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: bioconductor: topGO

https://packages.ecosyste.ms/registries/bioconductor.org/packages/topGO

Enrichment Analysis for Gene Ontology
1 version
Latest release: about 1 year ago
24 dependent packages
428,733 downloads total

Papers Mentioning topGO 652

10.1186/s12870-019-1944-2
Circular RNA profiling of the rice photo-thermosensitive genic male sterile line Wuxiang S reveals circRNA involved in the fertility transition
Cited by: 21
Author(s): Ying Wang, Zeyang Xiong, Qian Li, Yueyang Sun, Jing Jin, Hao Chen, Yu Zeng, Xingguo Huang, Yi Ding
Software Mentions: 2
Published: over 5 years ago
10.1186/s12870-021-02889-8
Gene co-expression analysis of tomato seed maturation reveals tissue-specific regulatory networks and hubs associated with the acquisition of desiccation tolerance and seed vigour
Cited by: 9
Author(s): Elise Bizouerne, Julia Buitink, Benoît Ly Vu, Joseph Ly Vu, Eddi Esteban, Asher Pasha, Nicholas J. Provart, Jérôme Verdier, Olivier Leprince
Software Mentions: 2
Published: over 3 years ago
10.1186/s12870-018-1589-6
Genome-wide dynamic network analysis reveals a critical transition state of flower development in Arabidopsis
Cited by: 15
Author(s): Fuping Zhang, Xiaoping Li, Aidi Zhang, Zhenfei Jiang, Luonan Chen, Xiujun Zhang
Software Mentions: 2
Published: almost 6 years ago
10.1186/s12870-021-03148-6
Identification of Brassica napus small RNAs responsive to infection by a necrotrophic pathogen
Cited by: 7
Author(s): Roshan Regmi, Toby E. Newman, Lars G. Kamphuis, Mark Derbyshire
Software Mentions: 2
Published: over 3 years ago
10.1093/database/baw146
TBro: visualization and management ofde novotranscriptomes
Cited by: 3
Author(s): Markus J. Ankenbrand, Lorenz Weber, Dirk Becker, Frank Förster, Felix Bemm
Software Mentions: 2
Published: almost 9 years ago
10.1016/j.devcel.2015.12.027
Maternal DNA Methylation Regulates Early Trophoblast Development
Cited by: 101
Author(s): Miguel R. Branco, Michelle King, Vicente Pérez-García, Aaron B. Bogutz, Matthew Caley, Elena Fineberg, Louis Lefebvre, Simon J. Cook, Wendy Dean, Myriam Hemberger, Wolf Reik
Software Mentions: 2
Published: almost 9 years ago
10.1007/s00204-015-1658-7
Identification of transcriptome signatures and biomarkers specific for potential developmental toxicants inhibiting human neural crest cell migration
Cited by: 40
Author(s): Giorgia Pallocca, Marianna Grinberg, Margit Henry, Tancred Frickey, Jan G. Hengstler, Tanja Waldmann, Agapios Sachinidis, Jörg Rahnenführer, Marcel Leist
Software Mentions: 2
Published: almost 9 years ago
10.1186/s12920-015-0083-3
miR-10b-5p expression in Huntington’s disease brain relates to age of onset and the extent of striatal involvement
Cited by: 108
Author(s): Andrew G. Hoss, Adam Labadorf, Jeanne C. Latourelle, Vinay K. Kartha, Tiffany C. Hadzi, James F. Gusella, Marcy E. MacDonald, Jiang‐Fan Chen, Schahram Akbarian, Zhiping Weng, Jean Paul Vonsattel, Richard H. Myers
Software Mentions: 2
Published: over 9 years ago
10.17179/excli2020-2934
Genome-wide expression changes induced by bisphenol A, F and S in human stem cell derived hepatocyte-like cells.
