10.1128/mSystems.01306-20

Cultivating the Bacterial Microbiota of <i>Populus</i> Roots
Cited by: 12
Author(s): Dana L. Carper, David J. Weston, Aditya Barde, Collin M. Timm, Tse-Yuan S. Lu, Leah H. Burdick, Sara Jawdy, Dawn M. Klingeman, Michael S. Robeson, Allison M. Veach, Melissa Cregger, Udaya C. Kalluri, Christopher W. Schadt, Mircea Podar, Mitchel J. Doktycz, Dale A. Pelletier
Software Mentions: 5
Published: about 5 years ago

10.7554/eLife.51373

PHF19 mediated regulation of proliferation and invasiveness in prostate cancer cells
Cited by: 18
Author(s): Payal Jain, Cecilia Ballaré, Enrique Blanco, Pedro Vizán, Luciano Di Croce
Software Mentions: 5
Published: over 6 years ago

10.3389/fmicb.2018.01451

Association Between Gut Microbiota and CD4 Recovery in HIV-1 Infected Patients
Cited by: 86
Author(s): Wei Lü, Yuqing Feng, Fanhui Jing, Yang Han, Na Lyu, Fei Liu, Jing Li, Xiaojing Song, Jing Xie, Zhifeng Qiu, Ting Zhu, Bertrand Routy, Jean‐Pierre Routy, Taisheng Li, Baoli Zhu
Software Mentions: 5
Published: about 8 years ago

10.3389/fmicb.2020.00098

Bdellovibrio and Like Organisms in Lake Geneva: An Unseen Elephant in the Room?
Cited by: 18
Author(s): Jade Ezzedine, Louis Jacas, Yves Desdevises, Stéphan Jacquet
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pcbi.1008473

A joint modeling approach for longitudinal microbiome data improves ability to detect microbiome associations with disease
Cited by: 7
Author(s): Pamela N. Luna, Jonathan M. Mansbach, Chad A. Shaw
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0004481

Age and Diet Affect Gene Expression Profile in Canine Skeletal Muscle
Cited by: 17
Author(s): Ingmar S. Middelbos, Brittany M. Vester, Lisa K. Karr-Lilienthal, Lawrence B. Schook, Kelly S. Swanson
Software Mentions: 5
Published: over 17 years ago

10.1186/1759-8753-5-13

“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files
Cited by: 129
Author(s): Marc Bailly‐Bechet, Annabelle Haudry, Emmanuelle Lerat
Software Mentions: 5
Published: about 12 years ago

10.1038/s41598-020-66759-3

The seed water content as a time-independent physiological trait during germination in wild tree species such as Ceiba aesculifolia
Cited by: 6
Author(s): Ximena Gómez‐Maqueo, Diana Soriano, Noé Velázquez-Rosas, Sandra Alvarado-López, Karina Jiménez‐Durán, María Del Mar Garciadiego, Alicia Gamboa‐deBuen
Software Mentions: 5
Published: about 6 years ago

10.7554/eLife.51796

A MAC2-positive progenitor-like microglial population is resistant to CSF1R inhibition in adult mouse brain
Cited by: 44
Author(s): Lihong Zhan, Li Fan, Lay Kodama, Peter Sohn, Man Ying Wong, Gergey Alzaem Mousa, Yungui Zhou, Yaqiao Li, Li Gan
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-018-36840-z

Identification of candidate neoantigens produced by fusion transcripts in human osteosarcomas
Cited by: 28
Author(s): Susan K. Rathe, Flavia E. Popescu, James E. Johnson, Adrienne L. Watson, Tracy A. Marko, Branden S. Moriarity, John R. Ohlfest, David A. Largaespada
Software Mentions: 5
Published: over 7 years ago

10.3390/ijerph18168889

Sleep Quality in Patients Undergoing Transcatheter Aortic Valve Implantation (TAVI)
Cited by: 1
Author(s): Giulia Lorenzoni, Danila Azzolina, Chiara Fraccaro, Caterina Zoccarato, Clara Minto, Sabino Iliceto, Darío Gregori, Giuseppe Tarantini
Software Mentions: 5
Published: almost 5 years ago

10.3390/jpm7020003

Accuracy in Wrist-Worn, Sensor-Based Measurements of Heart Rate and Energy Expenditure in a Diverse Cohort
Cited by: 402
Author(s): Anna Shcherbina, C. Mikael Mattsson, Daryl Waggott, Heidi Salisbury, Jeffrey W. Christle, Trevor Hastie, Matthew T. Wheeler, Euan A. Ashley
Software Mentions: 5
Published: about 9 years ago

10.1038/srep24362

Perceptual drifts of real and artificial limbs in the rubber hand illusion
Cited by: 43
Author(s): Xaver Fuchs, Martin Riemer, Martin Diers, Herta Flor, Jörg Trojan
Software Mentions: 5
Published: about 10 years ago

