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: TESS
https://packages.ecosyste.ms/registries/cran.r-project.org/packages/TESS
Diversification Rate Estimation and Fast Simulation of
Reconstructed Phylogenetic Trees under Tree-Wide
Time-Heterogeneous Birth-Death Processes Including
Mass-Extinction Events
8 versions
Latest release: over 2 years ago
3 dependent packages
450 downloads last month
Papers Mentioning TESS 359
10.1186/1471-2199-12-31
Analysis of the regulation of fatty acid binding protein 7 expression in human renal carcinoma cell linesCited by: 15
Author(s): Naohisa Takaoka, Tatsuya Takayama, Takumi Teratani, Tetsuya Sugiyama, Soichi Mugiya, Seiichiro Ozono
Software Mentions: 1
Published: over 13 years ago
10.1186/1471-2199-7-7
Cooperation between MEF2 and PPARγ in human intestinal β,β-carotene 15,15'-monooxygenase gene expressionCited by: 40
Author(s): Xiaoming Gong, Shelun Tsai, Bingfang Yan, Lewis P. Rubin
Software Mentions: 1
Published: over 18 years ago
10.1186/1471-2199-7-10
Sp1/3 and NF-1 mediate basal transcription of the human P2X1 gene in megakaryoblastic MEG-01 cellsCited by: 9
Author(s): Jiangqin Zhao, Steven J. Ennion
Software Mentions: 1
Published: over 18 years ago
10.1186/1471-2199-7-27
Hypoxia induces telomerase reverse transcriptase (TERT) gene expression in non-tumor fish tissues in vivo: the marine medaka (Oryzias melastigma) modelCited by: 52
Author(s): Richard Man Kit Yu, Eric Xh H. Chen, Richard Yuen Chong Kong, P. C. Ng, H.O.L. Mok, Doris W.T. Au
Software Mentions: 1
Published: about 18 years ago
10.1186/1471-2199-8-89
Transcriptional regulation of human eosinophil RNases by an evolutionary- conserved sequence motif in primate genomeCited by: 5
Author(s): Hsiu Yu Wang, Hao Teng Chang, Tun‐Wen Pai, Chung I. Wu, Yuan Hung Lee, Yen Hsin Chang, Hsiu Ling Tai, Chuan Yi Tang, Wei Yao Chou, Ming Che Chang
Software Mentions: 1
Published: almost 18 years ago
10.1186/s12891-016-1235-0
Anatomic stemless shoulder arthroplasty and related outcomes: a systematic reviewCited by: 64
Author(s): Nael Hawi, Mark Tauber, Michael J. Messina, Peter Habermeyer, Frank Martetschläger
Software Mentions: 1
Published: about 8 years ago
10.1186/s12891-017-1570-9
Distal femoral replacement with the MML system: a single center experience with an average follow-up of 86 monthsCited by: 23
Author(s): Andreas Toepfer, Norbert Harrasser, Paul-Ruben Schwarz, Florian Pohlig, Ulrich Lenze, Heinrich Mühlhofer, Ludger Gerdesmeyer, R. von Eisenhart-Rothe, Christian Suren
Software Mentions: 1
Published: over 7 years ago
10.1186/s12886-016-0309-y
CpG site methylation in CRYAA promoter affect transcription factor Sp1 binding in human lens epithelial cellsCited by: 18
Author(s): Xin Liu, Peng Zhou, Fan Fan, Dan Li, Jihong Wu, Yi Lü, Yi Luo
Software Mentions: 1
Published: over 8 years ago
10.1186/1471-2229-10-121
Adaptation and diversity along an altitudinal gradient in Ethiopian barley (Hordeum vulgare L.) landraces revealed by molecular analysisCited by: 52
Author(s): Tesema Tanto Hadado, Domenico Rau, Elena Bitocchi, Roberto Papa
Software Mentions: 1
Published: over 14 years ago
10.1186/1744-9081-8-23
Variation in regulator of G-protein signaling 17 gene (RGS17) is associated with multiple substance dependence diagnosesCited by: 14
Author(s): Huiping Zhang, Fan Wang, Henry R. Kranzler, Raymond F. Anton, Joel Gelernter
Software Mentions: 1
Published: almost 13 years ago
10.1186/s40659-015-0013-z
Sox2 function as a negative regulator to control HAMP expressionCited by: 1
Author(s): Bin Song, Qian Bian, Chenghao Shao, An-An Liu, Jing Wei, Rui Li, Yijie Zhang, Yingqi Zhou, Gang Li, Gang Jin
Software Mentions: 1
Published: over 9 years ago
10.3390/brainsci9100261