Cited by: 2
Author(s): Baltasar Lucendo‐Villarin, Patrick Nell, Birte Hellwig, Panagiotis Filis, David Feuerborn, Peter J. O’Shaughnessy, Patrício Godoy, Jörg Rahnenführer, Jan G. Hengstler, Anna Cherianidou, Agapios Sachinidis, Paul A. Fowler, David C. Hay
Software Mentions: 2
Published: about 4 years ago
10.1002/ece3.2142
Transcriptome response to temperature stress in the wolf spider <i>Pardosa pseudoannulata</i> (Araneae: Lycosidae)
Cited by: 30
Author(s): Rong Xiao, Liang Wang, Yingshuai Cao, Guren Zhang
Software Mentions: 2
Published: over 8 years ago
10.7554/eLife.32018
Inhibition of oxidative stress in cholinergic projection neurons fully rescues aging-associated olfactory circuit degeneration in Drosophila
Cited by: 20
Author(s): Ashiq Hussain, Atefeh Pooryasin, Mo Zhang, Laura F. Loschek, Marco La Fortezza, Anja Friedrich, Catherine Blais, Habibe K. Üçpunar, Vicente A. Yépez, Martin Lehmann, Nicolas Gompel, Julien Gagneur, Stephan J. Sigrist, Ilona C. Grunwald Kadow
Software Mentions: 2
Published: almost 7 years ago
10.18632/oncotarget.9626
Transcriptomic and proteomic analysis of mouse radiation-induced acute myeloid leukaemia (AML)
Cited by: 6
Author(s): Christophe Badie, Agnieszka Blachowicz, Žarko Barjaktarović, Rosemary Finnon, Arlette Michaux, Hakan Sarioglu, Natalie Brown, Grainne Manning, Mohammed Abderrafi Benotmane, Soile Tapio, Joanna Polańska, Simon Bouffler
Software Mentions: 2
Published: over 8 years ago
10.1186/s13072-016-0090-4
Quantitative analysis of ChIP-seq data uncovers dynamic and sustained H3K4me3 and H3K27me3 modulation in cancer cells under hypoxia
Cited by: 20
Author(s): Michiel E. Adriaens, Peggy Prickaerts, Michelle Chan-Seng-Yue, Twan van den Beucken, V.E.H. Dahlmans, Lars Eijssen, Timothy A. Beck, Bradly G. Wouters, Jan Willem Voncken, Chris T. Evelo
Software Mentions: 2
Published: about 8 years ago
10.1111/eva.12863
Resolving the genetic paradox of invasions: Preadapted genomes and postintroduction hybridization of bigheaded carps in the Mississippi River Basin
Cited by: 16
Author(s): Chenghui Wang, Sarah Gaughan, James T. Lamer, Cao Deng, Wanting Hu, Michael Wachholtz, Siyu Qin, Hongtao Nie, Xiaolin Liao, Qufei Ling, Weitao Li, Lifeng Zhu, Louis Bernatchez, Chenghui Wang, Guoqing Lu
Software Mentions: 2
Published: about 5 years ago
10.1111/eva.12370
Transgenerational effects persist down the maternal line in marine sticklebacks: gene expression matches physiology in a warming ocean
Cited by: 82
Author(s): Lisa N S Shama, Felix Christopher Mark, Anneli Strobel, Ana Lokmer, Uwe John, K. Mathias Wegner
Software Mentions: 2
Published: over 8 years ago
10.1186/s12864-020-6720-z
Genomic characterization of an emerging Enterobacteriaceae species: the first case of co-infection with a typical pathogen in a human patient
Cited by: 2
Author(s): Zhen Zhao, Daixi Li, Xing Shi, Yao Zhai, Yanli Guo, Yali Zheng, Lili Zhao, Yukun He, Yu‐Sheng Chen, Zhanwei Wang, Jianrong Su, Yu Kang, Zhancheng Gao
Software Mentions: 2
Published: over 4 years ago
10.1002/1873-3468.13589
Notch signalling is a potential resistance mechanism of progenitor cells within patient‐derived prostate cultures following ROS‐inducing treatments
Cited by: 10
Author(s): John Packer, Adam M. Hirst, Alastair Droop, Rachel Adamson, Matthew Simms, Vincent M. Mann, Fiona M. Frame, Deborah O’Connell, Norman J. Maitland
Software Mentions: 2
Published: about 5 years ago
10.3390/foods9091150
Living the Sweet Life: How Liquorilactobacillus hordei TMW 1.1822 Changes Its Behavior in the Presence of Sucrose in Comparison to Glucose
Cited by: 7
Author(s): Julia Bechtner, Christina Ludwig, Michael Kiening, Frank Jakob, Rudi F. Vogel
Software Mentions: 2
Published: over 4 years ago
10.3389/fnagi.2021.679688
Autoimmunomic Signatures of Aging and Age-Related Neurodegenerative Diseases Are Associated With Brain Function and Ribosomal Proteins