10.3389/fgene.2021.721252

Antioxidant Gene Signature Impacts the Immune Infiltration and Predicts the Prognosis of Kidney Renal Clear Cell Carcinoma
Cited by: 11
Author(s): Xueting Ren, Li Ma, Nan Wang, Ruina Zhou, Jianhua Wu, Xin Xie, Hao Zhang, Di Liu, Xiuli Ma, Chengxue Dang, Huafeng Kang, Zhangjian Zhou
Software Mentions: 5
Published: almost 5 years ago

10.1093/aobpla/plz017

Recent range expansion in Australian hummock grasses (Triodia) inferred using genotyping-by-sequencing
Cited by: 12
Author(s): Benjamin M. Anderson, Kevin R. Thiele, Pauline F. Grierson, Siegfried L. Krauss, Paul Nevill, Ian Small, Xue Zhong, Matthew D. Barrett
Software Mentions: 5
Published: over 7 years ago

10.3389/fninf.2013.00013

White matter fiber tracking directed by interpolating splines and a methodological framework for evaluation
Cited by: 4
Author(s): Are Losnegård, Arvid Lundervold, Erlend Hodneland
Software Mentions: 5
Published: over 13 years ago

10.1002/ece3.2146

Quantifying the effects of drought on abrupt growth decreases of major tree species in Switzerland
Cited by: 38
Author(s): Marco Vanoni, Harald Bugmann, Magdalena Nötzli, Christof Bigler
Software Mentions: 5
Published: about 10 years ago

10.1371/journal.pone.0247669

Immune gene expression networks in sepsis: A network biology approach
Cited by: 13
Author(s): Kyung Soo Kim, Dong Wook Jekarl, Jaeeun Yoo, Seungok Lee, Myungshin Kim, Yonggoo Kim
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.718

Intragenomic polymorphisms among high-copy loci: a genus-wide study of nuclear ribosomal DNA in<i>Asclepias</i>(Apocynaceae)
Cited by: 39
Author(s): Kevin Weitemier, Shannon C. K. Straub, Mark Fishbein, Aaron Liston
Software Mentions: 5
Published: over 11 years ago

10.3390/genes12071058

Exposure to Fine Particulate Matter Air Pollution Alters mRNA and miRNA Expression in Bone Marrow-Derived Endothelial Progenitor Cells from Mice
Cited by: 4
Author(s): Xiaohong Li, Petra Haberzettl, Daniel J. Conklin, Aruni Bhatnagar, Eric C. Rouchka, Mei Zhang, Timothy E. O’Toole
Software Mentions: 5
Published: about 5 years ago

10.1007/s00122-020-03712-y

The Aegilops ventricosa 2NvS segment in bread wheat: cytology, genomics and breeding
Cited by: 38
Author(s): Liangliang Gao, Dal Hoe Koo, Philomin Juliana, Trevor W. Rife, Daljit Singh, Cristiano Lemes da Silva, Thomas Lux, Kevin M. Dorn, Marshall Clinesmith, Paula Silva, Xu Wang, Manuel Spannagl, Cécile Monat, Bernd Friebe, Burkhard Steuernagel, Gary J. Muehlbauer, Sean Walkowiak, Curtis Pozniak, Ravi P. Singh, Nils Stein, Martin Mascher, Allan K. Fritz, Jesse Poland
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-020-70131-w

Transcriptomic profile of adverse neurodevelopmental outcomes after neonatal encephalopathy
Cited by: 6
Author(s): Paolo Montaldo, Aubrey J. Cunnington, Vânia Oliveira, Ravi Swamy, Prathik Bandya, Stuti Pant, Peter J Lally, Phoebe Ivain, Josephine Mendoza, Gaurav Atreja, Padmesh Vadakepat, Mythili Baburaj, Monica Sebastian, Indiramma Yasashwi, Chinnathambi Kamalarathnam, Rema Chandramohan, Mangalabharathi Sundaram, Kumutha Kumaraswami, Shobha Kumar, Naveen Benakappa, Swati Manerkar, Jayashree Mondhkar, Vinayagam Prakash, Mohammed Sajjid, Arasar Seeralar, Ismat Jahan, Sadeka Choudhury Moni, Mohammod Shahidullah, Radhika Sujatha, M Chandrasekaran, Siddarth Ramji, Seetha Shankaran, Myrsini Kaforou, Jethro Herberg, Sudhin Thayyil
Software Mentions: 5
Published: almost 6 years ago

10.1098/rspb.2021.0225

Loss of vocal culture and fitness costs in a critically endangered songbird
Cited by: 23
Author(s): Ross Crates, Naomi E. Langmore, Louis Ranjard, Dejan Stojanović, Laura Rayner, Dean Ingwersen, Robert Heinsohn
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-018-0555-8

The gut of the finch: uniqueness of the gut microbiome of the Galápagos vampire finch
Cited by: 54
Author(s): Alice Michel, Lewis M. Ward, Shana K. Goffredi, Katherine S. Dawson, Daniel T. Baldassarre, Alec Brenner, Kiyoko M. Gotanda, John E. McCormack, Sean W. Mullin, Ariel O’Neill, Gabrielle S. Tender, J. Albert C. Uy, Kristie Yu, Victoria J. Orphan, Jaime A. Chaves
Software Mentions: 5
Published: almost 8 years ago

