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: cran: SPOT
https://packages.ecosyste.ms/registries/cran.r-project.org/packages/SPOT
Sequential Parameter Optimization Toolbox
31 versions
Latest release: over 2 years ago
4 dependent packages
616 downloads last month
Papers Mentioning SPOT 551
10.1038/s41598-021-81688-5
Fungal diversity and community structure from coastal and barrier island beaches in the United States Gulf of MexicoCited by: 14
Author(s): Allison K. Walker, Brent M. Robicheau
Software Mentions: 16
Published: over 3 years ago
10.1016/j.molcel.2018.11.006
Interactome Rewiring Following Pharmacological Targeting of BET BromodomainsCited by: 117
Author(s): Jean-Philippe Lambert, S. Picaud, Takao Fujisawa, Huayun Hou, P. Savitsky, Liis Uusküla-Reimand, Gagan D. Gupta, Hala Abdouni, Zhen‐Yuan Lin, Monika Tucholska, James D.R. Knight, Beatriz Gonzalez-Badillo, Nicole St‐Denis, Joseph A. Newman, Manuel Stucki, Laurence Pelletier, Nuno Bandeira, Michael D. Wilson, P. Filippakopoulos, Anne‐Claude Gingras
Software Mentions: 9
Published: almost 6 years ago
10.1007/s00572-020-01001-6
Phosphate availability and ectomycorrhizal symbiosis with Pinus sylvestris have independent effects on the Paxillus involutus transcriptomeCited by: 6
Author(s): Christina Paparokidou, Jonathan R. Leake, David J. Beerling, Stephen A. Rolfe
Software Mentions: 7
Published: almost 4 years ago
10.1016/j.immuni.2020.09.015
Second-Strand Synthesis-Based Massively Parallel scRNA-Seq Reveals Cellular States and Molecular Features of Human Inflammatory Skin PathologiesCited by: 143
Author(s): Travis Hughes, Marc H. Wadsworth, Todd M. Gierahn, Tran Do, David I. Weiss, Priscila Ribeiro Andrade, Feiyang Ma, Bruno Jorge de Andrade Silva, Shuai Shao, Lam C. Tsoi, José Ordovás-Montañés, Jóhann E. Guðjónsson, Robert L. Modlin, J. Christopher Love, Alex K. Shalek
Software Mentions: 6
Published: about 4 years ago
10.1371/journal.pone.0239681
The Znt7-null mutation has sex dependent effects on the gut microbiota and goblet cell population in the mouse colonCited by: 3
Author(s): Mary E. Kable, Niknaz Riazati, Catherine P. Kirschke, Junli Zhao, Surapun Tepaamorndech, Liping Huang
Software Mentions: 6
Published: about 4 years ago
10.1186/s13717-020-00255-4
Current and near-term advances in Earth observation for ecological applicationsCited by: 75
Author(s): Susan L. Ustin, Elizabeth M. Middleton
Software Mentions: 6
Published: almost 4 years ago
10.1186/1471-2105-14-165
Separate-channel analysis of two-channel microarrays: recovering inter-spot informationCited by: 28
Author(s): Gordon K. Smyth, Naomi Altman
Software Mentions: 5
Published: over 11 years ago
10.1186/1471-2105-6-306
WebArray: an online platform for microarray data analysisCited by: 72
Author(s): Xiaoqin Xia, Michael McClelland, Yipeng Wang
Software Mentions: 5
Published: almost 19 years ago
10.1186/s40679-016-0035-9
Towards on-the-fly data post-processing for real-time tomographic imaging at TOMCATCited by: 63
Author(s): Federica Marone, Alain Studer, Heiner Billich, L. Sala, Marco Stampanoni
Software Mentions: 5
Published: almost 8 years ago
10.1371/journal.pone.0238689
Assessment of transcriptomic constraint-based methods for central carbon flux inferenceCited by: 3
Author(s): Siddharth Bhadra-Lobo, Min Kyung Kim, Desmond S. Lun
Software Mentions: 5
Published: about 4 years ago
10.1186/s12863-018-0660-5
Skeletal muscle in aged mice reveals extensive transformation of muscle gene expressionCited by: 45
Author(s): I‐Hsuan Lin, Junn-Liang Chang, Kate Hua, Wan-Chen Huang, Ming Hsu, Yifan Chen
Software Mentions: 5
Published: over 6 years ago
10.1371/journal.pone.0080968
A New Freshwater Biodiversity Indicator Based on Fish Community AssemblagesCited by: 11
Author(s): Joanne Clavel, Nicolas Poulet, Emmanuelle Porcher, Simon Blanchet, Gaël Grenouillet, Sandrine Pavoine, Anne Biton, Nirmala Seon-Massin, Christine Argillier, Martín Daufresne, Pauline Teillac-Deschamps, Romain Julliard
Software Mentions: 5
Published: almost 11 years ago
10.3389/fmicb.2014.00352