Short- and Mid-Term Improvement of Postural Balance after a Neurorehabilitation Program via Hippotherapy in Patients with Sensorimotor Impairment after Cerebral Palsy: A Preliminary Kinetic ApproachCited by: 12
Author(s): Hélène Viruega, Inès Gaillard, J. Jeffrey Carr, Bill Greenwood, Moisés Gaviria
Software Mentions: 1
Published: about 5 years ago
10.1186/s13058-014-0505-8
Cancer progression by breast tumors with Pit-1-overexpression is blocked by inhibition of metalloproteinase (MMP)-13Cited by: 16
Author(s): Juan Sendón-Lago, Samuel Seoane, Noemí Eiró, María A. Bermúdez, Manuel Macı́a, Tomás Garcı́a-Caballero, F Vizoso, Román Perez-Fernandez
Software Mentions: 1
Published: almost 10 years ago
10.1093/bib/bby061
Recent applications of deep learning and machine intelligence on in silico drug discovery: methods, tools and databasesCited by: 274
Author(s): Ahmet Süreyya Rifaioglu, Heval Ataş, Maria Jesus Martin, Rengül Cetin-Atalay, Volkan Atalay, Tunca Doğan
Software Mentions: 1
Published: over 6 years ago
10.5830/CVJA-2016-001
Correlation analysis between ApoM gene-promoter polymorphisms and coronary heart diseaseCited by: 5
Author(s): Yao Zhang, Lingxia Huang, Qingling Yang, Yan Liu, Xin Zhou
Software Mentions: 1
Published: about 8 years ago
10.1186/1475-2875-7-246
Evaluation of the efficacy and safety of artemether-lumefantrine in the treatment of acute uncomplicated Plasmodium falciparum malaria in Nigerian infants and childrenCited by: 17
Author(s): Catherine O. Falade, O. O. Ogunkunle, Hannah Dada-Adegbola, Adegoke G Falade, Patricia Palacios, Phillip R. Hunt, Mailis Virtanen, A. M. J. Oduola, L.A. Salako
Software Mentions: 1
Published: almost 16 years ago
10.1186/s12936-018-2594-9
A new approach to gathering pharmaceutical market data to support policy implementation and access to medicines: as demonstrated by malaria medicines in ZambiaCited by: 1
Author(s): Renia Coghlan, Peter Stephens, Bernice Mwale, Makomani Siyanga
Software Mentions: 1
Published: almost 6 years ago
10.1186/s40779-015-0044-3
Emergency response to nuclear, biological and chemical incidents: challenges and countermeasuresCited by: 7
Author(s): Hailong Li, Wenjun Tang, Ya-Kun Ma, Ji-Min Jia, Dang Rong-li, Qiu Erchen
Software Mentions: 1
Published: about 9 years ago
10.1007/s11033-012-1689-6
Effects of new polymorphisms in the bovine myocyte enhancer factor 2D (MEF2D) gene on the expression rates of the longissimus dorsi muscleCited by: 8
Author(s): Edyta Juszczuk-Kubiak, Rafał R. Starzyński, T. Sakowski, K. Wicińska, Krzysztof Flisikowski
Software Mentions: 1
Published: over 12 years ago
10.1007/s11033-016-3969-z
Pig fatness in relation to FASN and INSIG2 genes polymorphism and their transcript levelCited by: 20
Author(s): Maria Grzes, Sławomir Sadkowski, K. Rzewuska, M. Szydłowski, M. Świtoński
Software Mentions: 1
Published: over 8 years ago
10.1007/s11033-012-2161-3
Allelic gene expression imbalance of bovine IGF2, LEP and CCL2 genes in liver, kidney and pituitaryCited by: 12
Author(s): Rafał Olbromski, E. Siadkowska, Beata Żelazowska, L. Zwierzchowski
Software Mentions: 1
Published: almost 12 years ago
10.1186/1476-4598-12-53
Over-expression of BCAT1, a c-Myc target gene, induces cell proliferation, migration and invasion in nasopharyngeal carcinomaCited by: 118
Author(s): Wen Zhou, Xiangling Feng, Chao Ren, Xingjun Jiang, Weidong Liu, Wei Huang, Zhihong Liu, Zan Li, Liang Zeng, Lei Wang, Bin Zhu, Jia Song, Jie Liu, Chang Zhang, Yanyu Liu, Kangde Yao
Software Mentions: 1
Published: over 11 years ago
10.1007/s00508-021-01865-4
Cross-cultural adaption, translation and validation of the Toronto extremity salvage score (TESS) for patients in German-speaking countriesCited by: 4
Author(s): Carmen Trost, Christoph K. Hofer, Tanja Stamm, Reinhard Windhager, Gerhard M. Hobusch
