrine Soret, Pierre Jean-François, Isabelle Dupin-Roger, Mickaël Guedj, Philippe Moingeon
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0204329

Successful recruitment, survival and long-term persistence of eastern oyster and hooked mussel on a subtidal, artificial restoration reef system in Chesapeake Bay
Cited by: 22
Author(s): Romuald N. Lipcius, Russell P. Burke
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0184494

High HPgV replication is associated with improved surrogate markers of HIV progression
Cited by: 14
Author(s): Gibran Horemheb-Rubio, Pilar Ramos-Cervantes, Hugo Arroyo-Figueroa, Santiago Ávila‐Ríos, Claudia García‐Morales, Gustavo Reyes‐Terán, Galileo Escobedo, Gloria Inés Estrada, Trinidad García-Iglesias, Nayeli Muñoz-Saucedo, David Kershenobich, Patricia Ostrosky‐Wegman, Guillermo M. Ruíz-Palacios
Software Mentions: 2
Published: over 7 years ago