10.3390/ijms21010145

Gene Copy Number and Post-Transductional Mechanisms Regulate TRAP1 Expression in Human Colorectal Carcinomas
Cited by: 3
Author(s): Michele Pietrafesa, Francesca Maddalena, Luciana Possidente, Valentina Condelli, Pietro Zoppoli, Valeria Li Bergolis, Maria Grazia Rodriquenz, Michele Aieta, Giulia Vita, Franca Esposito, Matteo Landriscina
Software Mentions: 5
Published: over 6 years ago

10.3389/fonc.2021.700062

Identification of a Hypoxia-Related Molecular Classification and Hypoxic Tumor Microenvironment Signature for Predicting the Prognosis of Patients with Triple-Negative Breast Cancer
Cited by: 16
Author(s): Xiaoli Sun, Huan Luo, Chen Han, Yu Zhang, Cunli Yan
Software Mentions: 5
Published: almost 5 years ago

10.1002/brb3.1788

There is No test–retest reliability of brain activation induced by robotic passive hand movement: A functional NIRS study
Cited by: 3
Author(s): Sung-Jin Bae, Yonghee Lee, Pyung Hun Chang
Software Mentions: 5
Published: almost 6 years ago

10.3389/fgene.2019.00371

High-Order Correlation Integration for Single-Cell or Bulk RNA-seq Data Analysis
Cited by: 9
Author(s): Hui Tang, Tao Zeng, Luonan Chen
Software Mentions: 5
Published: about 7 years ago

10.3390/nu13041217

Quality and Quantity of Protein Intake Influence Incidence of Type 2 Diabetes Mellitus in Coronary Heart Disease Patients: From the CORDIOPREV Study
Cited by: 7
Author(s): Silvia de la Cruz‐Ares, Francisco M. Gutiérrez-Mariscal, Juan F. Alcalá‐Díaz, Gracia M. Quintana-Navarro, Alicia Podadera-Herreros, Magdalena P. Cardelo, José D. Torres-Peña, Antonio P. Arenas de Larriva, Pablo Pérez-Martı́nez, Javier Delgado-Lista, Elena M. Yubero‐Serrano, José López‐Miranda
Software Mentions: 5
Published: over 5 years ago

10.3389/fpls.2019.00963

Identification of a Dominant Chlorosis Phenotype Through a Forward Screen of the Triticum turgidum cv. Kronos TILLING Population
Cited by: 17
Author(s): Sophie A Harrington, Nicolás Cobo, Miroslava Karafiátová, Jaroslav Doležel, Philippa Borrill, Cristóbal Uauy
Software Mentions: 5
Published: almost 7 years ago

10.3389/fcvm.2021.694238

AKR1C3 and Its Transcription Factor HOXB4 Are Promising Diagnostic Biomarkers for Acute Myocardial Infarction
Cited by: 7
Author(s): Jingjing Liang, Yue Cao, Minqiang He, Weiwen Li, Guan‐Jiang Huang, Tianyi Ma, Meijun Li, Yuli Huang, Xiaohui Huang, Yunzhao Hu
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0111819

Expression Analysis of All Protease Genes Reveals Cathepsin K to Be Overexpressed in Glioblastoma
Cited by: 39
Author(s): Urška Verbovšek, Helena Motaln, Ana Rotter, Nadia A. Atai, Kristina Gruden, C. J. F. Van Noorden, Tamara T. Lah
Software Mentions: 5
Published: over 11 years ago

10.3389/fmicb.2020.00749

Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact
Cited by: 16
Author(s): Jean de Dieu Habiyaremye, Kezia Goldmann, Thomas Reitz, Sylvie Herrmann, François Buscot
Software Mentions: 5
Published: about 6 years ago

10.1093/molbev/msz099

Return to the Sea, Get Huge, Beat Cancer: An Analysis of Cetacean Genomes Including an Assembly for the Humpback Whale (Megaptera novaeangliae)
Cited by: 72
Author(s): Marc Tollis, Jooke Robbins, Andrew E. Webb, Lukas F. K. Kuderna, Aleah F. Caulin, Jacinda D Garcia, Martine Bérubé, Nader Pourmand, Tomàs Marquès-Bonet, Mary J. O’Connell, Per Palsbøll, Carlo C. Maley
Software Mentions: 5
Published: about 7 years ago

10.3389/fgene.2014.00152

Bioinformatics for precision medicine in oncology: principles and application to the SHIVA clinical trial
Cited by: 73
Author(s): Nicolas Servant, Julien Roméjon, Pierre Gestraud, Philippe La Rosa, Georges Lucotte, Séverine Lair, Virginie Bernard, Bruno Zeitouni, Fanny Coffin, Gérôme Jules-Clément, Florent Yvon, Alban Lermine, Patrick Poullet, Stéphane Liva, Stuart Pook, Tatiana Popova, Camille Barette, François D. Prud’homme, Jean Gabriel Dick, Maud Kamal, Christophe Le Tourneau, Emmanuel Barillot, Philippe Hupé
Software Mentions: 5
Published: about 12 years ago

