pypi: package | Projects | Ecosyste.ms: Papers

10.1371/journal.pone.0182533

A survey of the mycobiota associated with larvae of the black soldier fly (Hermetia illucens) reared for feed production
Cited by: 73
Author(s): Ilaria Varotto-Boccazzi, M. Ottoboni, Elena Martín, Francesco Comandatore, L. Vallone, Thomas Spranghers, Mia Eeckhout, Valeria Mereghetti, L. Pinotti, Sara Epis
Software Mentions: 3
Published: about 9 years ago

10.1371/journal.pmed.1003062

Evaluating the relationship between circulating lipoprotein lipids and apolipoproteins with risk of coronary heart disease: A multivariable Mendelian randomisation analysis
Cited by: 371
Author(s): Tom G Richardson, Eleanor Sanderson, Tom Palmer, Mika Ala‐Korpela, Brian А. Ference, George Davey Smith, Michael V Holmes
Software Mentions: 3
Published: over 6 years ago

10.1002/jcp.29046

Identification of methylation‐driven genes related to prognosis in clear‐cell renal cell carcinoma
Cited by: 11
Author(s): Jia Wang, Qiujing Zhang, Qingqing Zhu, Chengxiang Li, Xueli Nan, Fuxia Wang, Lihua Fang, Jie Liu, Chao Xie, Shuai Fu, Bao-Liang Song
Software Mentions: 3
Published: about 7 years ago

10.1002/ece3.3505

Residence time, native range size, and genome size predict naturalization among angiosperms introduced to Australia
Cited by: 9
Author(s): John P. Schmidt, John M. Drake, Patrick R. Stephens
Software Mentions: 3
Published: almost 9 years ago

10.1186/s12933-021-01299-2

Metabolic syndrome and the plasma proteome: from association to causation
Cited by: 16
Author(s): Mohamed A. Elhadad, Rory Wilson, Shaza B. Zaghlool, Cornelia Huth, Christian Gieger, Harald Grallert, Johannes Graumann, Wolfgang Rathmann, Wolfgang Köenig, Moritz F. Sinner, Kristian Hveem, Karsten Suhre, Barbara Thorand, Christian Jonasson, Mélanie Waldenberger, Annette Peters
Software Mentions: 3
Published: over 5 years ago

10.1186/2049-3002-2-18

Metabolic reprogramming induced by ketone bodies diminishes pancreatic cancer cachexia
Cited by: 179
Author(s): Surendra K. Shukla, Teklab Gebregiworgis, Vinee Purohit, Nina V. Chaika, Venugopal Gunda, Prakash Radhakrishnan, Kamiya Mehla, Iraklis I. Pipinos, Robert Powers, Fang Yu, Pankaj K. Singh
Software Mentions: 3
Published: about 12 years ago

10.1371/journal.pmed.1003765

Impact of color-coded and warning nutrition labelling schemes: A systematic review and network meta-analysis
Cited by: 62
Author(s): Jieqiong Song, Mhairi K. Brown, Monique Tan, Graham A. MacGregor, Jacqui Webster, Norm R.C. Campbell, Kathy Trieu, Cliona Ní Mhurchú, Laura K. Cobb, Feng J He
Software Mentions: 3
Published: almost 5 years ago

10.1155/2020/5314187

To Probe Full and Partial Activation of Human Peroxisome Proliferator-Activated Receptors by Pan-Agonist Chiglitazar Using Molecular Dynamics Simulations
Cited by: 6
Author(s): Holli-Joi Sullivan, Xiaoyan Wang, Shaina Nogle, Susan Liao, Chun Wu
Software Mentions: 3
Published: over 6 years ago

10.1002/cam4.1107

Comparative proteomic profiling of the serum differentiates pancreatic cancer from chronic pancreatitis
Cited by: 34
Author(s): Mayank Saraswat, Sakari Joenväärä, Hanna Seppänen, Harri Mustonen, Caj Haglund, Risto Renkonen
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pntd.0008131

Potential distributions of Bacillus anthracis and Bacillus cereus biovar anthracis causing anthrax in Africa
Cited by: 26
Author(s): Daniel Romero-Álvarez, A. Townsend Peterson, Johanna S. Salzer, Claudia Pittiglio, Sean V. Shadomy, Rita M. Traxler, Antonio Vieira, William A. Bower, Henry Walke, Lindsay P. Campbell
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0131075

Regional Variation in Parasite Species Richness and Abundance in the Introduced Range of the Invasive Lionfish, Pterois volitans
Cited by: 29
Author(s): Andrew J. Sellers, Gregory M. Ruiz, Brian Leung, Mark E. Torchin
Software Mentions: 3
Published: about 11 years ago