Cited by: 6
Author(s): Youlun Ju, Saleh M. Ibrahim, Frank Petersen, Xinhua Yu
Software Mentions: 2
Published: over 3 years ago
10.3389/fnagi.2020.573764
Changes in Metabolism and Proteostasis Drive Aging Phenotype in Aplysia californica Sensory Neurons
Cited by: 8
Author(s): Nicholas S. Kron, Michael C. Schmale, Lynne A. Fieber
Software Mentions: 2
Published: about 4 years ago
10.3390/antiox10060949
The Long-Term DEHP Exposure Confers Multidrug Resistance of Triple-Negative Breast Cancer Cells through ABC Transporters and Intracellular ROS
Cited by: 13
Author(s): Mahendra Jadhao, Eing‐Mei Tsai, Ho-Chun Yang, Yih-Fung Chen, Shih‐Shin Liang, Tsu‐Nai Wang, Yen-Ni Teng, Hurng‐Wern Huang, Lifang Wang, Chien‐Chih Chiu
Software Mentions: 2
Published: over 3 years ago
10.3389/fcell.2020.00751
Sex-Dependent RNA Editing and N6-adenosine RNA Methylation Profiling in the Gonads of a Fish, the Olive Flounder (Paralichthys olivaceus)
Cited by: 12
Author(s): Limin Wang, Zhihao Wu, Congcong Zou, Suzhe Liang, Yuxia Zou, Yan Liu, Feng You
Software Mentions: 2
Published: over 4 years ago
10.3389/fcell.2020.568116
Systematic Analysis of tRNA-Derived Small RNAs Discloses New Therapeutic Targets of Caloric Restriction in Myocardial Ischemic Rats
Cited by: 17
Author(s): Wenjing Liu, Yang Liu, Zhaohai Pan, Xin Zhang, Yao Jun Qin, Xiaojie Chen, Minjing Li, Xiaoyu Chen, Qiusheng Zheng, Xiaona Liu, Defang Li
Software Mentions: 2
Published: about 4 years ago
10.1186/s12864-021-07470-z
Comparative analysis of drought-responsive and -adaptive genes in Chinese wingnut (Pterocarya stenoptera C. DC)
Cited by: 1
Author(s): Yong Li, Yu-Tao Si, Yong He, Jiaxin Li
Software Mentions: 2
Published: over 3 years ago
10.3389/fcimb.2021.713466
The Tick Microbiota Dysbiosis Promote Tick-Borne Pathogen Transstadial Transmission in a Babesia microti–Infected Mouse Model
Cited by: 8
Author(s): Nana Wei, Jie Cao, Houshuang Zhang, Yongzhi Zhou, Jinlin Zhou
Software Mentions: 2
Published: over 3 years ago
10.3389/fendo.2020.558344
Transcriptome Sequencing Analysis of Peripheral Blood of Type 2 Diabetes Mellitus Patients With Thirst and Fatigue
Cited by: 6
Author(s): Bohan Lv, Xueli Bao, Ping Li, Juan Lian, Yanxiang Wu, Tian An, Jing Zhang, Xiuyan Yang, Tingye Wang, Jiajian Zhu, Yuanyuan Hu, Guiyan Jiang, Gao S
Software Mentions: 2
Published: about 4 years ago
10.3389/fgene.2021.622751
Transcriptome Analysis of Ovarian Follicles Reveals Potential Pivotal Genes Associated With Increased and Decreased Rates of Chicken Egg Production
Cited by: 15
Author(s): Xiaoxia Chen, Xue Sun, Ignatius Musenge Chimbaka, Ning Qin, Xiaoxing Xu, Simushi Liswaniso, Rong Xu, J. M. Gonzalez
Software Mentions: 2
Published: over 3 years ago
10.3389/fgene.2020.606285
Identification of Key Tissue-Specific, Biological Processes by Integrating Enhancer Information in Maize Gene Regulatory Networks
Cited by: 7
Author(s): Maud Fagny, Marieke L. Kuijjer, Maike Stam, Johann Joets, Olivier Turc, Julien Rozière, Stéphanie Pateyron, Anthony Venon, Clémentine Vitte
Software Mentions: 2
Published: almost 4 years ago
10.3389/fimmu.2019.01566
The Inflammasome Adaptor ASC Intrinsically Limits CD4+ T-Cell Proliferation to Help Maintain Intestinal Homeostasis
Cited by: 13
Author(s): Hanif Javanmard Khameneh, K. W. Leong, Andrea Mencarelli, Maurizio Vacca, Bezaleel Mambwe, Kurt Neo, Alice Tay, Francesca Zolezzi, Bernett Lee, Alessandra Mortellaro
Software Mentions: 2
Published: over 5 years ago
10.1186/s12864-015-1733-8
Network analysis of temporal functionalities of the gut induced by perturbations in new-born piglets
Cited by: 7
Author(s): Nirupama Benis, Dirkjan Schokker, María Suárez-Diez, Vítor A. P. Martins dos Santos, Hauke Smidt, M.A. Smits
Software Mentions: 2
Published: over 9 years ago
10.1186/1471-2164-13-124
Comparative modular analysis of gene expression in vertebrate organs
Cited by: 10