Software Mentions: 1
Published: over 3 years ago
10.1038/s41390-020-0768-y
Prevalence and stability of insufficient sleep measured by actigraphy: a prospective community studyCited by: 8
Author(s): Bror M. Ranum, Lars Wichstrøm, Ståle Pallesen, Silje Steinsbekk
Software Mentions: 1
Published: almost 5 years ago
10.7717/peerj.1901
Fine scale patterns of genetic partitioning in the rediscovered African crocodile,<i>Crocodylus suchus</i>(Saint-Hilaire 1807)Cited by: 15
Author(s): Seth W. Cunningham, Matthew H. Shirley, Evon R. Hekkala
Software Mentions: 1
Published: over 8 years ago
10.7717/peerj.3163
Glacial allopatry vs. postglacial parapatry and peripatry: the case of hedgehogsCited by: 18
Author(s): Barbora Černá Bolfíková, Kristýna Eliášová, Miroslava Loudová, Boris Kryštufek, Petros Lymberakis, Attila D. Sándor, Pavel Hulva
Software Mentions: 1
Published: over 7 years ago
10.7717/peerj.7780
Population genetics and historical demographic inferences of the blue crab<i>Callinectes sapidus</i>in the US based on microsatellitesCited by: 11
Author(s): Danielle Carter de Macedo, Isabel Caballero, Mariana Mateos, Raphaël Leblois, Shelby D. McCay, Luis A. Hurtado
Software Mentions: 1
Published: about 5 years ago
10.1098/rsta.2013.0077
Galactic planetary scienceCited by: 3
Author(s): Giovanna Tinetti
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pgen.0030185
Genetic Variation and Population Structure in Native AmericansCited by: 488
Author(s): Sijia Wang, Cecil M. Lewis, Mattias Jakobsson, Sohini Ramachandran, Nicolas Ray, Gabriel Bedoya, Winston Rojas, María Victoria Parra, Julio Molina, Carla Gallo, Guido Mazzotti, Giovanni Poletti, Kim Hill, Ana Hurtado, Damian Labuda, William Klitz, Ramiro Barrantes, María Cátira Bortolini, Francisco M. Salzano, María Luiza Petzl-Erler, Luiza Tamie Tsuneto, Elena Llop, Francisco Rothhammer, Laurent Excoffier, Marcus W. Feldman, Noah A. Rosenberg, Andrés Ruiz-Linares
Software Mentions: 1
Published: almost 17 years ago
10.1371/journal.pgen.1003557
The Identification of Trans-acting Factors That Regulate the Expression of GDF5 via the Osteoarthritis Susceptibility SNP rs143383Cited by: 51
Author(s): Catherine M. Syddall, Louise N. Reynard, David A. Young, John Loughlin
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pgen.0020215
Low Levels of Genetic Divergence across Geographically and Linguistically Diverse Populations from IndiaCited by: 88
Author(s): Noah A. Rosenberg, Saurabh Mahajan, Catalina Gonzalez‐Quevedo, Michaël G. B. Blum, Laura Nino-Rosales, Vasiliki Ninidu Ninis, Parimal Das, Madhuri Hegde, Laura Molinari, Gladys Zapata, James L. Weber, John W. Belmont, Pragna I. Patel
Software Mentions: 1
Published: almost 19 years ago
10.1371/journal.pone.0136882
Molecular Dissection of the Human Ubiquitin C Promoter Reveals Heat Shock Element Architectures with Activating and Repressive FunctionsCited by: 15
Author(s): Rita Crinelli, Marzia Bianchi, Lucia Radici, Elisa Carloni, Elisa Giacomini, Mauro Magnani
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pone.0190385
Species delimitation in the Stenocereus griseus (Cactaceae) species complex reveals a new species, S. huastecorumCited by: 21
Author(s): Hernán Alvarado‐Sizzo, Alejandro Casas, Fabiola Parra, Hilda Julieta Arreola-Nava, Teresa Terrazas, Cristian Sánchez
Software Mentions: 1
Published: almost 7 years ago
10.1371/journal.pone.0052380
δEF1 Down-Regulates ER-α Expression and Confers Tamoxifen Resistance in Breast CancerCited by: 17
Author(s): Shaocong Guo, Yaqing Li, Ting Qi, Feng Gu, Tianhui Zhu, Li Fu, Shuang Yang
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0084184
Likelihood Inference of Non-Constant Diversification Rates with Incomplete Taxon SamplingCited by: 46