10.1111/joa.13437

Cortical and trabecular bone structure of the hominoid capitate
Cited by: 12
Author(s): Emma E. Bird, Tracy L. Kivell, Matthew M. Skinner
Software Mentions: 3
Published: over 5 years ago

10.1002/cam4.961

Nonpromoter methylation of the CDKN2A gene with active transcription is associated with improved locoregional control in laryngeal squamous cell carcinoma
Cited by: 12
Author(s): Miriam M. Ben-Dayan, Thomas J. Ow, Thomas J. Belbin, Joshua Wetzler, Richard V. Smith, Geoffrey Childs, Brenda Diergaarde, D. Neil Hayes, Jennifer R. Grandis, Michael B. Prystowsky, Nicolas F. Schlecht
Software Mentions: 3
Published: over 9 years ago

10.1186/s12859-020-03592-5

Methylation data imputation performances under different representations and missingness patterns
Cited by: 11
Author(s): Pietro Di Lena, Claudia Sala, Andrea Prodi, Christine Nardini
Software Mentions: 3
Published: about 6 years ago

10.1002/prot.25094

FF12MC: A revised AMBER forcefield and new protein simulation protocol
Cited by: 34
Author(s): Yuan Ping Pang
Software Mentions: 3
Published: about 10 years ago

10.1002/pmic.201700388

Integrative Analysis of Proteome and Ubiquitylome Reveals Unique Features of Lysosomal and Endocytic Pathways in Gefitinib‐Resistant Non‐Small Cell Lung Cancer Cells
Cited by: 19
Author(s): Wang Li, Heyong Wang, Yan Yang, Tian Zhao, Zhixiong Zhang, Ye Tian, Zhaomie Shi, Xiaojun Peng, Fēi Li, Yonghong Feng, Lei Zhang, Gening Jiang, Fan Zhang
Software Mentions: 3
Published: about 8 years ago

10.1111/2041-210X.12246

Effects of phylogenetic reconstruction method on the robustness of species delimitation using single‐locus data
Cited by: 169
Author(s): Cuong Q. Tang, Aelys M. Humphreys, Diego Fontaneto, Timothy G. Barraclough
Software Mentions: 3
Published: almost 12 years ago

10.1038/s41597-020-00702-z

LCVP, The Leipzig catalogue of vascular plants, a new taxonomic reference list for all known vascular plants
Cited by: 47
Author(s): Martin Freiberg, Marten Winter, Alessandro Gentile, Alexander Zizka, Alexandra N. Muellner‐Riehl, Alexandra Weigelt, Christian Wirth
Software Mentions: 3
Published: almost 6 years ago

10.1186/1471-2105-11-315

μ-CS: An extension of the TM4 platform to manage Affymetrix binary data
Cited by: 43
Author(s): Pietro Hiram Guzzi, Mario Cannataro
Software Mentions: 3
Published: about 16 years ago

10.1186/s12859-016-0885-0

Deciphering transcriptional regulations coordinating the response to environmental changes
Cited by: 1
Author(s): Vicente Acuña, Andrés Aravena, Carito Guziołowski, Damien Eveillard, Anne Siegel, Alejandro Maass
Software Mentions: 3
Published: over 10 years ago

10.1038/s41408-020-0320-7

“Direct to Drug” screening as a precision medicine tool in multiple myeloma
Cited by: 18
Author(s): Cecília Bonolo de Campos, Nathalie Meurice, Joachim Petit, Alysia Polito, Yuan Xiao Zhu, Panwen Wang, Laura A. Bruins, Xuewei Wang, Ilsel D Lopez Armenta, Susie A. Darvish, Greg Ahmann, Kimberly J. Henderson, Shulan Tian, Jonas Kruse, William Stewart, Jeremy T. Larsen, Craig B. Reeder, David Dingli, Prashant Kapoor, Shaji Kumar, Rafaël Fonseca, P. Leif Bergsagel, Esteban Braggio, A. Keith Stewart
Software Mentions: 3
Published: over 6 years ago

10.1099/mgen.0.000154

Comparative transcriptomics of Aspergillus fumigatus strains upon exposure to human airway epithelial cells
Cited by: 16
Author(s): Tonya Watkins, Hong Liu, Matthew Chung, Tracy H. Hazen, Julie C. Dunning Hotopp, Scott G. Filler, Vincent M. Bruno
Software Mentions: 3
Published: over 8 years ago

10.1038/srep24180

Population Dynamics of Bulking and Foaming Bacteria in a Full-scale Wastewater Treatment Plant over Five Years
Cited by: 21
Author(s): Xiaotao Jiang, Feng Guo, Tong Zhang
Software Mentions: 3
Published: over 10 years ago

10.1002/ece3.6159

Canadian polar bear population structure using genome‐wide markers
Cited by: 8
Author(s): Evelyn L. Jensen, Christina Tschritter, Peter van Coeverden de Groot, Kristen M. Hayward, Marsha Branigan, Markus Dyck, Rute B. G. Clemente-Carvalho
Software Mentions: 3
Published: over 6 years ago