Author(s): Barbara Piasecka, Zoltán Kutalik, Julien Roux, Sven Bergmann, Marc Robinson‐Rechavi
Software Mentions: 2
Published: over 12 years ago
10.3389/fmicb.2018.00508
Csn5 Is Required for the Conidiogenesis and Pathogenesis of the Alternaria alternata Tangerine Pathotype
Cited by: 18
Author(s): Mingshuang Wang, Xiao Yang, Ruoxin Ruan, Huilan Fu, Hongye Li
Software Mentions: 2
Published: over 6 years ago
10.3389/fmicb.2019.01474
Comparative Transcriptome Profiling of Gaeumannomyces graminis var. tritici in Wheat Roots in the Absence and Presence of Biocontrol Bacillus velezensis CC09
Cited by: 10
Author(s): Xingxing Kang, Yu Guo, Shuai Leng, Lei Xiao, Lanhua Wang, Yarong Xue, Changhong Liu
Software Mentions: 2
Published: over 5 years ago
10.3389/fmicb.2018.00124
Worlds Apart – Transcriptome Profiles of Key Oral Microbes in the Periodontal Pocket Compared to Single Laboratory Culture Reflect Synergistic Interactions
Cited by: 41
Author(s): Zhi-Luo Deng, Helena Sztajer, Michael Jarek, Sabin Bhuju, Irene Wagner‐Döbler
Software Mentions: 2
Published: almost 7 years ago
10.3389/fmicb.2016.00639
Transcriptome Analysis of Scrippsiella trochoidea CCMP 3099 Reveals Physiological Changes Related to Nitrate Depletion
Cited by: 27
Author(s): Joshua T. Cooper, Geoffrey A. Sinclair, Boris Wawrik
Software Mentions: 2
Published: over 8 years ago
10.1186/1471-2164-15-305
A house finch (Haemorhous mexicanus) spleen transcriptome reveals intra- and interspecific patterns of gene expression, alternative splicing and genetic diversity in passerines
Cited by: 12
Author(s): Zhilin Qu, Geoffrey E. Hill, Scott V. Edwards, Niclas Backström
Software Mentions: 2
Published: over 10 years ago
10.3390/ani10112184
Liver Expression of IGF2 and Related Proteins in ZBED6 Gene-Edited Pig by RNA-Seq
Cited by: 4
Author(s): Hailin Zhao, Mingli Wu, Shirong Liu, Xiaoqin Tang, Xiaohua Yi, Li Qi, Shuhui Wang, Xiuzhu Sun
Software Mentions: 2
Published: about 4 years ago
10.3389/fnmol.2018.00219
Transcriptional Alterations in the Trigeminal Ganglia, Nucleus and Peripheral Blood Mononuclear Cells in a Rat Orofacial Pain Model
Cited by: 20
Author(s): Tímea Aczél, József Kun, Éva Szőke, Tibor A. Rauch, Sini Junttila, Attila Gyenesei, Kata Bölcskei, Zsuzsanna Helyes
Software Mentions: 2
Published: over 6 years ago
10.1186/s12864-018-4972-7
Combination of novel and public RNA-seq datasets to generate an mRNA expression atlas for the domestic chicken
Cited by: 25
Author(s): Stephen J. Bush, Lucy Freem, Amanda MacCallum, Jenny O’Dell, Chunlei Wu, Cyrus Afrasiabi, Androniki Psifidi, Mark P. Stevens, Jacqueline Smith, Kim M. Summers, David Hume
Software Mentions: 2
Published: over 6 years ago
10.3390/ani11041042
Comparison of Gonadal Transcriptomes Uncovers Reproduction-Related Genes with Sexually Dimorphic Expression Patterns in Diodon hystrix
Cited by: 8
Author(s): Huapu Chen, Zhiyuan Li, Yaorong Wang, Hai Huang, Xiao Yang, Shuangfei Li, Wei Yang, Guangli Li
Software Mentions: 2
Published: over 3 years ago
10.3389/fpls.2021.666075
The Road to Sorghum Domestication: Evidence From Nucleotide Diversity and Gene Expression Patterns
Cited by: 5
Author(s): Concetta Burgarella, Angélique Berger, Sylvain Glémin, Jacques David, Nancy Terrier, Monique Deu, David Pot
Software Mentions: 2
Published: about 3 years ago
10.3389/fpls.2014.00668
Transcript abundance on its own cannot be used to infer fluxes in central metabolism
Cited by: 48
Author(s): Jörg Schwender, Christina König, Matthias Klapperstück, Nicolas Heinzel, E. Muñz, Inga Hebbelmann, Jordan O. Hay, Peter Denolf, Stefanie De Bodt, Henning Redestig, Evelyne Caestecker, Peter M. Jakob, Ljudmilla Borisjuk, Hardy Rolletschek
Software Mentions: 2
Published: almost 10 years ago
10.3389/fpls.2017.00649
Transcriptome Analyses Reveal Candidate Pod Shattering-Associated Genes Involved in the Pod Ventral Sutures of Common Vetch (Vicia sativa L.)