Author(s): Sebastian Höhna
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0144851
The Expression of Porcine Prdx6 Gene Is Up-Regulated by C/EBPβ and CREBCited by: 17
Author(s): Xinyu Wu, Panlong Ji, Liang Zhang, Guowei Bu, Hao Gu, Xiaojing Wang, Yan Xiong, Bo Zuo
Software Mentions: 1
Published: almost 9 years ago
10.1371/journal.pone.0185309
Genetic structure of brown pelicans (Pelecanus occidentalis) in the northern Gulf of Mexico in the context of human management and disturbanceCited by: 1
Author(s): Brock Geary, Susan M. Longest, Kym Ottewell, Samantha M. Lantz, Scott T. Walter, Jordan Karubian, Paul L. Leberg
Software Mentions: 1
Published: about 7 years ago
10.1371/journal.pone.0031158
Identification of Transcription Factors Regulating CTNNAL1 Expression in Human Bronchial Epithelial CellsCited by: 12
Author(s): Yang Xiang, Xiaoqun Qin, Huijun Liu, Yurong Tan, Chi Liu, Caixia Liu
Software Mentions: 1
Published: almost 13 years ago
10.1371/journal.pone.0092899
Measuring Exposure in Hurricane Katrina: A Meta-Analysis and an Integrative Data AnalysisCited by: 58
Author(s): Christian S. Chan, Jean E. Rhodes
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0093038
Strong Phylogeographic Structure in a Millipede Indicates Pleistocene Vicariance between Populations on Banded Iron Formations in Semi-Arid AustraliaCited by: 13
Author(s): Heidi Nistelberger, Margaret Byrne, David Coates, J. Dale Roberts
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0079043
Genetic and Metabolite Diversity of Sardinian Populations of Helichrysum italicumCited by: 38
Author(s): Sara Melito, Angela Sias, Giacomo Luigi Petretto, Mario Chessa, Giorgio Antonio Mario Pintore, Andrea Porceddu
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0167104
Genetic Structure in the Northern Range Margins of Common Ash, Fraxinus excelsior L.Cited by: 12
Author(s): Mari Mette Tollefsrud, Tor Myking, Jørn Henrik Sønstebø, Vaidotas Lygis, Ari M. Hietala, Myriam Heuertz
Software Mentions: 1
Published: almost 8 years ago
10.1371/journal.pone.0084062
Regulation of c-Fos Gene Expression by NF-κB: A p65 Homodimer Binding Site in Mouse Embryonic Fibroblasts but Not Human HEK293 CellsCited by: 18
Author(s): Yong Kwang Tu, Duen Yi Huang, Shine-Gwo Shiah, Jang Shiun Wang, Wan-Wan Lin
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0021333
Transcriptional Activation of TINF2, a Gene Encoding the Telomere-Associated Protein TIN2, by Sp1 and NF-κB FactorsCited by: 5
Author(s): Zhong Xin, Kathryn A. Carroll, Naveen Kumar, Kyo D. Song, Hinh Ly
Software Mentions: 1
Published: over 13 years ago
10.1371/journal.pone.0059732
Limited Population Structure, Genetic Drift and Bottlenecks Characterise an Endangered Bird Species in a Dynamic, Fire-Prone EcosystemCited by: 27
Author(s): Sarah K. Brown, Katherine A. Harrisson, Rohan H. Clarke, Andrew F. Bennett, Paul Sunnucks
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0011481
Activated Notch1 Target Genes during Embryonic Cell Differentiation Depend on the Cellular Context and Include Lineage Determinants and InhibitorsCited by: 89
Author(s): F Meier-Stiegen, Ralf Schwanbeck, Kristina Bernoth, Simone Martini, Thomas Hieronymus, David Ruau, Martin Zenke, Ursula Just
Software Mentions: 1
Published: over 14 years ago
10.1371/journal.pone.0145484
Dual Specificity Phosphatase 5, a Specific Negative Regulator of ERK Signaling, Is Induced by Serum Response Factor and Elk-1 Transcription FactorCited by: 29
Author(s): C Buffet, Maria-Grazia Catelli, Hecale-Perlemoine Karine, Léopoldine Bricaire, Cédric Garcia, Gallet-Dierick Anne, Stéphanie Rodriguez, Françoise Cormier, Lionel Groussin
Software Mentions: 1
Published: almost 9 years ago