10.1002/bit.26891

Epigenetic regulation of gene expression in Chinese Hamster Ovary cells in response to the changing environment of a batch culture
Cited by: 35
Author(s): Inmaculada Hernández, Heena Dhiman, Gerald Klanert, Vaibhav Jadhav, Norbert Auer, Michael Hanscho, Martina Baumann, Anna Esteve‐Codina, Marc Dabad, Jessica Gómez, Tyler Alioto, Angelika Merkel, Emanuele Raineri, Simon Heath, Daniel Rico, Nicole Borth
Software Mentions: 3
Published: over 7 years ago

10.3390/biom11030458

A Molecular Modeling Approach to Identify Potential Antileishmanial Compounds Against the Cell Division Cycle (cdc)-2-Related Kinase 12 (CRK12) Receptor of Leishmania donovani
Cited by: 18
Author(s): Emmanuel Broni, Samuel K. Kwofie, Seth O. Asiedu, Whelton A. Miller, Michael D. Wilson
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-018-24508-7

Tracing of the fecal microbiota of commercial pigs at five growth stages from birth to shipment
Cited by: 72
Author(s): Geon Goo Han, Jun-Yeong Lee, Gwi-Deuk Jin, Jongbin Park, Yo Han Choi, Seoung-Hun Kang, B. J. Chae, Eun Bae Kim, Yun‐Jaie Choi
Software Mentions: 3
Published: over 8 years ago

10.1038/s41598-018-27474-2

A Canonical Biophysical Model of the CsrA Global Regulator Suggests Flexible Regulator-Target Interactions
Cited by: 7
Author(s): Abigail N. Leistra, Grant Gelderman, Steven W. Sowa, Alex Moon-Walker, Howard M. Salis, Lydia M. Contreras
Software Mentions: 3
Published: about 8 years ago

10.1155/2020/7510120

Identification of Prognostic Immune Genes in Bladder Urothelial Carcinoma
Cited by: 2
Author(s): Qingde Su, Yan Sun, Zunni Zhang, Zheng Yang, Yuling Qiu, Xiaohong Li, Wuning Mo
Software Mentions: 3
Published: over 6 years ago

10.1155/2015/690873

Bioinformatics Methods and Biological Interpretation for Next-Generation Sequencing Data
Cited by: 7
Author(s): Guohua Wang, Yunlong Liu, Dongxiao Zhu, Gunnar W. Klau, Weixing Feng
Software Mentions: 3
Published: over 11 years ago

10.1038/s41598-018-32514-y

Agricultural landscapes and the Loire River influence the genetic structure of the marbled newt in Western France
Cited by: 5
Author(s): Jean‐Marc Costanzi, Pascal Mège, Alexandre Boissinot, Françis Isselin-Nondedeu, Sarah M. Guérin, Olivier Lourdais, Audrey Trochet, Quentin Le Petitcorps, Agathe Legrand, François Varenne, Pierre Antoine Grillet, Sophie Morin-Pinaud, Damien Picard
Software Mentions: 3
Published: almost 8 years ago

10.1186/1471-2105-12-S1-S36

Integrated metabolome and transcriptome analysis of the NCI60 dataset
Cited by: 37
Author(s): Gang Su, Charles F. Burant, Christopher W.W. Beecher, Brian D. Athey, Fan Meng
Software Mentions: 3
Published: over 15 years ago

10.3390/biology9100315

Phenotypic Responses, Reproduction Mode and Epigenetic Patterns under Temperature Treatments in the Alpine Plant Species Ranunculus kuepferi (Ranunculaceae)
Cited by: 9
Author(s): Eleni Syngelaki, Mareike Daubert, Simone Klatt, Elvira Hörandl
Software Mentions: 3
Published: almost 6 years ago

10.7554/eLife.02407

Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons
Cited by: 464
Author(s): Iris Jonkers, Ho Young Kwak, John T. Lis
Software Mentions: 3
Published: over 12 years ago

10.1038/s41598-018-33693-4

RNA sequencing and de novo assembly of Solanum trilobatum leaf transcriptome to identify putative transcripts for major metabolic pathways
Cited by: 17
Author(s): Adil Lateef, Sudheesh K. Prabhudas, Purushothaman Natarajan
Software Mentions: 3
Published: almost 8 years ago

10.1098/rsbl.2016.0432

Behavioural adaptations to flight into thin air
Cited by: 22
Author(s): Sherub Sherub, Gil Bohrer, Martin Wikelski, Rolf Weinzierl
Software Mentions: 3
Published: almost 10 years ago