Phenotypic profiling of ABC transporter coding genes in Myxococcus xanthusCited by: 5
Author(s): Jinyuan Yan, Michael D. Bradley, Jannice Friedman, Roy D. Welch
Software Mentions: 4
Published: over 10 years ago
10.1186/1471-2105-7-511
Statistical analysis of an RNA titration series evaluates microarray precision and sensitivity on a whole-array basisCited by: 23
Author(s): Andrew Holloway, Alicia Oshlack, Dileepa S. Diyagama, David D.L. Bowtell, Gordon K. Smyth
Software Mentions: 4
Published: almost 18 years ago
10.3389/fmolb.2021.647277
How Machine Learning and Statistical Models Advance Molecular Diagnostics of Rare Disorders Via Analysis of RNA Sequencing DataCited by: 12
Author(s): Lea D. Schlieben, Holger Prokisch, Vicente A. Yépez
Software Mentions: 4
Published: over 3 years ago
10.1186/2044-5040-1-23
Novel mutations in NEB cause abnormal nebulin expression and markedly impaired muscle force generation in severe nemaline myopathyCited by: 51
Author(s): Michael W. Lawlor, Coen A.C. Ottenheijm, Vilma-Lotta Lehtokari, Kiyomi Cho, Katarina Pelin, Carina Wallgren‐Pettersson, Henk Granzier, Alan H. Beggs
Software Mentions: 4
Published: over 13 years ago
10.1371/journal.pone.0013954
A Role for the Retinoblastoma Protein As a Regulator of Mouse Osteoblast Cell Adhesion: Implications for Osteogenesis and Osteosarcoma FormationCited by: 30
Author(s): Bernadette Sosa‐García, Volkan Gündüz, Viviana Vázquez‐Rivera, W. Douglas Cress, Gabriëla Wright, Haikuo Bian, Philip W. Hinds, Pedro G. Santiago‐Cardona
Software Mentions: 4
Published: almost 14 years ago
10.3389/fmicb.2019.02682
Characterizing Chemoautotrophy and Heterotrophy in Marine Archaea and Bacteria With Single-Cell Multi-isotope NanoSIPCited by: 29
Author(s): Anne E. Dekas, Alma E. Parada, Xavier Mayali, Jed A. Fuhrman, Jessica Wollard, Peter K. Weber, Jennifer Pett‐Ridge
Software Mentions: 4
Published: almost 5 years ago
10.3390/s19081933
A Review of Remote Sensing Approaches for Monitoring Blue Carbon Ecosystems: Mangroves, Seagrassesand Salt Marshes during 2010–2018Cited by: 83
Author(s): Tien Dat Pham, Junshi Xia, Nam Thang Ha, Dieu Tien Bui, Nga Nhu Le, Wataru Tekeuchi
Software Mentions: 4
Published: over 5 years ago
10.1186/1471-2105-7-264
Spatial normalization of array-CGH dataCited by: 76
Author(s): Pierre Neuvial, Philippe Hupé, Isabel Martínez Brito, Stéphane Liva, Élodie Manié, Caroline Brennetot, François Radvanyi, Alain Aurias, Emmanuel Barillot
Software Mentions: 4
Published: over 18 years ago
10.1371/journal.pone.0218230
Atoh8 acts as a regulator of chondrocyte proliferation and differentiation in endochondral bonesCited by: 10
Author(s): Nadine Schroeder, Manuela Wuelling, Daniel Hoffmann, Beate Brand‐Saberi, Andrea Vortkamp
Software Mentions: 4
Published: about 5 years ago
10.1038/s41598-017-16603-y
RNA-seq of serial kidney biopsies obtained during progression of chronic kidney disease from dogs with X-linked hereditary nephropathyCited by: 11
Author(s): Candice P. Chu, Jessica A. Hokamp, Rachel E. Cianciolo, Alan R. Dabney, Candice Brinkmeyer-Langford, George E. Lees, Mary B. Nabity
Software Mentions: 4
Published: almost 7 years ago
10.1371/journal.pone.0255076
A secondary structure-based position-specific scoring matrix applied to the improvement in protein secondary structure predictionCited by: 9
Author(s): Teng Ruei Chen, Sheng Hung Juan, Yu Huang, Lianfang Tian, Wei-Cheng Lo
Software Mentions: 4
Published: over 3 years ago
10.1371/journal.pone.0209313
Mangroves in the Galapagos islands: Distribution and dynamicsCited by: 16
Author(s): Nicolás Moity, Byron Delgado, Pelayo Salinas‐de‐León
Software Mentions: 4
Published: almost 6 years ago
10.1186/s12985-016-0659-3
Derivation of chicken induced pluripotent stem cells tolerant to Newcastle disease virus-induced lysis through multiple rounds of infectionCited by: 7
Author(s): Leonardo Susta, Ying He, Jessica M. Hutcheson, Yangqing Lu, Franklin D. West, Steven L. Stice, Ping Yu, Zaid Abdo, Claudio L. Afonso
Software Mentions: 4
Published: almost 8 years ago