10.3389/fmicb.2016.02012

16S Based Microbiome Analysis from Healthy Subjects’ Skin Swabs Stored for Different Storage Periods Reveal Phylum to Genus Level Changes
Cited by: 45
Author(s): Ingeborg Klymiuk, Isabella Bambach, V. Patra, Slave Trajanoski, Peter Wolf
Software Mentions: 5
Published: over 9 years ago

10.1371/journal.pcbi.1004847

Assessing Concordance of Drug-Induced Transcriptional Response in Rodent Liver and Cultured Hepatocytes
Cited by: 40
Author(s): Jeffrey J. Sutherland, Robert A. Jolly, Keith M. Goldstein, James Stevens
Software Mentions: 5
Published: over 10 years ago

10.1074/mcp.TIR118.001251

MOGSA: Integrative Single Sample Gene-set Analysis of Multiple Omics Data
Cited by: 49
Author(s): Chen Meng, Azfar Basunia, Bjoern Peters, Amin Moghaddas Gholami, Bernhard Küster, Aedín C. Culhane
Software Mentions: 5
Published: almost 7 years ago

10.3390/ani11092606

Jejunal Transcriptomic Profiling for Differences in Feed Conversion Ratio in Slow-Growing Chickens
Cited by: 2
Author(s): Panpradub Sinpru, Cindy Riou, Shin Kubota, Chotima Poompramun, Wittawat Molee, Amonrat Molee
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pone.0226179

Analysis of genome-wide DNA arrays reveals the genomic population structure and diversity in autochthonous Greek goat breeds
Cited by: 13
Author(s): Sofia Michailidou, George Th. Tsangaris, Athina Tzora, Ioannis Skoufos, Georgios Banos, Anagnostis Argiriou, G. Arsenos
Software Mentions: 5
Published: over 6 years ago

10.26508/lsa.202000709

Myeloid transformation by <i>MLL</i>-<i>ENL</i> depends strictly on C/EBP
Cited by: 4
Author(s): Radosław Wesołowski, Elisabeth Kowenz‐Leutz, Karin Zimmermann, Dorothea Dörr, Maria Hofstätter, Robert K. Slany, Alexander Mildner, Achim Leutz
Software Mentions: 5
Published: over 5 years ago

10.3389/fmolb.2021.609865

Development and Validation of a Prognostic Gene Signature in Clear Cell Renal Cell Carcinoma
Cited by: 7
Author(s): Chuanchuan Zhan, Zichu Wang, Chao Xu, Xiao Huang, Junzhou Su, Bisheng Chen, Mingshan Wang, Zhihong Qi, Péter Bai
Software Mentions: 5
Published: over 5 years ago

10.1186/s13148-019-0608-2

Whole-genome methylation profiling of the retinal pigment epithelium of individuals with age-related macular degeneration reveals differential methylation of the SKI, GTF2H4, and TNXB genes
Cited by: 34
Author(s): Louise F. Porter, Neil Saptarshi, Yongxiang Fang, Sonika Rathi, Anneke I. den Hollander, Eiko K. de Jong, Simon J. Clark, Paul Bishop, Timothy W. Olsen, Triantafillos Liloglou, Venkata R M Chavali, Luminita Paraoan
Software Mentions: 5
Published: over 7 years ago

10.1038/s41597-020-0527-2

Transcriptome data of temporal and cingulate cortex in the Rett syndrome brain
Cited by: 6
Author(s): Kimberly A. Aldinger, Andrew E. Timms, James W. MacDonald, Hanna K. McNamara, Jennifer Herstein, Theo K. Bammler, Oleg V. Evgrafov, James A. Knowles, Pat Levitt
Software Mentions: 5
Published: about 6 years ago

10.3390/ijms21051894

The Polymorphic PolyQ Tail Protein of the Mediator Complex, Med15, Regulates the Variable Response to Diverse Stresses
Cited by: 7
Author(s): Gallagher Jeg, Ser Sl, Michael C. Ayers, C Nassif, Amaury Pupo
Software Mentions: 5
Published: over 6 years ago

10.7554/eLife.61257

Evolutionary transcriptomics implicates HAND2 in the origins of implantation and regulation of gestation length
Cited by: 30
Author(s): Mirna Marinić, Katelyn Mika, Sravanthi Chigurupati, Vincent J. Lynch
Software Mentions: 5
Published: over 5 years ago

10.1007/s00180-016-0690-2

On the impact of model selection on predictor identification and parameter inference
Cited by: 6
Author(s): Ruth M. Pfeiffer, Andrew Redd, Raymond J. Carroll
Software Mentions: 5
Published: over 9 years ago

10.1098/rsos.191459

Predicting maths anxiety from mathematical achievement across the transition from primary to secondary education
Cited by: 16
Author(s): Andy P. Field, Danielle Evans, Tomasz Bloniewski, Yulia Kovas
Software Mentions: 5
Published: over 6 years ago

10.1093/gbe/evx269

A Genome Resequencing-Based Genetic Map Reveals the Recombination Landscape of an Outbred Parasitic Nematode in the Presence of Polyploidy and Polyandry
Cited by: 53
Author(s): Stephen R. Doyle, Roz Laing, David J. Bartley, Collette Britton, Umer Chaudhry, John S. Gilleard, Nancy Holroyd, Barbara K. Mable, Kirsty Maitland, Alison A. Morrison, Andy Tait, Alan S. Tracey, Matthew Berriman, Eileen Devaney, James A. Cotton, Neil Sargison
Software Mentions: 5
Published: over 8 years ago