10.1093/gbe/evw077

“Every Gene Is Everywhere but the Environment Selects”: Global Geolocalization of Gene Sharing in Environmental Samples through Network Analysis
Cited by: 80
Author(s): Marco Fondi, Antti Karkman, Manu Tamminen, Emanuele Bosi, Marko Virta, Renato Fani, Eric J. Alm, James O. McInerney
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0199461

A common molecular signature of patients with sickle cell disease revealed by microarray meta-analysis and a genome-wide association study
Cited by: 10
Author(s): Cherif Ben Hamda, Raphael Zozimus Sangeda, Liberata Mwita, Ayton Meintjes, Siana Nkya, Sumir Panji, Nicola Mulder, Lamia Guizani-Tabbane, Alia Benkahla, Julie Makani, Kaïs Ghedira
Software Mentions: 3
Published: about 8 years ago

10.18632/aging.202775

Male-specific age estimation based on Y-chromosomal DNA methylation
Cited by: 11
Author(s): Athina Vidaki, Diego Montiel González, Benjamin Planterose Jiménez, Manfred Kayser
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-018-36300-8

Robust in-silico identification of Cancer Cell Lines based on RNA and targeted DNA sequencing data
Cited by: 1
Author(s): Raik Otto, Jan-Niklas Rössler, Christine Sers, Soulafa Mamlouk, Ulf Leser
Software Mentions: 3
Published: over 7 years ago

10.1186/s12859-020-3500-3

circRNAprofiler: an R-based computational framework for the downstream analysis of circular RNAs
Cited by: 16
Author(s): Simona Aufiero, Yolan J. Reckman, Anke J. Tijsen, Yigal M. Pinto, Esther E. Creemers
Software Mentions: 3
Published: over 6 years ago

10.1186/s40560-021-00539-7

Association of noninvasive respiratory support with mortality and intubation rates in acute respiratory failure: a systematic review and network meta-analysis
Cited by: 7
Author(s): Hideto Yasuda, Hiromu Okano, Takuya Mayumi, Masaki Nakane, Nobuaki Shime
Software Mentions: 3
Published: over 5 years ago

10.1007/s13205-014-0251-8

Response of nitrogen-fixing water fern Azolla biofertilization to rice crop
Cited by: 33
Author(s): K. Bhuvaneshwari, Pawan Kumar Singh
Software Mentions: 2
Published: almost 12 years ago

10.18632/aging.101560

Heat-induced longevity in budding yeast requires respiratory metabolism and glutathione recycling
Cited by: 10
Author(s): Marina Musa, Matea Perić, Peter Bou Dib, Sandra Sobočanec, Ana Šarić, Anita Lovrić, Marina Rudan, Andrea R. Nikolić, Ira Milošević, Kristian Vlahoviček, Nuno Raimundo, Anita Kriško
Software Mentions: 2
Published: almost 8 years ago

10.18632/aging.202729

Long non-coding RNA DPP10-AS1 exerts anti-tumor effects on colon cancer via the upregulation of ADCY1 by regulating microRNA-127-3p
Cited by: 14
Author(s): Gang Liu, Hui Zhao, Qiang Song, Guangmeng Li, Shuying Lin, Sheng Xiong
Software Mentions: 2
Published: over 5 years ago

10.18632/aging.104015

Single-cell expression profiles of ACE2 and TMPRSS2 reveals potential vertical transmission and fetus infection of SARS-CoV-2
Cited by: 23
Author(s): Mengdie Lü, Li Qiu, Guangshuai Jia, Rong Guo, Qibin Leng
Software Mentions: 2
Published: almost 6 years ago

10.1002/ajcp.12248

Does Natural Mentoring Matter? A Multilevel Meta‐analysis on the Association Between Natural Mentoring and Youth Outcomes
Cited by: 111
Author(s): Levi van Dam, Dafne Smit, B. Wildschut, Susan Branje, Jean E. Rhodes, Mark Assink, Geert Jan Stams
Software Mentions: 2
Published: over 8 years ago

10.3390/ani10122332

Using Dairy Value Chains to Identify Production Constraints and Biosecurity Risks
Cited by: 5
Author(s): Jaswinder Singh, Balbir Singh, Harish Kumar Tiwari, Harmandeep Singh Josan, Nidhi Jaswal, Manmeet Kaur, Polychronis Kostoulas, Mehar S. Khatkar, Rabinder Singh Aulakh, Jatinder Paul Singh Gill, Navneet K. Dhand
Software Mentions: 2
Published: over 5 years ago

10.1093/aob/mcw108

Breeding system diversification and evolution in AmericanPoasupersect.Homalopoa(Poaceae: Poeae: Poinae)
Cited by: 23
Author(s): Liliana M. Giussani, Lynn J. Gillespie, M. Amalia Scataglini, María A Negritto, Ana M. Antón, Robert J. Soreng
Software Mentions: 2
Published: about 10 years ago