10.1371/journal.pone.0028256
The C Allele of rs5743836 Polymorphism in the Human TLR9 Promoter Links IL-6 and TLR9 Up-Regulation and Confers Increased B-Cell ProliferationCited by: 39
Author(s): Agostinho Carvalho, Nuno S. Osório, Margarida Saraiva, Cristina Cunha, Agostinho J. Almeida, Maria Teixeira‐Coelho, Paula Ludovico, Jorge Pedrosa, Lucia Pitzurra, Franco Aversa, Luigina Romani, António G. Castro, Fernando Rodrigues
Software Mentions: 1
Published: almost 13 years ago
10.1371/journal.pone.0105455
Population Structure of Mountain Pine Beetle Symbiont Leptographium longiclavatum and the Implication on the Multipartite Beetle-Fungi RelationshipsCited by: 13
Author(s): Clement K. M. Tsui, Lina Farfán, Amanda D. Roe, Adrianne V. Rice, Janice E. K. Cooke, Yousry A. El‐Kassaby, Richard Hamelin
Software Mentions: 1
Published: about 10 years ago
10.1371/journal.pone.0131577
The LMO2 -25 Region Harbours GATA2-Dependent Myeloid Enhancer and RUNX-Dependent T-Lymphoid Repressor ActivityCited by: 1
Author(s): Nicolas Bonadies, Berthold Göttgens, Fernando J. Calero-Nieto
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0010369
Differential Control of Notch1 Gene Transcription by Klf4 and Sp3 Transcription Factors in Normal versus Cancer-Derived KeratinocytesCited by: 38
Author(s): Chiara Lambertini, Serafino Pantano, G. Paolo Dotto
Software Mentions: 1
Published: over 14 years ago
10.1371/journal.pone.0093989
YY1 Acts as a Transcriptional Activator of Hoxa5 Gene Expression in Mouse OrganogenesisCited by: 13
Author(s): Félix-Antoine Bérubé-Simard, Christelle Prudhomme, Lucie Jeannotte
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0069206
Genome Wide Association Analysis of a Founder Population Identified TAF3 as a Gene for MCHC in HumansCited by: 9
Author(s): Giorgio Pistis, Shawntel Okonkwo, Michela Traglia, Cinzia Sala, So Youn Shin, Corrado Masciullo, Iwan Buetti, Roberto Massacane, Massimo Mangino, Swee Lay Thein, Timothy D. Spector, Santhi K. Ganesh, Nicola Pirastu, Paolo Gasparini, Nicole Soranzo, Clara Camaschella, Daniel Hart, Michael R. Green, Daniela Toniolo
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0048611
c-Jun Amino-Terminal Kinase-1 Mediates Glucose-Responsive Upregulation of the RNA Editing Enzyme ADAR2 in Pancreatic Beta-CellsCited by: 22
Author(s): Yang Liu, Ping Huang, Feng Li, Liyun Zhao, Yongliang Zhang, Shoufeng Li, Zhenji Gan, Anning Lin, Wenjun Li, Yong Liu
Software Mentions: 1
Published: about 12 years ago
10.1371/journal.pone.0082464
Back from the Brink: The Holocene History of the Carpathian Barbel Barbus carpathicusCited by: 5
Author(s): Maciej K. Konopiński, Antoni Amirowicz, Petr Kotlı́k, Krzysztof Kukuła, Aneta Bylak, Ladislav Pekárik, Alena Šedivá
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0012883
Antibacterial and Antiviral Roles of a Fish β-Defensin Expressed Both in Pituitary and TestisCited by: 93
Author(s): Junyan Jin, Li Zhou, Yang Wang, Zhi Li, Jianmin Zhao, Qi-Ya Zhang, Jian‐Fang Gui
Software Mentions: 1
Published: almost 14 years ago
10.1371/journal.pone.0160525
AP-1 Inhibition by SR 11302 Protects Human Hepatoma HepG2 Cells from Bile Acid-Induced Cytotoxicity by Restoring the NOS-3 ExpressionCited by: 9
Author(s): Sandra González-Rubio, Clara I. Linares, Patricia Aguilar-Melero, Manuel Rodríguez‐Perálvarez, José Luis Montero-Álvarez, Manuel de la Mata, Gustavo Ferrín
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0171584
Bayesian population structure analysis reveals presence of phylogeographically specific sublineages within previously ill-defined T group of Mycobacterium tuberculosisCited by: 5
Author(s): Yann Reynaud, Chang‐Ji Zheng, Guihui Wu, Qun Sun, Nalin Rastogi
Software Mentions: 1
Published: almost 8 years ago