Cited by: 48
Author(s): Rui Dong, Dan Dong, Dong Luo, Qiang Zhou, Xutian Chai, Jiyu Zhang, Wengang Xie, Wenxian Liu, Dong Yang, Yanrong Wang, Zhipeng Liu
Software Mentions: 2
Published: over 7 years ago
10.3389/fpls.2021.694859
Unraveling the Genome of a High Yielding Colombian Sugarcane Hybrid
Cited by: 9
Author(s): Jhon Henry Trujillo-Montenegro, María Juliana Rodríguez Cubillos, Cristian D Loaiza, Manuel Quintero, Hector F. Espitia-Navarro, Fredy Antonio Salazar Villareal, Carlos Arturo Viveros Valens, Andrés Fernando González Barrios, Jose J De Vega, Jorge Duitama, John J. Riascos
Software Mentions: 2
Published: over 3 years ago
10.3389/fpls.2021.571072
Drought-Induced Root Pressure in Sorghum bicolor
Cited by: 4
Author(s): Sarah Tepler Drobnitch, Louise H. Comas, Nora E. Flynn, Jorge Ibarra Caballero, Ryan W. Barton, Joshua Wenz, Taylor Person, Julie A. Bushey, Courtney E. Jahn, Sean M. Gleason
Software Mentions: 2
Published: almost 4 years ago
10.3389/fpls.2021.630155
Tomato Cultivars Resistant or Susceptible to Spider Mites Differ in Their Biosynthesis and Metabolic Profile of the Monoterpenoid Pathway
Cited by: 11
Author(s): Nati Weinblum, Alon Cna’ani, Beery Yaakov, Adi Sadeh, Lior Avraham, Itai Opatovsky, Vered Tzin
Software Mentions: 2
Published: over 3 years ago
10.1186/s12864-015-2003-5
Gene expression profiling during adventitious root formation in carnation stem cuttings
Cited by: 50
Author(s): Carlos Villacorta‐Martin, Ana Belén Sánchez-García, Joan Villanova, Antonio Caño, Miranda van de Rhee, Jorn de Haan, Manuel Acosta, Paul Passarinho, José Manuel Pérez-Pérez
Software Mentions: 2
Published: about 9 years ago
10.1186/1471-2164-10-619
The expansion of amino-acid repeats is not associated to adaptive evolution in mammalian genes
Cited by: 6
Author(s): Fernando Cruz, Julien Roux, Marc Robinson‐Rechavi
Software Mentions: 2
Published: almost 16 years ago
10.3389/fpls.2019.00534
Fine-Tuning the Expression of Duplicate Genes by Translational Regulation in Arabidopsis and Maize
Cited by: 6
Author(s): Sishuo Wang, Youhua Chen
Software Mentions: 2
Published: over 5 years ago
10.3389/fpls.2020.603302
Single-Cell RNA Sequencing Efficiently Predicts Transcription Factor Targets in Plants
Cited by: 10
Author(s): Youming Xie, Shenfei Jiang, Lele Li, Xiangzhen Yu, Yupeng Wang, Cuiqin Luo, Qiuhua Cai, Wei He, Hong Xie, Yanmei Zheng, Huaan Xie, Chenglong Zhang
Software Mentions: 2
Published: almost 4 years ago
10.7554/eLife.58565
Enhanced insulin signalling ameliorates C9orf72 hexanucleotide repeat expansion toxicity in Drosophila
Cited by: 15
Author(s): Magda L. Atilano, Sebastian Grönke, Teresa Niccoli, Liam Kempthorne, Oliver Hahn, Javier Morón-Oset, Oliver Hendrich, Miranda C. Dyson, Mirjam Lisette Adams, Alexander Hull, Marie-Therese Salcher-Konrad, Amy E. Monaghan, Magda Bictash, Idoia Glaria, Adrian M. Isaacs, Linda Partridge
Software Mentions: 2
Published: over 3 years ago
10.1534/g3.114.013904
Genomic Analysis of the Pacific Oyster (<i>Crassostrea gigas</i>) Reveals Possible Conservation of Vertebrate Sex Determination in a Mollusc
Cited by: 66
Author(s): Na Zhang, Fei Xu, Ximing Guo
Software Mentions: 2
Published: about 10 years ago
10.1534/g3.115.025981
Genome-Wide Investigation of MicroRNAs and Their Targets in Response to Freezing Stress in <i>Medicago sativa</i> L., Based on High-Throughput Sequencing
Cited by: 47
Author(s): Yongjun Shu, Ying Liu, Li Wei, Lili Song, Jun Zhang, Changhong Guo
Software Mentions: 2
Published: over 8 years ago
10.3390/ijms17060938
Genome-Wide Discriminatory Information Patterns of Cytosine DNA Methylation
Cited by: 8
Author(s): Robersy Sánchez, Sally A. Mackenzie
Software Mentions: 2
Published: over 8 years ago
10.1534/g3.119.400785