10.1111/ahg.12099

Effectiveness of Shrinkage and Variable Selection Methods for the Prediction of Complex Human Traits using Data from Distantly Related Individuals
Cited by: 14
Author(s): Swetlana Berger, Paulino Pérez‐Rodríguez, Yogasudha Veturi, Henner Simianer, Gustavo de los Campos
Software Mentions: 2
Published: over 11 years ago

10.1002/aps3.11370

Maximizing human effort for analyzing scientific images: A case study using digitized herbarium sheets
Cited by: 10
Author(s): Laura Brenskelle, Robert Guralnick, Michael W. Denslow, Brian J. Stucky
Software Mentions: 2
Published: over 6 years ago

10.1186/1471-2105-12-219

RAG: An update to the RNA-As-Graphs resource
Cited by: 46
Author(s): Joseph A. Izzo, Namhee Kim, Shereef Elmetwaly, Tamar Schlick
Software Mentions: 2
Published: over 15 years ago

10.1186/1471-2105-13-112

Comprehensive data-driven analysis of the impact of chemoinformatic structure on the genome-wide biological response profiles of cancer cells to 1159 drugs
Cited by: 21
Author(s): Suleiman A. Khan, Ali Faisal, John Patrick Mpindi, Juuso Parkkinen, Tuomo Kalliokoski, Antti Poso, Olli Kallioniemi, Krister Wennerberg, Samuel Kaski
Software Mentions: 2
Published: over 14 years ago

10.1186/1471-2105-15-3

Critical assessment of coalescent simulators in modeling recombination hotspots in genomic sequences
Cited by: 15
Author(s): Tao Yang, Hong‐Wen Deng, Tianhua Niu
Software Mentions: 2
Published: over 12 years ago

10.1186/1471-2105-8-S7-S24

ProtQuant: a tool for the label-free quantification of MudPIT proteomics data
Cited by: 47
Author(s): Susan M. Bridges, G Bryce Magee, Nan Wang, W. Paul Williams, Shane C. Burgess, Bindu Nanduri
Software Mentions: 2
Published: almost 19 years ago

10.1186/1471-2105-6-191

Cited by: 47
Author(s): Wei Wu, Eric P. Xing, Connie A. Myers, I. Saira Mian, Mina J. Bissell
Software Mentions: 2
Published: over 21 years ago

10.1186/s12885-020-07620-8

Analysis of the expression and potential molecular mechanism of interleukin-1 receptor antagonist (IL1RN) in papillary thyroid cancer via bioinformatics methods
Cited by: 4
Author(s): Zhenyu Xie, Xin Li, Yuzhen He, Song Wu, Shiyue Wang, Jing Sun, Yuchen He, Yu Lun, Shijie Xin, Jian Zhang
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12885-018-4103-5

A 35-gene signature discriminates between rapidly- and slowly-progressing glioblastoma multiforme and predicts survival in known subtypes of the cancer
Cited by: 25
Author(s): Azeez Ayomide Fatai, Junaid Gamieldien
Software Mentions: 2
Published: over 8 years ago

10.1186/s12898-020-00323-5

Floral traits are associated with the quality but not quantity of heterospecific stigmatic pollen loads
Cited by: 6
Author(s): Manon A. Peuker, Hannah Burger, Sabrina Krausch, Ulrich Neumüller, Manfred Ayasse, Jonas Kuppler
Software Mentions: 2
Published: almost 6 years ago

10.1186/1472-6785-14-11

Population genetic structure of gray wolves (Canis lupus) in a marine archipelago suggests island-mainland differentiation consistent with dietary niche
Cited by: 40
Author(s): Astrid Vik Strønen, Erin L. Navid, Michael S. Quinn, Paul C. Paquet, Heather M. Bryan, Christopher Tod Darimont
Software Mentions: 2
Published: over 12 years ago

10.1186/1471-2148-7-111

Gene duplication, modularity and adaptation in the evolution of the aflatoxin gene cluster
Cited by: 87
Author(s): Ignazio Carbone, Jorge Humberto Ramírez-Prado, Judy L. Jakobek, Bruce W. Horn
Software Mentions: 2
Published: over 19 years ago

10.1186/s12862-017-1069-x

Phylogenetic relationships of cone snails endemic to Cabo Verde based on mitochondrial genomes
Cited by: 24
Author(s): Samuel Abalde, Manuel Jiménez‐Tenorio, Carlos M.L. Afonso, Juan E. Uribe, Ana María Echeverry, Rafael Zardoya
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12862-015-0543-6

Variation in NAT2 acetylation phenotypes is associated with differences in food-producing subsistence modes and ecoregions in Africa
Cited by: 30
Author(s): Eliška Podgorná, Issa Diallo, Christelle Vangenot, Alicia Sanchez‐Mazas, Audrey Sabbagh, Viktor Černý, Estella S. Poloni
Software Mentions: 2
Published: almost 11 years ago