10.1038/s41598-019-46718-3

Pan-Renal Cell Carcinoma classification and survival prediction from histopathology images using deep learning
Cited by: 124
Author(s): Sairam Tabibu, P. K. Vinod, C. V. Jawahar
Software Mentions: 5
Published: almost 7 years ago

10.3390/s120608145

Accuracy and Precision of Equine Gait Event Detection during Walking with Limb and Trunk Mounted Inertial Sensors
Cited by: 49
Author(s): E. G. J. Olsen, Pia Haubro Andersen, Thilo Pfau
Software Mentions: 5
Published: about 14 years ago

10.3389/fmicb.2017.02667

Low Light Availability Alters Root Exudation and Reduces Putative Beneficial Microorganisms in Seagrass Roots
Cited by: 55
Author(s): Belinda C. Martin, Deirdre Gleeson, John Statton, Andre R. Siebers, Pauline F. Grierson, Megan H. Ryan, Gary A. Kendrick
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pbio.3000877

High-throughput mapping of the phage resistance landscape in E. coli
Cited by: 82
Author(s): Vivek K. Mutalik, Benjamin A. Adler, Harneet S. Rishi, Denish Piya, Crystal Zhong, Britt Koskella, Elizabeth Kutter, Richard Calendar, Pavel S. Novichkov, Morgan N. Price, Adam M. Deutschbauer, Adam P. Arkin
Software Mentions: 5
Published: over 5 years ago

10.1186/s13059-021-02302-5

ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics
Cited by: 31
Author(s): Helena García-Castro, Nathan J. Kenny, Marta Iglesias, Patricia Álvarez‐Campos, Vincent Mason, Anamaria Elek, Anna Schönauer, Victoria A. Sleight, Jakke Neiro, A. Aziz Aboobaker, Jon Permanyer, Manuel Irimia, Arnau Sebé-Pedrós, Jordi Solana
Software Mentions: 5
Published: over 5 years ago

10.7554/eLife.61968

Metage2Metabo, microbiota-scale metabolic complementarity for the identification of key species
Cited by: 36
Author(s): Arnaud Belcour, Clémence Frioux, Méziane Aïte, Anthony Bretaudeau, Falk Hildebrand, Anne Siegel
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-019-53811-0

An integrated nomogram combining lncRNAs classifier and clinicopathologic factors to predict the recurrence of head and neck squamous cell carcinoma
Cited by: 4
Author(s): Jie Cui, Qingquan Wen, Xiaojie Tan, Jinsong Piao, Qiong Zhang, Qian Wang, Lizhen He, Yan Wang, Zhe Chen, Genglong Liu
Software Mentions: 5
Published: over 6 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: over 6 years ago

10.7554/eLife.64618

Genomic epidemiology of COVID-19 in care homes in the east of England
Cited by: 17
Author(s): William L. Hamilton, Gerry Tonkin‐Hill, Darren Smith, Dinesh Aggarwal, Charlotte J. Houldcroft, Ben Warne, Luke W. Meredith, Myra Hosmillo, Aminu S. Jahun, Martin D. Curran, Surendra Parmar, Laura Caller, Sarah Caddy, Fahad Khokhar, Anna Yakovleva, Grant Hall, Theresa Feltwell, Malte L. Pinckert, Iliana Georgana, Yasmin Chaudhry, Colin Brown, Sónia Gonçalves, Roberto Amato, Ewan M. Harrison, Nicholas Brown, Mathew A. Beale, Michael Spencer Chapman, David Jackson, Ian Johnston, Alex Alderton, John Sillitoe, Cordelia Langford, Gordon Dougan, Sharon J. Peacock, Dominic P Kwiatowski, Ian Goodfellow, M. Estée Török
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-020-75128-z

Novel genomic targets of valosin-containing protein in protecting pathological cardiac hypertrophy
Cited by: 5
Author(s): Ning Zhou, Xin Chen, Jing Xi, Ben Ma, Christiana Leimena, Shaunrick Stoll, Gangjian Qin, Charles Wang, Hongyu Qiu
Software Mentions: 5
Published: over 5 years ago

10.1155/2019/5980567

A Genomic-Clinicopathologic Nomogram Predicts Survival for Patients with Laryngeal Squamous Cell Carcinoma
Cited by: 9
Author(s): Jie Cui, Qingquan Wen, Xiaojie Tan, Zhe Chen, Genglong Liu
Software Mentions: 5
Published: over 6 years ago

10.1186/s12935-021-01933-9

Low expression of CHRDL1 and SPARCL1 predicts poor prognosis of lung adenocarcinoma based on comprehensive analysis and immunohistochemical validation
Cited by: 13
Author(s): Huan Deng, Hang Qin, Deyan Shen, Yibi Zhang, Ming Chen
Software Mentions: 5
Published: about 5 years ago