De Novo Transcriptome Sequencing of Serangium japonicum (Coleoptera: Coccinellidae) and Application of Two Assembled Unigenes
Cited by: 0
Author(s): Ya Hui Hu, Yong Liu, Wei Lin, Hao Tao Chen
Software Mentions: 2
Published: almost 5 years ago
10.1534/g3.120.401362
Conservation and Divergence in Duplicated Fiber Coexpression Networks Accompanying Domestication of the Polyploid <i>Gossypium hirsutum</i> L
Cited by: 18
Author(s): Joseph P. Gallagher, Corrinne E. Grover, Guanjing Hu, Josef J. Jareczek, Jonathan F. Wendel
Software Mentions: 2
Published: over 4 years ago
10.3390/ijms17122033
Transcriptome Profiling Analysis of Wolf Spider Pardosa pseudoannulata (Araneae: Lycosidae) after Cadmium Exposure
Cited by: 28
Author(s): Changchun Li, Yong Wang, Guoyuan Li, Yun Yao, Yunfeng Dai, Jian Chen, Yu Peng
Software Mentions: 2
Published: almost 8 years ago
10.3390/genes8100271
Effects of Conjugated Linoleic Acid Supplementation on the Expression Profile of miRNAs in Porcine Adipose Tissue
Cited by: 4
Author(s): Qi Wang, Renli Qi, Hong Liu, Jing Wang, Wenming Huang, Feiyun Yang, Jinxiu Huang
Software Mentions: 2
Published: about 7 years ago
10.3390/genes9070346
The Genetics of a Behavioral Speciation Phenotype in an Island System
Cited by: 18
Author(s): Thomas Blankers, Kevin P. Oh, Kerry L. Shaw
Software Mentions: 2
Published: over 6 years ago
10.1186/s12864-016-2466-z
Thermal reactionomes reveal divergent responses to thermal extremes in warm and cool-climate ant species
Cited by: 19
Author(s): John Stanton‐Geddes, Andrew Nguyen, Lacy D. Chick, James J. Vincent, Mahesh Vangala, Robert R. Dunn, Aaron M. Ellison, Nathan J. Sanders, Nicholas J. Gotelli, Sara Helms Cahan
Software Mentions: 2
Published: over 8 years ago
10.3390/ijms19082201
Transcriptome Analysis Reveals Multiple Hormones, Wounding and Sugar Signaling Pathways Mediate Adventitious Root Formation in Apple Rootstock
Cited by: 45
Author(s): Ké Li, Yongqi Liang, Libo Xing, Jiangping Mao, Zhen Liu, Feng Dong, Meng Yuan, Mingyu Han, Caiping Zhao, Liang Bao, Dong Zhang
Software Mentions: 2
Published: over 6 years ago
10.1186/1471-2164-15-503
Transcriptomic analysis of candidate osmoregulatory genes in the eastern oyster Crassostrea virginica
Cited by: 37
Author(s): Laura E. Eierman, Matthew P. Hare
Software Mentions: 2
Published: almost 11 years ago
10.1186/1471-2164-15-596
An integrated genomic and metabolomic framework for cell wall biology in rice
Cited by: 24
Author(s): Kai Guo, Weihua Zou, Yue Feng, Mingliang Zhang, Jing Zhang, Fen Tu, Guosheng Xie, Lingqiang Wang, Yangting Wang, Sebastian Klie, Staffan Persson, Liangcai Peng
Software Mentions: 2
Published: over 10 years ago
10.3390/genes12010095
Parasite Presence Induces Gene Expression Changes in an Ant Host Related to Immunity and Longevity
Cited by: 12
Author(s): Marah Stoldt, Linda Klein, Sara Beros, Falk Butter, Evelien Jongepier, Barbara Feldmeyer, Susanne Foitzik
Software Mentions: 2
Published: almost 4 years ago
10.1590/1678-4685-GMB-2017-0053
Transcriptome sequencing analysis of alfalfa reveals CBF genes potentially playing important roles in response to freezing stress
Cited by: 24
Author(s): Yongjun Shu, Wei Li, Jianfeng Zhao, Sijia Zhang, Hanyun Xu, Ying Liu, Changhong Guo
Software Mentions: 2
Published: about 7 years ago
10.1590/1678-4685-GMB-2017-0284
Transcriptome sequencing and expression profiling of genes involved in the response to abiotic stress in Medicago ruthenica
Cited by: 20
Author(s): Yongjun Shu, Wei Li, Jianfeng Zhao, Ying Liu, Changhong Guo
Software Mentions: 2
Published: over 6 years ago
10.1093/genetics/iyaa036
The regulatory network for petal anthocyanin pigmentation is shaped by the MYB5a/NEGAN transcription factor in <i>Mimulus</i>