10.1186/s12864-019-6296-7

Population history and genetic adaptation of the Fulani nomads: inferences from genome-wide data and the lactase persistence trait
Cited by: 33
Author(s): Mário Vicente, Edita Priehodová, Issa Diallo, Eliška Podgorná, Estella S. Poloni, Viktor Černý, Carina M. Schlebusch
Software Mentions: 2
Published: almost 7 years ago

10.1186/s12864-018-5245-1

Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp.
Cited by: 18
Author(s): Olga O Bochkareva, Elena V. Moroz, Iakov I. Davydov, Mikhail S. Gelfand
Software Mentions: 2
Published: almost 8 years ago

10.1186/1471-2164-8-444

Codon-triplet context unveils unique features of the Candida albicans protein coding genome
Cited by: 9
Author(s): Gabriela Moura, José Paulo Lousado, Miguel Pinheiro, Laura Carreto, Raquel M. Silva, José Luís Oliveira, Manuel A. S. Santos
Software Mentions: 2
Published: almost 19 years ago

10.1186/1471-2164-14-716

Global regulatory architecture of human, mouse and rat tissue transcriptomes
Cited by: 19
Author(s): Ajay Prasad, Suchitra Suresh Kumar, Christophe Dessimoz, Stefan Bleuler, Oliver Laule, Tomás Hrúz, Wilhelm Gruissem, Philip Zimmermann
Software Mentions: 2
Published: almost 13 years ago

10.1186/1471-2164-14-226

Transcriptional and epigenetic signatures of zygotic genome activation during early drosophila embryogenesis
Cited by: 13
Author(s): Élodie Darbo, Carl Herrmann, Thomas Lecuit, Denis Thieffry, Jacques van Helden
Software Mentions: 2
Published: over 13 years ago

10.1186/s12864-019-5564-x

High-resolution population structure and runs of homozygosity reveal the genetic architecture of complex traits in the Lipizzan horse
Cited by: 29
Author(s): Gertrud Grilz-Seger, Thomas Druml, Markus Neuditschko, Max Dobretsberger, Michaela Horná, Gottfried Brem
Software Mentions: 2
Published: over 7 years ago

10.1186/s12864-015-2255-0

Population genomics of pearl millet (Pennisetum glaucum (L.) R. Br.): Comparative analysis of global accessions and Senegalese landraces
Cited by: 41
Author(s): Zhenbin Hu, Bassirou Mbacké, Ramasamy Perumal, Mame Codou Guèye, Ousmane Sy, Sophie Bouchet, P. V. Vara Prasad, Geoffrey P. Morris
Software Mentions: 2
Published: almost 11 years ago

10.1186/1471-2164-14-704

Integrating microRNA and mRNA expression profiling in Symbiodinium microadriaticum, a dinoflagellate symbiont of reef-building corals
Cited by: 92
Author(s): Sebastian Baumgarten, Till Bayer, Manuel Aranda, Yi Jin Liew, Adrian R. Carr, Gos Micklem, Christian R. Voolstra
Software Mentions: 2
Published: almost 13 years ago

10.1186/1471-2164-9-619

Transgenic increases in seed oil content are associated with the differential expression of novel Brassica-specific transcripts
Cited by: 54
Author(s): Nishant Sharma, Mitchell Anderson, Arvind Kumar, Zhang Yan, E. Michael Giblin, Suzanne R. Abrams, L. Irina Zaharia, David C. Taylor, Pierre R. Fobert
Software Mentions: 2
Published: almost 18 years ago

10.1186/1471-2164-10-S1-S19

A distribution-free convolution model for background correction of oligonucleotide microarray data
Cited by: 15
Author(s): Zhongxue Chen, Monnie McGee, Qingzhong Liu, Megan Kong, Youping Deng, Richard H. Scheuermann
Software Mentions: 2
Published: about 17 years ago

10.1186/s12864-015-2066-3

Patterns of gene expression and DNA methylation in human fetal and adult liver
Cited by: 24
Author(s): Susan M. Huse, Philip A. Gruppuso, Kim Boekelheide, Jennifer Sanders
Software Mentions: 2
Published: almost 11 years ago

10.1186/1471-2164-11-369

Comparative genomics of the family Vibrionaceae reveals the wide distribution of genes encoding virulence-associated proteins
Cited by: 14
Author(s): Timothy Lilburn, Jianying Gu, Hong-Hong Cai, Yufeng Wang
Software Mentions: 2
Published: over 16 years ago