10.1186/1476-4598-6-64
Molecular signatures define two main classes of meningiomasCited by: 65
Author(s): Lucia Helena de Carvalho, Иван Смирнов, Gilson S. Baía, Zora Modrušan, Justin S. Smith, Peter Jun, J Costello, Michael W. McDermott, Scott R. VandenBerg, Anita Lal
Software Mentions: 4
Published: about 17 years ago
10.3390/s18010018
Comparison of Random Forest, k-Nearest Neighbor, and Support Vector Machine Classifiers for Land Cover Classification Using Sentinel-2 ImageryCited by: 541
Author(s): Thanh Noi Phan, Martin Kappas
Software Mentions: 3
Published: almost 7 years ago
10.3389/fdata.2019.00005
Location Prediction for TweetsCited by: 9
Author(s): Chi-Ying F. Huang, Hanghang Tong, Jingrui He, Ross Maciejewski
Software Mentions: 3
Published: over 5 years ago
10.18632/oncotarget.8209
C-terminal truncated hepatitis B virus X protein promotes hepatocellular carcinogenesis through induction of cancer and stem cell-like propertiesCited by: 41
Author(s): Kai-Yu Ng, Stella Chai, Man Tong, Xin‐Yuan Guan, Chi-Ho Lin, Yick–Pang Ching, Dan Xie, Alfred S.L. Cheng, Stephanie Ma
Software Mentions: 3
Published: over 8 years ago
10.1371/journal.pcbi.1009027
Evaluation of residue-residue contact prediction methods: From retrospective to prospectiveCited by: 14
Author(s): Huiling Zhang, Zhendong Bei, Wenhui Xi, Min Hao, Zhen Ju, Konda Mani Saravanan, Haiping Zhang, Ning Guo, Yanjie Wei
Software Mentions: 3
Published: over 3 years ago
10.1186/1471-2105-6-124
Cited by: 80Author(s): Björn Menten, Filip Pattyn, Katleen De Preter, Piet Robbrecht, Evi Michels, Karen Buysse, Geert Mortier, Anne De Paepe, Steven Van Vooren, Joris Robert Vermeesch, Yves Moreau, Bart De Moor, Stefan Vermeulen, Frank Speleman, Jo Vandesompele
Software Mentions: 3
Published: almost 20 years ago
10.1107/S0907444909047337
<i>XDS</i>Cited by: 12,921
Author(s): Wolfgang Kabsch
Software Mentions: 3
Published: almost 15 years ago
10.26508/lsa.201900328
Tumor-intrinsic response to IFNγ shapes the tumor microenvironment and anti–PD-1 response in NSCLCCited by: 34
Author(s): Bonnie Bullock, Abigail K. Kimball, Joanna M. Poczobutt, Alexander J. Neuwelt, Howard Li, Amber M. Johnson, Jeff Kwak, Emily K. Kleczko, Rachael E. Kaspar, Emily Kay Wagner, Katharina Hopp, Erin L. Schenk, Mary C. Weiser-Evans, Eric T. Clambey, Raphael A. Nemenoff
Software Mentions: 3
Published: over 5 years ago
10.3389/fgene.2021.716132
Predicting Protein Therapeutic Candidates for Bovine Babesiosis Using Secondary Structure Properties and Machine LearningCited by: 4
Author(s): Stephen J. Goodswen, Paul J. Kennedy, John Ellis
Software Mentions: 3
Published: over 3 years ago
10.1128/mSystems.00023-18
Taxon Disappearance from Microbiome Analysis Reinforces the Value of Mock Communities as a Standard in Every Sequencing RunCited by: 53
Author(s): Yi Chun Yeh, David M. Needham, Ella T. Sieradzki, Jed A. Fuhrman
Software Mentions: 3
Published: over 6 years ago
10.1186/1471-2334-10-348
IFN-γ response on T-cell based assays in HIV-infected patients for detection of tuberculosis infectionCited by: 27
Author(s): Irene Latorre, Xavier Martínez-Lacasa, Roser Font, Alícia Lacoma, Jordi Puig, Cristina Tural, Josep Lite, Cristina Prat, Eva Cuchí, V. Ausina, J. Domínguez
Software Mentions: 2
Published: almost 14 years ago
10.1016/j.gpb.2019.01.004
SPOT-Disorder2: Improved Protein Intrinsic Disorder Prediction by Ensembled Deep LearningCited by: 100
Author(s): Jack Hanson, Kuldip K. Paliwal, Thomas Litfin, Yaoqi Zhou
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41598-020-64311-x
Phenotypic and functional characterization of corneal endothelial cells during in vitro expansionCited by: 34
Author(s): Ricardo F. Frausto, Vinay Swamy, Gary S L Peh, Payton Boere, E. Maryam Hanser, Dang Huu Chung, Benjamin L. George, Marco Morselli, Liyo Kao, Rustam Azimov, Jessica Wu, Matteo Pellegrini, Ira Kurtz, Jodhbir S. Mehta, Anthony J. Aldave
Software Mentions: 2
Published: over 4 years ago
10.6028/jres.110.011
Ba(OH)(2) equilibria in the system Ba-O-H-F, with application to the formation of Ba2YCu3O6.5+x from BaF2-precursorsCited by: 3