Cited by: 12
Author(s): Xingyu Zheng, Kuenzang Om, Kimmy A Stanton, Daniel Thomas, Philip A Cheng, Allison Eggert, Emily Simmons, Yao‐Wu Yuan, Gregory D. Smith, Joshua R. Puzey, Arielle M. Cooley
Software Mentions: 2
Published: almost 4 years ago
10.1186/gb-2007-8-9-r183
The DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists
Cited by: 1,952
Author(s): Dawei Huang, Brad T. Sherman, Qina Tan, Jack Collins, W. Gregory Alvord, Jean Roayaei, Robert S. Stephens, Michael Baseler, H. Clifford Lane, Richard A. Lempicki
Software Mentions: 2
Published: almost 18 years ago
10.3390/ijms19113359
Identification of Salt Stress Responding Genes Using Transcriptome Analysis in Green Alga Chlamydomonas reinhardtii
Cited by: 62
Author(s): Ning Wang, Zhe Qian, Manwei Luo, Shoujin Fan, Xuejie Zhang, Luoyan Zhang
Software Mentions: 2
Published: about 6 years ago
10.3390/ijms20236034
Analysis of Centranthera grandiflora Benth Transcriptome Explores Genes of Catalpol, Acteoside and Azafrin Biosynthesis
Cited by: 16
Author(s): Xiaodong Zhang, Caixia Li, Lianchun Wang, Yahong Fei, Wensheng Qin
Software Mentions: 2
Published: almost 5 years ago
10.1186/s13059-017-1187-1
Dietary restriction protects from age-associated DNA methylation and induces epigenetic reprogramming of lipid metabolism
Cited by: 162
Author(s): Oliver Hahn, Sebastian Grönke, Thomas M. Stubbs, Gabriella Ficz, Oliver Hendrich, Felix Krueger, Simon Andrews, Zuo‐Feng Zhang, Michael J.O. Wakelam, Andreas Beyer, Wolf Reik, Linda Partridge
Software Mentions: 2
Published: over 7 years ago
10.1186/s13059-017-1190-6
Genomic history of the origin and domestication of common bean unveils its closest sister species
Cited by: 109
Author(s): Martha Rendón-Anaya, Josaphat Miguel Montero-Vargas, Soledad Saburido-Álvarez, Anna Vlasova, Salvador Capella-Gutierrez, José Juan Ordaz-Ortíz, O. Mario Aguilar, Rosana Pereira Vianello-Brondani, Marta Santalla, Luis Delaye, Toni Gabaldón, Paul Gepts, Robert Winkler, Roderic Guigó, Alfonso Delgado‐Salinas, Alfredo Herrera-Estrella
Software Mentions: 2
Published: over 7 years ago
10.1186/s13059-017-1383-z
Extensive epigenetic reprogramming during the life cycle of Marchantia polymorpha
Cited by: 51
Author(s): Marc W. Schmid, Alejandro Giraldo‐Fonseca, Moritz Rövekamp, Dmitry Smetanin, John L. Bowman, Ueli Grossniklaus
Software Mentions: 2
Published: almost 7 years ago
10.1093/gbe/evy023
Positively Selected Effector Genes and Their Contribution to Virulence in the Smut Fungus Sporisorium reilianum
Cited by: 37
Author(s): Gabriel Schweizer, Karin Münch, Gertrud Mannhaupt, Jan Schirawski, Regine Kahmann, Julien Dutheil
Software Mentions: 2
Published: almost 7 years ago
10.1093/gbe/evaa075
Differential Expression of Immune Genes between Two Closely Related Beetle Species with Different Immunocompetence following Attack by Asecodes parviclava
Cited by: 6
Author(s): Xuyue Yang, Lisa Fors, Tanja Slotte, Ulrich Theopold, Mahesh Binzer‐Panchal, Christopher W. Wheat, Peter A. Hambäck
Software Mentions: 2
Published: over 4 years ago
10.1093/gbe/evab038
Genomic Evidence for Convergent Molecular Adaptation in Electric Fishes
Cited by: 9
Author(s): Ying Wang, Liandong Yang
Software Mentions: 2
Published: over 3 years ago
10.3390/ijms21030980
The Epigenetic Landscape of Vascular Calcification: An Integrative Perspective
Cited by: 30
Author(s): Yi‐Chou Hou, Cheng Wei Lu, Tzu‐Hang Yuan, Min-Tser Liao, Chia‐Ter Chao, Kuo‐Cheng Lu
Software Mentions: 2
Published: almost 5 years ago
10.1186/s12864-019-6423-5
Overexpression of a modified eIF4E regulates potato virus Y resistance at the transcriptional level in potato
Cited by: 16
Author(s): Pablo Andrés Gutiérrez Sánchez, Lavanya Babujee, Helena Jaramillo Mesa, Erica Arcibal, Megan Gannon, Dennis Halterman, Molly M. Jahn, Jiming Jiang, Aurélie M. Rakotondrafara