10.1186/s12864-016-2929-2

Systematic characterization of novel lncRNAs responding to phosphate starvation in Arabidopsis thaliana
Cited by: 72
Author(s): Jiapei Yuan, Ye Zhang, Jinsong Dong, Yuzhe Sun, Boon Leong Lim, Dong Liu, Zhi John Lu
Software Mentions: 2
Published: about 10 years ago

10.1186/1471-2164-7-75

Global gene expression analyses of hematopoietic stem cell-like cell lines with inducible Lhx2 expression
Cited by: 23
Author(s): Karin Richter, Valtteri Wirta, Lina Dahl, Sara Bruce, Joakim Lundeberg, Leif Carlsson, Cecilia Williams
Software Mentions: 2
Published: over 20 years ago

10.1186/s12864-021-07741-9

Transcriptome profiling of the diaphragm in a controlled mechanical ventilation model reveals key genes involved in ventilator-induced diaphragmatic dysfunction
Cited by: 6
Author(s): Ruining Liu, Gang Li, Hongwei Ma, Xianlong Zhou, Pengcheng Wang, Yan Zhao
Software Mentions: 2
Published: about 5 years ago

10.1186/1471-2164-7-250

The SNARE protein family of Leishmania major
Cited by: 37
Author(s): Sébastien Besteiro, Graham H. Coombs, Jeremy C. Mottram
Software Mentions: 2
Published: almost 20 years ago

10.1186/s12913-019-4866-7

Statistical process monitoring to improve quality assurance of inpatient care
Cited by: 7
Author(s): Lena Hubig, Nicholas Lack, Ulrich Mansmann
Software Mentions: 2
Published: over 6 years ago

10.1186/s12920-020-00856-0

A predictive model for assessing prognostic risks in gastric cancer patients using gene expression and methylation data
Cited by: 1
Author(s): Dan Luo, Qingling Yang, Haibo Wang, Mao Tan, Yanlei Zou, Jian Liu
Software Mentions: 2
Published: over 5 years ago

10.1186/1755-8794-1-34

Influence of monolayer, spheroid, and tumor growth conditions on chromosome 3 gene expression in tumorigenic epithelial ovarian cancer cell lines
Cited by: 22
Author(s): Neal Cody, Magdalena Zietarska, Ali Filali‐Mouhim, Diane Provencher, Anne-Marie Mes-Masson, Patricia N. Tonin
Software Mentions: 2
Published: about 18 years ago

10.1186/s12920-018-0454-7

Development of somatic mutation signatures for risk stratification and prognosis in lung and colorectal adenocarcinomas
Cited by: 9
Author(s): Mark Menor, Yong Zhu, Yu Wang, Jicai Zhang, Bin Jiang, Youping Deng
Software Mentions: 2
Published: over 7 years ago

10.1186/s12920-015-0090-4

BMP2 response pattern in human lung fibroblasts predicts outcome in lung adenocarcinomas
Cited by: 15
Author(s): Michal Rajski, Annika Sääf, Martin Buess
Software Mentions: 2
Published: over 11 years ago

10.1186/s12920-016-0172-y

Saliva DNA quality and genotyping efficiency in a predominantly elderly population
Cited by: 23
Author(s): Harini V. Gudiseva, Mark Hansen, Linda S. Gutierrez, David W. Collins, Jie He, Lana D. Verkuil, Ian Danford, Anna Sagaser, Anita S. Bowman, Rebecca Salowe, Prithvi S. Sankar, Eydie Miller-Ellis, Amanda Lehman, Joan M. O’Brien
Software Mentions: 2
Published: over 10 years ago

10.1186/1755-8794-5-47

Histotype-specific copy-number alterations in ovarian cancer
Cited by: 37
Author(s): Ruby Yun‐Ju Huang, Geng Bo Chen, Noriomi Matsumura, Hung Cheng Lai, Seiichi Mori, Jingjing Li, Ming Keong Wong, Ikuo Konishi, Jean Paul Thiery, Liang Kee Goh
Software Mentions: 2
Published: almost 14 years ago

10.1186/s12870-020-02403-6

Effect of trait’s expression level on single-step genomic evaluation of resistance to Dothistroma needle blight
Cited by: 13
Author(s): Jaroslav Klápště, Heidi S. Dungey, Natalie Graham, Emily Telfer
Software Mentions: 2
Published: over 6 years ago

10.1186/s12870-021-02969-9

The physiological and molecular mechanisms of N transfer in Eucalyptus and Dalbergia odorifera intercropping systems using root proteomics
Cited by: 6
Author(s): Xianyu Yao, Lusheng Liao, Yongzhen Huang, Ge Fan, Mei Yang, Shaoming Ye
Software Mentions: 2
Published: over 5 years ago