Author(s): Lawrence P. Cook, W. Wong‐Ng, R. Feenstra
Software Mentions: 2
Published: over 19 years ago
10.1038/s41598-020-58280-4
Agro-Climato-Edaphic Zonation of Nigeria for a Cassava Cultivar using GIS-Based Analysis of Data from 1961 to 2017Cited by: 9
Author(s): Akinola S. Akinwumiju, Adedeji A. Adelodun, Oluwagbenga O. I. Orimoogunje
Software Mentions: 2
Published: almost 5 years ago
10.1186/ar3507
Lymphotoxin-beta receptor blockade reduces CXCL13 in lacrimal glands and improves corneal integrity in the NOD model of Sjögren's syndromeCited by: 67
Author(s): Roy A. Fava, Susan Kennedy, Sheryl G. Wood, Anne Isine Bolstad, Jadwiga Bienkowska, Adrian Papandile, John Kelly, Clio P. Mavragani, Margaret Karimi Gatumu, Kathrine Skarstein, Jeffrey L. Browning
Software Mentions: 2
Published: almost 14 years ago
10.3390/ijerph15030468
Wetlands and Malaria in the Amazon: Guidelines for the Use of Synthetic Aperture Radar Remote-SensingCited by: 19
Author(s): Thibault Catry, Zhichao Li, Emmanuel Roux, Vincent Herbreteau, Helen Gurgel, Morgan Mangeas, Frédérique Seyler, Nadine Dessay
Software Mentions: 2
Published: over 6 years ago
10.1186/1471-2474-12-115
Transgenic overexpression of miR-133a in skeletal muscleCited by: 47
Author(s): Zhong‐Liang Deng, Jianfu Chen, Dazhi Wang
Software Mentions: 2
Published: over 13 years ago
10.18632/oncotarget.8503
Downregulation of ATOH8 induced by EBV-encoded LMP1 contributes to the malignant phenotype of nasopharyngeal carcinomaCited by: 17
Author(s): Zifeng Wang, Jiajun Xie, Min Yan, Jing Wang, Xi Wang, Jialiang Zhang, Yan Zhang, Pengfei Li, Xin‐Xing Lei, Qiuxia Huang, Sensen Lin, Xiang Guo, Quentin Liu
Software Mentions: 2
Published: over 8 years ago
10.3390/s120708544
Configuring a Context-Aware Middleware for Wireless Sensor NetworksCited by: 17
Author(s): Nadia Gámez, Javier Cubo, Lidia Fuentes, Ernesto Pimentel
Software Mentions: 2
Published: over 12 years ago
10.1038/s41598-021-82178-4
Submicron spatial resolution optical coherence tomography for visualising the 3D structures of cells cultivated in complex culture systemsCited by: 8
Author(s): Chia‐Ying Tsai, Chia-Lung Shih, Hsiao-Sang Chu, Yi‐Ting Hsieh, Sheng‐Lung Huang, Wei-Li Chen
Software Mentions: 2
Published: over 3 years ago
10.1074/jbc.M113.523019
Affinity Map of Bromodomain Protein 4 (BRD4) Interactions with the Histone H4 Tail and the Small Molecule Inhibitor JQ1Cited by: 118
Author(s): Marie Jung, Martin Philpott, Susanne Müller, Jessica Schulze, Volker Badock, Uwe Eberspächer, Dieter Moosmayer, Benjamin Bader, Norbert Schmees, Amaury E. Fernández-Montalván, Bernard Haendler
Software Mentions: 2
Published: over 10 years ago
10.1111/acel.12992
Early‐onset aging and mitochondrial defects associated with loss of histone acetyltransferase 1 (Hat1)Cited by: 21
Author(s): Prabakaran Nagarajan, Paula A. Agudelo Garcia, Chitra C. Iyer, Liudmila V. Popova, W. David Arnold, Mark R. Parthun
Software Mentions: 2
Published: over 5 years ago
10.1038/s41598-021-86413-w
Liquiñe-Ofqui’s fast slipping intra-volcanic arc crustal faulting above the subducted Chile RidgeCited by: 6
Author(s): Gregory P. De Pascale, Melanie Froude, Ivanna Penna, Reginald L. Hermanns, Sergio A. Sepúlveda, Daniel Moncada, Mario Persico, Gabriel Easton, Angelo Villalobos, Francisco J. Gutiérrez
Software Mentions: 2
Published: over 3 years ago
10.18632/oncotarget.25118
Functional significance of co-occurring mutations in <i>PIK3CA</i> and <i>MAP3K1</i> in breast cancerCited by: 36
Author(s): Alvaro Avivar‐Valderas, Robert McEwen, Amir Taheri‐Ghahfarokhi, Larissa S. Carnevalli, Elizabeth Hardaker, Marcello Maresca, Kevin Hudson, Elizabeth A. Harrington, Francisco Cruzalegui
Software Mentions: 2
Published: over 6 years ago
10.1111/gcb.12647
Vegetation productivity patterns at high northern latitudes: a multi‐sensor satellite data assessmentCited by: 230
Author(s): Kevin C. Guay, Pieter S. A. Beck, L. T. Berner, Scott J. Goetz, Alessandro Baccini, Wolfgang Buermann
Software Mentions: 2