10.1186/s40793-021-00382-1

Coupled DNA-labeling and sequencing approach enables the detection of viable-but-non-culturable Vibrio spp. in irrigation water sources in the Chesapeake Bay watershed
Cited by: 5
Author(s): Leena Malayil, Suhana Chattopadhyay, Emmanuel F. Mongodin, Amy R. Sapkota
Software Mentions: 5
Published: about 5 years ago

10.3390/cancers12030702

STAT3 Mutation Is Associated with STAT3 Activation in CD30+ ALK− ALCL
Cited by: 16
Author(s): Emma Andersson, Oscar Brück, Till Braun, Susanna Mannisto, Leena Saikko, Sonja Lagström, Pekka Ellonen, Sirpa Leppä, Marco Herling, Panu E. Kovanen, Satu Mustjoki
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pone.0242955

Lessons from movement ecology for the return to work: Modeling contacts and the spread of COVID-19
Cited by: 4
Author(s): Allison K. Shaw, Lauren A. White, Matthew Michalska‐Smith, Elizabeth T. Borer, Meggan E. Craft, Eric W. Seabloom, Emilie C. Snell‐Rood, Michael Travisano
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0198452

Large-scale patterns of benthic marine communities in the Brazilian Province
Cited by: 76
Author(s): Anaide W. Aued, Franz Smith, Juan P. Quimbayo, Davi V. Cândido, Guilherme O. Longo, Carlos E. L. Ferreira, Jon D. Witman, Sergio R. Floeter, Bárbara Segal
Software Mentions: 5
Published: about 8 years ago

10.7554/eLife.09347

A pH-driven transition of the cytoplasm from a fluid- to a solid-like state promotes entry into dormancy
Cited by: 332
Author(s): Matthias C. Munder, Daniel Midtvedt, Titus M. Franzmann, Elisabeth Nüske, Oliver Otto, Maik Herbig, Elke Ulbricht, Paul Müller, Anna Taubenberger, Shovamayee Maharana, Liliana Malinovska, Doris Richter, Jochen Guck, Vasily Zaburdaev, Simon Alberti
Software Mentions: 5
Published: over 10 years ago

10.3390/plants9121794

Nanopore RNA Sequencing Revealed Long Non-Coding and LTR Retrotransposon-Related RNAs Expressed at Early Stages of Triticale SEED Development
Cited by: 15
Author(s): Ilya Kirov, Maxim Dudnikov, Pavel Merkulov, Andrey Shingaliev, Murad Omarov, Elizaveta Kolganova, Alexandra Sigaeva, Г. И. Карлов, A. A. Soloviev
Software Mentions: 5
Published: over 5 years ago

10.18632/aging.102373

Bioinformatic profiling of prognosis-related genes in the breast cancer immune microenvironment
Cited by: 29
Author(s): Fang Bai, Yu-Chun Jin, Peng Zhang, Hongliang Chen, Yi‐Peng Fu, Mingdi Zhang, Zhen Weng, Kangning Wu
Software Mentions: 5
Published: over 6 years ago

10.1098/rspb.2021.0454

Long-term exposure to artificial light at night in the wild decreases survival and growth of a coral reef fish
Cited by: 13
Author(s): Jules Schligler, Daphne Cortese, Ricardo Beldade, Stephen E. Swearer, Suzanne C. Mills
Software Mentions: 5
Published: about 5 years ago

10.3389/frai.2020.584784

Using Word Embeddings to Learn a Better Food Ontology
Cited by: 7
Author(s): Jason Youn, Tarini Naravane, Ilias Tagkopoulos
Software Mentions: 5
Published: over 5 years ago

10.1002/cam4.3353

Construction of a lipid metabolism‐related and immune‐associated prognostic signature for hepatocellular carcinoma
Cited by: 37
Author(s): Bo Hu, Xiaobo Yang, Xinting Sang
Software Mentions: 5
Published: almost 6 years ago

10.1038/s41598-020-76769-w

GIANT: galaxy-based tool for interactive analysis of transcriptomic data
Cited by: 8
Author(s): Jimmy Vandel, Céline Gheeraert, Bart Staels, Jérôme Eeckhoute, Philippe Lefèbvre, Julie Dubois-Chevalier
Software Mentions: 5
Published: over 5 years ago

10.3389/fonc.2021.663556

Identification of a Three-RNA Binding Proteins (RBPs) Signature Predicting Prognosis for Breast Cancer
Cited by: 14
Author(s): Yang Liu, Hefen Sun, Xuan Li, Qiqi Liu, Yuanyuan Zhao, Liangdong Li, Baojin Xu, Yifeng Hou, Wei Jin
Software Mentions: 5
Published: about 5 years ago

10.1186/s12864-020-07225-2

Comparative analysis of the transcriptomes of EDL, psoas, and soleus muscles from mice
Cited by: 25
Author(s): Pabodha Hettige, Uzma Tahir, Kiisa C. Nishikawa, Matthew J. Gage
Software Mentions: 5
Published: over 5 years ago