10.1186/s12888-019-2110-y

HELP@APP: development and evaluation of a self-help app for traumatized Syrian refugees in Germany – a study protocol of a randomized controlled trial
Cited by: 25
Author(s): Johannes Golchert, Susanne Röhr, Franziska Berg, Thomas Grochtdreis, Rahel Hoffmann, Franziska Jung, Michaela Nagl, Anna Plexnies, Anna Renner, Hans‐Helmut König, Anette Kersting, Steffi G. Riedel‐Heller
Software Mentions: 2
Published: over 7 years ago

10.1186/s12888-015-0559-x

Skating on thin ice: pragmatic prescribing for medication refractory schizophrenia
Cited by: 14
Author(s): Derek K. Tracy, Dan W. Joyce, S. Sarkar, Maria Jesus Mateos Fernandez, Sukhwinder S. Shergill
Software Mentions: 2
Published: about 11 years ago

10.1186/s13104-015-1089-9

An automated method for efficient, accurate and reproducible construction of RNA-seq libraries
Cited by: 5
Author(s): Maria Tsompana, Sujith A. Valiyaparambil, Jonathan Bard, Brandon Marzullo, Norma J. Nowak, Michael Buck
Software Mentions: 2
Published: over 11 years ago

10.1186/1756-0500-7-278

DNA methylation signatures in cord blood associated with maternal gestational weight gain: results from the ALSPAC cohort
Cited by: 64
Author(s): Eva Morales, Alix Groom, Debbie A. Lawlor, Caroline L Relton
Software Mentions: 2
Published: over 12 years ago

10.1186/s13104-021-05750-1

DArT-based evaluation of soybean germplasm from Polish Gene Bank
Cited by: 8
Author(s): E. Czembor, Jerzy H. Czembor, Radosław Suchecki, Nathan S. Watson-Haigh
Software Mentions: 2
Published: about 5 years ago

10.1186/s12918-017-0473-6

Informed walks: whispering hints to gene hunters inside networks’ jungle
Cited by: 3
Author(s): Marilena M. Bourdakou, George M. Spyrou
Software Mentions: 2
Published: almost 9 years ago

10.1007/s10519-015-9723-9

Heritability, SNP- and Gene-Based Analyses of Cannabis Use Initiation and Age at Onset
Cited by: 24
Author(s): Camelia C. Minică, Conor V. Dolan, Jouke‐Jan Hottenga, René Pool, Iryna O. Fedko, Hamdi Mbarek, Charlotte Huppertz, Meike Bartels, Dorret I. Boomsma, Jacqueline M. Vink
Software Mentions: 2
Published: over 11 years ago

10.1186/s13040-014-0032-2

Integrative genomics and transcriptomics analysis of human embryonic and induced pluripotent stem cells
Cited by: 2
Author(s): Kirsti Laurila, Reija Autio, Lingjia Kong, Elisa Närvä, Samer M.I. Hussein, Timo Otonkoski, Riitta Lahesmaa, Harri Lähdesmäki
Software Mentions: 2
Published: almost 12 years ago

10.3897/BDJ.8.e50500

Host records and geographical distribution of Corynosoma magdaleni, C. semerme and C. strumosum (Acanthocephala: Polymorphidae)
Cited by: 6
Author(s): Sonja Leidenberger, Sven Boström, Matthew T. Wayland
Software Mentions: 2
Published: over 6 years ago

10.1093/bioinformatics/btaa987

Ultra-fast scalable estimation of single-cell differentiation potency from scRNA-Seq data
Cited by: 9
Author(s): Andrew E. Teschendorff, Alok Kumar Maity, Hao Xue, Weiyan Chen, Matthias Lechner
Software Mentions: 2
Published: almost 6 years ago

10.1042/BSR20192048

Expression profiles of genes associated with inflammatory responses and oxidative stress in lung after heat stroke
Cited by: 11
Author(s): Zhaoyu Liu, Jitao Chen, La Hu, Ming Li, Min Liang, Jianan Chen, Hai Lin, Zicheng Zeng, Weilun Yin, Zhijie Dong, Jian Weng, Wenqian Yao, Yi Gao
Software Mentions: 2
Published: over 6 years ago

10.1038/s41408-020-0322-5

Combining gene expression profiling and machine learning to diagnose B-cell non-Hodgkin lymphoma
Cited by: 19
Author(s): Victor Bobée, Fanny Drieux, Vinciane Marchand, Vincent Sater, Liana Veresezan, Jean‐Michel Picquenot, Pierre‐Julien Viailly, Marie‐Delphine Lanic, Mathieu Viennot, Élodie Bohers, Lucie Obéric, Christiane Copie‐Bergman, Thierry Jo Molina, Philippe Gaulard, Corinne Haı̈oun, Gilles Salles, Hervé Tilly, Fabrice Jardin, Philippe Ruminy
Software Mentions: 2
Published: over 6 years ago

Projects: pypi: package

Science Score: 65/100

Penalties:

Papers Mentioning package 1,300