Published: over 10 years ago
10.1128/mBio.00560-21
VIP-SPOT: an Innovative Assay To Quantify the Productive HIV-1 Reservoir in the Monitoring of Cure StrategiesCited by: 7
Author(s): María C. Puertas, Ángel Bayón-Gil, Maria C. Garcia-Guerrero, María Salgado, Víctor Urrea, Sara Morón-López, Ruth Peña, Esther Jiménez-Moyano, Bonaventura Clotet, Julia G. Prado, Javier Martínez-Picado
Software Mentions: 2
Published: over 3 years ago
10.3389/fphys.2019.00751
Carnosine Supplementation Enhances Post Ischemic Hind Limb RevascularizationCited by: 13
Author(s): Adjoa Agyemang Boakye, Deqing Zhang, Linlin Guo, Yuting Zheng, David Hoetker, Jingjing Zhao, Dheeraj Kumar Posa, Chin K. Ng, Huiyuan Zheng, Amit Kumar, Vijay Kumar, Michael F. Wempe, Aruni Bhatnagar, Daniel J. Conklin, Shahid P. Baba
Software Mentions: 2
Published: over 5 years ago
10.1038/s41389-020-0209-0
PDK1 promotes ovarian cancer metastasis by modulating tumor-mesothelial adhesion, invasion, and angiogenesis via α5β1 integrin and JNK/IL-8 signalingCited by: 37
Author(s): Michelle K.Y. Siu, Yuxin Jiang, Jingjing Wang, Thomas Leung, Siew‐Fei Ngu, Annie Nga‐Yin Cheung, Hextan Y.S. Ngan, Ki Chan
Software Mentions: 2
Published: over 4 years ago
10.18632/oncotarget.27485
Both BRCA1-wild type and -mutant triple-negative breast cancers show sensitivity to the NAE inhibitor MLN4924 which is enhanced upon MLN4924 and cisplatin combination treatmentCited by: 5
Author(s): Shrilekha Misra, Xiaoli Zhang, Nissar Ahmad Wani, Steven T. Sizemore, Anish Ray
Software Mentions: 2
Published: over 4 years ago
10.1186/1756-0500-6-72
The illusion of specific capture: surface and solution studies of suboptimal oligonucleotide hybridizationCited by: 2
Author(s): Jaishree Garhyan, Raad Z. Gharaibeh, Stephen J. McGee, Cynthia Gibas
Software Mentions: 2
Published: over 11 years ago
10.1107/S1600577518010056
APS <i>Data Management System</i>Cited by: 13
Author(s): Siniša Veseli, Nina Schwarz, Collin Schmitz
Software Mentions: 2
Published: about 6 years ago
10.1016/j.immuni.2018.10.015
Inference of the HIV-1 VRC01 Antibody Lineage Unmutated Common Ancestor Reveals Alternative Pathways to Overcome a Key Glycan BarrierCited by: 59
Author(s): Mattia Bonsignori, Eric Scott, Kevin Wiehe, David Easterhoff, S. Munir Alam, Kwan‐Ki Hwang, Melissa Cooper, Shi-Mao Xia, Ruijun Zhang, David C. Montefiori, Rory Henderson, Xin Nie, Garnett Kelsoe, M. Anthony Moody, Xuejun Chen, Michael Joyce, Peter D. Kwong, Mark Connors, John R. Mascola, Andrew T. McGuire, Leonidas Stamatatos, Max Medina-Ramírez, Rogier W. Sanders, Kevin O. Saunders, Thomas B. Kepler, Barton F. Haynes
Software Mentions: 2
Published: almost 6 years ago
10.3389/fmicb.2017.00156
Tet(C) Gene Transfer between Chlamydia suis Strains Occurs by Homologous Recombination after Co-infection: Implications for Spread of Tetracycline-Resistance among ChlamydiaceaeCited by: 21
Author(s): H. R. Marti, Hoyon Kim, Sandeep J. Joseph, Stacey Dojiri, Timothy D. Read, Deborah Dean
Software Mentions: 2
Published: almost 8 years ago
10.3389/fmed.2021.656667
Synovial Immunohistological Biomarkers of the Classification of Undifferentiated Arthritis Evolving to Rheumatoid or Psoriatic ArthritisCited by: 7
Author(s): Andrea Cuervo, Raquel Celis, Antonio Julià, Alicia Usategui, Regina Faré, Julio Ramírez, Ana Belén Azuaga, Andrés Lorenzo, Raimón Sanmartí, José L. Pablos, Juan D. Cañete
Software Mentions: 2
Published: over 3 years ago
10.1186/1471-2105-6-191
Cited by: 47Author(s): Wei Wu, Eric P. Xing, Connie A. Myers, I. Saira Mian, Mina J. Bissell
Software Mentions: 2
Published: almost 20 years ago
10.3389/fnins.2019.01007
A Human Embryonic Stem Cell Model of Aβ-Dependent Chronic Progressive NeurodegenerationCited by: 5
Author(s): Teresa Ubina, Martha Magallanes, Saumya Srivastava, Charles Warden, Jiing‐Kuan Yee, Paul M. Salvaterra
Software Mentions: 2
Published: about 5 years ago
10.1186/1471-2164-15-199
Genomic convergence and network analysis approach to identify candidate genes in Alzheimer's diseaseCited by: 78