10.1016/j.csbj.2020.06.010

Bioinformatics approaches for deciphering the epitranscriptome: Recent progress and emerging topics
Cited by: 33
Author(s): Lian Liu, Bowen Song, Jiani Ma, Yi Song, Song-Yao Zhang, Yujiao Tang, Xiangyu Wu, Zhen Wei, Kunqi Chen, Jionglong Su, Rong Rong, Zhi-Liang Lu, João Pedro de Magalhães, Daniel J. Rigden, Lin Zhang, Shaowu Zhang, Yufei Huang, Xiujuan Lei, Hui Liu, Jia Meng
Software Mentions: 5
Published: over 6 years ago

10.1186/s10020-020-00253-4

Genomic imbalances in the placenta are associated with poor fetal growth
Cited by: 13
Author(s): Giulia Gobbo, Yue Yin, Sanaa Choufani, Emma Butcher, John Wei, Evica Rajcan‐Separovic, Hayley Bos, Peter von Dadelszen, Rosanna Weksberg, Wendy P. Robinson, Ryan K. C. Yuen
Software Mentions: 5
Published: over 5 years ago

10.3390/cancers11010053

Prognostic Gene Discovery in Glioblastoma Patients using Deep Learning
Cited by: 34
Author(s): Kelvin Wong, Robert Rostomily, Stephen T.C. Wong
Software Mentions: 5
Published: over 7 years ago

10.7554/eLife.67518

The structure of photosystem I from a high-light-tolerant cyanobacteria
Cited by: 13
Author(s): Zachary Dobson, Safa Ahad, Jackson Vanlandingham, Hila Toporik, Natalie Vaughn, Michael Vaughn, Dewight Williams, Michael Reppert, Petra Fromme, Yuval Mazor
Software Mentions: 5
Published: almost 5 years ago

10.7554/eLife.62529

Journal policies and editors’ opinions on peer review
Cited by: 24
Author(s): Daniel G Hamilton, Hannah Fraser, Rink Hoekstra, Fiona Fidler
Software Mentions: 5
Published: over 5 years ago

10.1093/gigascience/giab067

Association of female reproductive tract microbiota with egg production in layer chickens
Cited by: 5
Author(s): Yuan Su, Shilin Tian, Diyan Li, Wei Zhu, Tao Wang, Suchismita Mishra, Ranlei Wei, Zhongxian Xu, Mengnan He, Xiaoling Zhao, Huadong Yin, Xiaolan Fan, Bo Zeng, Mingyao Yang, Deying Yang, Qingyong Ni, Yan Li, Mingwang Zhang, Qing Zhu, Mingzhou Li
Software Mentions: 5
Published: almost 5 years ago

10.1155/2018/7691794

Differential Expression Profiling of Long Noncoding RNA and mRNA during Osteoblast Differentiation in Mouse
Cited by: 6
Author(s): Minjung Kim, Yi Yin Yu, Ji-Hoi Moon, Insong Koh, Jae Hyung Lee
Software Mentions: 5
Published: over 8 years ago

10.1038/s41598-020-78288-0

Common and personal target genes of the micronutrient vitamin D in primary immune cells from human peripheral blood
Cited by: 19
Author(s): Andrea Hanel, Antonio Neme, Marjo Malinen, Emmi Hämäläinen, Henna-Riikka Malmberg, Stéphane Etheve, Tomi‐Pekka Tuomainen, Jyrki K. Virtanen, Igor Bendik, Carsten Carlberg
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2019.02142

Particle-Associated Microbial Community in a Subtropical Lake During Thermal Mixing and Phytoplankton Succession
Cited by: 17
Author(s): Schweitzer-Natan Orna, Maya Ofek‐Lalzar, Daniel Sher, Assaf Sukenik
Software Mentions: 5
Published: almost 7 years ago

10.1038/s41398-021-01481-w

Toll-like receptor 4 methylation grade is linked to depressive symptom severity
Cited by: 10
Author(s): Annica J. Rasmusson, Maike Gallwitz, Bardia Soltanabadi, Diana M. Ciuculete, Jonas Mengel‐From, Kaare Christensen, Marianne Nygaard, Mette Soerensen, Adrian Boström, Robert Fredriksson, Eva Freyhult, Jessica Mwinyi, Darina Czamara, Elisabeth B. Binder, Helgi B. Schiöth, Janet L. Cunningham
Software Mentions: 5
Published: about 5 years ago

10.1128/mSphere.00511-17

Adaptation in a Fibronectin Binding Autolysin of Staphylococcus saprophyticus
Cited by: 9
Author(s): Tatum D Mortimer, Douglas S. Annis, Mary O’Neill, Lindsey L. Bohr, Tracy M. Smith, Hendrik N. Poinar, Deane F. Mosher, Caitlin S. Pepperell
Software Mentions: 5
Published: over 8 years ago

10.12688/f1000research.55027.1

rmcorrShiny: A web and standalone application for repeated measures correlation
Cited by: 14
Author(s): Laura R. Marusich, Jonathan Z. Bakdash
Software Mentions: 5
Published: almost 5 years ago

10.1186/s40168-020-00850-9

The microbiome as a biosensor: functional profiles elucidate hidden stress in hosts
Cited by: 24
Author(s): Avihai Zolti, Stefan J. Green, Noa Sela, Yitzhak Hadar, Dror Minz
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0146469