Author(s): Puneet Talwar, Yumnam Silla, Sandeep Grover, Meena Gupta, Rachna Agarwal, Suman Kushwaha, Ritushree Kukreti
Software Mentions: 2
Published: over 10 years ago
10.3389/fcimb.2021.575650
Combination of Blood Routine Examination and T-SPOT.TB Assay for Distinguishing Between Active Tuberculosis and Latent Tuberculosis InfectionCited by: 8
Author(s): Ying Luo, Guoqing Tang, Yuan Xu, Qun Lin, Mao L, Huijuan Song, Ying Xue, Shiji Wu, Renren Ouyang, Hongyan Hou, Ziyong Sun
Software Mentions: 2
Published: over 3 years ago
10.3389/fimmu.2021.641378
Lymphocyte Non-Specific Function Detection Facilitating the Stratification of Mycobacterium tuberculosis InfectionCited by: 6
Author(s): Ying Luo, Ying Xue, Yimin Cai, Qun Lin, Guoqing Tang, Huijuan Song, Wei Liu, Mao L, Yuan Xu, Yu Zhou, Weiyong Liu, Shiji Wu, Ziyong Sun, Feng Wang
Software Mentions: 2
Published: over 3 years ago
10.1016/j.csbj.2021.04.066
QUARTERplus: Accurate disorder predictions integrated with interpretable residue-level quality assessment scoresCited by: 4
Author(s): Akila Katuwawala, Sina Ghadermarzi, Gang Hu, Zhonghua Wu, Lukasz Kurgan
Software Mentions: 2
Published: almost 4 years ago
10.1371/journal.pone.0185113
Physiological, morphological, and ecological tradeoffs influence vertical habitat use of deep-diving toothed-whales in the BahamasCited by: 27
Author(s): Trevor W. Joyce, John W. Durban, Diane Claridge, Charlotte Dunn, Holly Fearnbach, Kim M. Parsons, Russel D. Andrews, Lisa T. Ballance
Software Mentions: 2
Published: about 7 years ago
10.1371/journal.pone.0157101
E-Flux2 and SPOT: Validated Methods for Inferring Intracellular Metabolic Flux Distributions from Transcriptomic DataCited by: 34
Author(s): Min Kyung Kim, Anatoliy Lane, James J. Kelley, Desmond S. Lun
Software Mentions: 2
Published: over 8 years ago
10.3389/fmed.2020.585180
Diagnostic Value of T-SPOT.TB Assay for Tuberculous Peritonitis: A Meta-AnalysisCited by: 9
Author(s): Ying Luo, Ying Xue, Mao L, Qun Lin, Guoqing Tang, Huijuan Song, Feng Wang, Ziyong Sun
Software Mentions: 2
Published: almost 4 years ago
10.1016/j.jag.2012.11.007
Mapping the distribution of the main host for plague in a complex landscape in Kazakhstan: An object-based approach using SPOT-5 XS, Landsat 7 ETM+, SRTM and multiple Random ForestsCited by: 24
Author(s): Liesbeth Wilschut, E.A. Addink, J.A.P. Heesterbeek, V. M. Dubyanskiy, Stephen Davis, Anne Laudisoit, Michael Begon, L. A. Burdelov, Bakyt B. Atshabar, S.M. de Jong
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0151574
Plant Tandem CCCH Zinc Finger Proteins Interact with ABA, Drought, and Stress Response Regulators in Processing-Bodies and Stress GranulesCited by: 39
Author(s): Srimathi Bogamuwa, Jyan-Chyun Jang
Software Mentions: 2
Published: over 8 years ago
10.1371/journal.pone.0078320
Mice Deficient in Sfrp1 Exhibit Increased Adiposity, Dysregulated Glucose Metabolism, and Enhanced Macrophage InfiltrationCited by: 39
Author(s): Kelly J Gauger, Lotfi M. Bassa, Elizabeth Henchey, Josephine Wyman, Brooke Bentley, Melissa Brown, Akihiko Shimono, Sallie S. Schneider
Software Mentions: 2
Published: almost 11 years ago
10.1371/journal.pone.0012654
SH3 Domain-Peptide Binding Energy Calculations Based on Structural Ensemble and Multiple Peptide TemplatesCited by: 2
Author(s): Seungpyo Hong, Taesu Chung, Dongsup Kim
Software Mentions: 2
Published: about 14 years ago
10.1186/s12859-020-03581-8
AllesTM: predicting multiple structural features of transmembrane proteinsCited by: 3
Author(s): Peter Hönigschmid, Stephan Breimann, Martina Weigl, Dmitrij Frishman
Software Mentions: 2
Published: over 4 years ago
10.1038/s41413-020-0085-4
ZBP1 (DAI/DLM-1) promotes osteogenic differentiation while inhibiting adipogenic differentiation in mesenchymal stem cells through a positive feedback loop of Wnt/β-catenin signalingCited by: 19
Author(s): Xuefeng Zhao, Liang Xie, Wang Zhi-yong, Jiongke Wang, Hao Xu, Xianglong Han, Ding Bai, Peng Deng
Software Mentions: 2
Published: over 4 years ago
10.1371/journal.pone.0042173
Specialized Motor-Driven dusp1 Expression in the Song Systems of Multiple Lineages of Vocal Learning BirdsCited by: 43
Author(s): Haruhito Horita, Masahiko Kobayashi, Wan chun Liu, Kotaro Oka, Erich D. Jarvis, Kazuhiro Wada
Software Mentions: 2
Published: over 12 years ago
10.1371/journal.pone.0072153
Reduced Expression of Enac in Placenta Tissues of Patients with Severe Preeclampsia Is Related to Compromised Trophoblastic Cell Migration and Invasion during PregnancyCited by: 17
Author(s): Shan Shan Wang, Guolin He, Yue Yang, Ying Liu, Ruiying Diao, Kai Sheng, Xinghui Liu, Wei Xu
Software Mentions: 2
Published: about 11 years ago
10.1371/journal.pone.0010849
Heterozygosity for Pten Promotes Tumorigenesis in a Mouse Model of MedulloblastomaCited by: 45
Author(s): Robert C. Castellino, Benjamin G. Barwick, Matthew Schniederjan, Meghan C. Buss, Oren J. Becher, Dolores Hambardzumyan, Tobey J. MacDonald, Daniel J. Brat, Donald L. Durden
Software Mentions: 2
Published: over 14 years ago
10.1371/journal.pntd.0002693
Molecular, Immunological, and Biological Characterization of Tityus serrulatus Venom Hyaluronidase: New Insights into Its Role in EnvenomationCited by: 50
Author(s): Carolina Campolina Rebello Horta, Bárbara de Freitas Magalhães, Bárbara Bruna Ribeiro Oliveira-Mendes, Anderson Oliveira do Carmo, Clara Guerra-Duarte, Liza Felicori, Ricardo Andrez Machado-de-Ávila, Carlos Chávez-Olórtegui, Evanguedes Kalapothakis
Software Mentions: 2
Published: over 10 years ago
10.1371/journal.pgen.1009359
α-synuclein impairs autophagosome maturation through abnormal actin stabilizationCited by: 39
Author(s): Satyapriya Sarkar, Abby L. Olsen, Katja Sygnecka, Kelly M. Lohr, Mel Β. Feany
Software Mentions: 2
Published: almost 4 years ago
10.1371/journal.pone.0007316
Insights into the Molecular Basis of L-Form Formation and Survival in Escherichia coliCited by: 57
Author(s): William A. Glover, Yanqin Yang, Yingying Zhang
Software Mentions: 2
Published: about 15 years ago
10.1371/journal.pgen.1009173
Developmental constraint shaped genome evolution and erythrocyte loss in Antarctic fishes following paleoclimate changeCited by: 12
Author(s): Jacob M. Daane, Juliette Auvinet, Alicia Stoebenau, Donald Yergeau, Matthew P. Harris, H. William Detrich
Software Mentions: 2
Published: about 4 years ago
10.1371/journal.pone.0168093
Sparse Coding and Counting for Robust Visual TrackingCited by: 3
Author(s): Risheng Liu, Jing Wang, Xiaoke Shang, Yiyang Wang, Zhixun Su, Yu Cai
Software Mentions: 2
Published: almost 8 years ago
10.3390/vaccines9090986
Multiepitope Proteins for the Differential Detection of IgG Antibodies against RBD of the Spike Protein and Non-RBD Regions of SARS-CoV-2Cited by: 7
Author(s): Larissa Rodrigues Gomes, Andressa da Matta Durans, Paloma Napoleão-Pêgo, Jessica A. Waterman, Mariana S. Freitas, Nathalia Beatriz Ramos de Sá, Lilian V. Pereira, Jéssica S. Furtado, Romário G. Aquino, Mario C. R. Machado, Natalia Fintelman‐Rodrigues, Thiago Moreno L. Souza, Carlos Médicis Morel, David William Provance, Salvatore Giovanni De-Simone
Software Mentions: 2
Published: about 3 years ago
10.7717/peerj.5798
Proteorhodopsins dominate the expression of phototrophic mechanisms in seasonal and dynamic marine picoplankton communitiesCited by: 19
Author(s): Ella T. Sieradzki, Jed A. Fuhrman, Sara Rivero‐Calle, Laura Gómez‐Consarnau
Software Mentions: 2
Published: about 6 years ago
10.3389/fcimb.2021.656421
Aptamers: An Emerging Tool for Diagnosis and Therapeutics in TuberculosisCited by: 12
Author(s): Shruti Srivastava, Philip Abraham, Sangita Mukhopadhyay
Software Mentions: 2
Published: over 3 years ago
10.1172/jci.insight.97228
PTEN deficiency promotes pathological vascular remodeling of human coronary arteriesCited by: 25
Author(s): Karen S. Moulton, Marcella Li, Keith A. Strand, Shawna Burgett, Penn McClatchey, Rebecca M. Tucker, Seth B. Furgeson, Sizhao Lu, Bruce E. Kirkpatrick, Joseph C. Cleveland, Raphael A. Nemenoff, Amrut V. Ambardekar, Mary C.M. Weiser‐Evans
Software Mentions: 2
Published: over 6 years ago
10.1155/2015/459393