Large-Scale Spatio-Temporal Patterns of Mediterranean Cephalopod Diversity
Cited by: 11
Author(s): Stefanie Keller, Valerio Bartolino, Manuel Hidalgo, Isabella Bitetto, Loredana Casciaro, Danila Cuccu, Antonio Esteban, Carlos Martín García, Germana Garofalo, Marios Josephides, Angélique Jadaud, Eugenia Lefkaditou, Porzia Maiorano, Chiara Manfredi, Bojan Marčeta, Enric Massutí, Reno Micallef, Panagiota Peristeraki, Giulio Rélini, Paolo Sartor, María Teresa Spedicato, George Tserpes, Antoni Quetglas
Software Mentions: 5
Published: over 10 years ago

10.1111/cpr.12968

Systemic transcriptome comparison between early‐ And late‐onset pre‐eclampsia shows distinct pathology and novel biomarkers
Cited by: 15
Author(s): Fang Guo, Zhenan Bao, Hao Yang, Yixi Fu, Yaning Wang, Jianming Huang, Min Cheng, Xiaobo Li, Zhuo Shen, Li Li, Ping He, Andy Peng Xiang, Shuaiyu Wang, Hongbo Zhang
Software Mentions: 5
Published: over 5 years ago

10.1186/s12864-016-3135-y

A comparative study of ChIP-seq sequencing library preparation methods
Cited by: 21
Author(s): Arvind Sundaram, Timothy R. Hughes, Shea Biondi, Nathalie Bolduc, Sarah K. Bowman, Andrew Camilli, Yap Ching Chew, Catherine Couture, Andrew Farmer, John P. Jerome, David W. Lazinski, Andrew McUsic, Peng Xu, Kamran Shazand, Feng Xu, Robert Lyle, Gregor D. Gilfillan
Software Mentions: 5
Published: over 9 years ago

10.3390/insects12030219

Ant Diversity and Community Composition in Alpine Tree Line Ecotones
Cited by: 4
Author(s): Elia Guariento, Konrad Fiedler
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-019-43268-6

Structure and stability of the coral microbiome in space and time
Cited by: 60
Author(s): Courtney M. Dunphy, Tarik C. Gouhier, Nathaniel D. Chu, Steven V. Vollmer
Software Mentions: 5
Published: about 7 years ago

10.3390/metabo8040078

Population-Level Analysis to Determine Parameters That Drive Variation in the Plasma Metabolite Profiles
Cited by: 2
Author(s): Mahmoud Al-Majdoub, Katharina Herzog, Bledar Daka, Martin Magnusson, Lennart Råstam, Ulf Lindblad, Peter Sartipy
Software Mentions: 5
Published: over 7 years ago

10.3389/fmicb.2021.666010

Differential Impact of Plant Secondary Metabolites on the Soil Microbiota
Cited by: 23
Author(s): Vadim Schütz, Katharina Frindte, Jiaxin Cui, Pengfan Zhang, Stéphane Hacquard, Paul Schulze‐Lefert, Claudia Knief, Margot Schulz, Peter Dörmann
Software Mentions: 5
Published: about 5 years ago

10.1186/1471-2164-15-917

Differential expression of endogenous plant cell wall degrading enzyme genes in the stick insect (Phasmatodea) midgut
Cited by: 37
Author(s): Matan Shelomi, W. Cameron Jasper, Joel Atallah, Lynn S. Kimsey, Brian R. Johnson
Software Mentions: 5
Published: over 12 years ago

10.1371/journal.pbio.3000396

Inverted translational control of eukaryotic gene expression by ribosome collisions
Cited by: 39
Author(s): Heungwon Park, Arvind R. Subramaniam
Software Mentions: 5
Published: almost 7 years ago

10.1186/s12935-021-02042-3

Derivation and validation of a lipid-covered prognostic model for mature T-cell lymphomas
Cited by: 5
Author(s): Tianshi Lü, Lei Shi, Guanggang Shi, Yin Cai, Shunfeng Hu, Jiarui Liu, Shuai Ren, Xiangxiang Zhou, Xin Wang
Software Mentions: 5
Published: about 5 years ago

10.1128/mSystems.00053-18

Balances: a New Perspective for Microbiome Analysis
Cited by: 173
Author(s): Javier Rivera Pinto, J. J. Egozcue, Vera Pawlowsky‐Glahn, Roger Paredes, Marc Noguera‐Julian, M. Luz Calle
Software Mentions: 5
Published: almost 8 years ago

10.1038/s41598-017-16739-x

Scene grammar shapes the way we interact with objects, strengthens memories, and speeds search
Cited by: 59
Author(s): Dejan Draschkow, Melissa L.-H. Võ
Software Mentions: 5
Published: over 8 years ago

10.1186/s40168-015-0146-x

Metatranscriptomic analysis of diverse microbial communities reveals core metabolic pathways and microbiome-specific functionality
Cited by: 91
Author(s): Yue Jiang, Xuejian Xiong, Jayne S. Danska, John Parkinson
Software Mentions: 5
Published: over 10 years ago