Effects of rhBMP-2 on Sandblasted and Acid Etched Titanium Implant Surfaces on Bone Regeneration and Osseointegration: Spilt-Mouth Designed Pilot StudyCited by: 13
Author(s): Nam Ho Kim, So Hyoun Lee, Jae Jun Ryu, Kyung Hee Choi, Jung-Bo Huh
Software Mentions: 1
Published: almost 10 years ago
10.1155/2015/843743
Tyrosine 705 Phosphorylation of STAT3 Is Associated with Phenotype Severity in TGF<i>β</i>1 Transgenic MiceCited by: 11
Author(s): Eleonora Guadagnin, Jigna Narola, Carsten G. Bönnemann, Yiwen Chen
Software Mentions: 1
Published: almost 10 years ago
10.1186/1471-2121-8-32
Ubiquitin conjugating enzymes participate in polyglutamine protein aggregationCited by: 18
Author(s): Rebecca A. Howard, Pratima Sharma, Connie Hajjar, Kim A. Caldwell, Rusla du Breuil, Rhonda Moore, Lynn Boyd
Software Mentions: 1
Published: over 17 years ago
10.1186/s40659-018-0161-z
In vitro chemokine (C-C motif) receptor 6-dependent non-inflammatory chemotaxis during spermatogenesisCited by: 7
Author(s): Ruiying Diao, Xueyong Cai, Lu Liu, Liang Yang, Yong‐Gang Duan, Zhiming Cai, Yaoting Gui, Lisha Mou
Software Mentions: 1
Published: over 6 years ago
10.1242/bio.014415
Thyroid bud morphogenesis requires CDC42- and SHROOM3-dependent apical constrictionCited by: 8
Author(s): David A.F. Loebel, Timothy F. Plageman, Theresa L. Tang, Vanessa Jones, Maria Muccioli, Patrick Tam
Software Mentions: 1
Published: almost 9 years ago
10.1186/1471-2121-9-40
Viscoelastic behaviour of human mesenchymal stem cellsCited by: 83
Author(s): Samuel Chun Wei Tan, Wen X Pan, Gang Ma, Nian Cai, Kam W. Leong, Kin Liao
Software Mentions: 1
Published: over 16 years ago
10.1186/1471-2091-8-29
Binding to DPF-motif by the POB1 EH domain is responsible for POB1-Eps15 interactionCited by: 18
Author(s): Elena Santonico, Simona Panni, Mattia Falconi, Luisa Castagnoli, Gianni Cesareni
Software Mentions: 1
Published: almost 18 years ago
10.1186/s12993-015-0075-7
Thrombin-induced microglial activation impairs hippocampal neurogenesis and spatial memory ability in miceCited by: 39
Author(s): Yuan Yang, Meikui Zhang, Xiaoni Kang, Jiang Chen, Huan Zhang, Pei Wang, Jingjing Li
Software Mentions: 1
Published: about 9 years ago
10.1186/1471-2482-5-1
Resorbable screws versus pins for optimal transplant fixation (SPOT) in anterior cruciate ligament replacement with autologous hamstring grafts: rationale and design of a randomized, controlled, patient and investigator blinded trial [ISRCTN17384369]Cited by: 12
Author(s): Dirk Stengel, G. Matthes, Julia Seifert, Volker Tober, Sven Mutze, G. Rademacher, Axel Ekkernkamp, Kai Bauwens, M. Wich, D. Casper
Software Mentions: 1
Published: over 19 years ago
10.1186/1471-2121-7-32
The fission yeast DNA structure checkpoint protein Rad26ATRIP/LCD1/UVSD accumulates in the cytoplasm following microtubule destabilizationCited by: 8
Author(s): Erin E. Baschal, Kuan J Chen, Lee G Elliott, Matthew Herring, Shawn C Verde, Tom D. Wolkow
Software Mentions: 1
Published: about 18 years ago
10.1186/s13104-015-1206-9
Inactivation of Escherichia coli O157:H7 and Listeria monocytogenes in biofilms by pulsed ultraviolet lightCited by: 23
Author(s): Nedra Louisa Montgomery, Pratik Banerjee
Software Mentions: 1
Published: over 9 years ago
10.1186/1471-2407-10-256
Immunophenotypic features of tumor infiltrating lymphocytes from mammary carcinomas in female dogs associated with prognostic factors and survival ratesCited by: 81
Author(s): Alessandra Estrela‐Lima, Márcio Sobreira Silva Araújo, João Moreira da Costa-Neto, Andréa Teixeira-Carvalho, Stella Maria Barrouin‐Melo, Sérgio Vitorino Cardoso, Olindo Assis Martins‐Filho, Rogéria Serákides, Geovanni Dantas Cassali
Software Mentions: 1
Published: over 14 years ago
10.1186/ar2301
Microarray gene expression profiling of osteoarthritic bone suggests altered bone remodelling, WNT and transforming growth factor-β/bone morphogenic protein signallingCited by: 167
Author(s): Blair Hopwood, Anna Tsykin, David M. Findlay, Nicola L. Fazzalari
Software Mentions: 1
Published: almost 18 years ago