Software Mentions: 2
Published: almost 5 years ago
10.1186/s12864-020-06829-y
Population genomics of Vibrionaceae isolated from an endangered oasis reveals local adaptation after an environmental perturbation
Cited by: 6
Author(s): Mirna Vázquez-Rosas-Landa, Gabriel Yaxal Ponce-Soto, Jonás A. Aguirre‐Liguori, Shalabh Thakur, Enrique Scheinvar, Josué Barrera‐Redondo, Enrique Ibarra-Laclette, David S. Guttman, Luis E. Eguiarte, Valeria Souza
Software Mentions: 2
Published: over 4 years ago
10.1186/s12864-019-6293-x
Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation
Cited by: 15
Author(s): Hao Chun Chang, Hsuan Cheng Huang, Hsueh Fen Juan, Chia‐Lang Hsu
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41438-018-0079-1
Transcriptome reprogramming, epigenetic modifications and alternative splicing orchestrate the tomato root response to the beneficial fungus Trichoderma harzianum
Cited by: 80
Author(s): Monica De Palma, Maria Salzano, Clizia Villano, Riccardo Aversano, Matteo Lorito, Michelina Ruocco, Teresa Docimo, Anna Lisa Piccinelli, Nunzio D’Agostino, Marina Tucci
Software Mentions: 2
Published: almost 6 years ago
10.1186/s12864-017-4067-x
Natural variation in stress response gene activity in the allopolyploid Arabidopsis suecica
Cited by: 7
Author(s): Keisha D. Carlson, Noe Fernandez‐Pozo, Aureliano Bombarely, Rahul Pisupati, Lukas A. Mueller, Andreas Madlung
Software Mentions: 2
Published: over 7 years ago
10.1186/1471-2164-13-254
Divergent gene expression in the conserved dauer stage of the nematodes Pristionchus pacificus and Caenorhabditis elegans
Cited by: 39
Author(s): Amit Sinha, Ralf J. Sommer, Christoph Dieterich
Software Mentions: 2
Published: over 12 years ago
10.3390/ijms21051868
Reveals of New Candidate Active Components in Hemerocallis Radix and Its Anti-Depression Action of Mechanism Based on Network Pharmacology Approach
Cited by: 23
Author(s): Hsin-Yi Lin, Jen-Chieh Tsai, Lung‐Yuan Wu, Wen-Huang Peng
Software Mentions: 2
Published: over 4 years ago
10.1186/s12864-020-07179-5
Sex differences in early transcriptomic responses to oxidative stress in the copepod Tigriopus californicus
Cited by: 14
Author(s): Ning Li, Ben A. Flanagan, MacKenzie Partridge, Elaine Huang, Suzanne Edmands
Software Mentions: 2
Published: about 4 years ago
10.1016/j.redox.2020.101654
Genome-wide transcriptional effects of deletions of sulphur metabolism genes in Drosophila melanogaster
Cited by: 9
Author(s): Olga G. Zatsepina, Dmitry S. Karpov, Lyubov N. Chuvakova, Alexander P. Rezvykh, S. Yu. Funikov, S. Yu. Sorokina, Alexey S. Zakluta, Д. Г. Гарбуз, Victoria Shilova, Michael B. Evgen’ev
Software Mentions: 2
Published: about 4 years ago
10.1186/1471-2164-15-98
A genomic perspective to assessing quality of mass-reared SIT flies used in Mediterranean fruit fly (Ceratitis capitata) eradication in California
Cited by: 31
Author(s): Bernarda Calla, Brian E. Hall, Shaobin Hou, Scott M. Geib
Software Mentions: 2
Published: almost 11 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 6 years ago
10.1038/s41598-017-01029-3
Response of peanut Arachis hypogaea roots to the presence of beneficial and pathogenic fungi by transcriptome analysis
Cited by: 17
Author(s): Kun Hao, Feng Wang, Xiangqun Nong, M.R. McNeill, Shaofang Liu, Guangjun Wang, Guangchun Cao, Zehua Zhang
Software Mentions: 2
Published: over 7 years ago
10.1038/s41598-017-11976-6
CXCL6 is an important paracrine factor in the pro-angiogenic human cardiac progenitor-like cell secretome
Cited by: 34
Author(s): José Luis Torán, Susana Aguilar, Juan Antonio López, Carlos Torroja, Juan A. Quintana, César Santiago, José Luís Abad, Patrícia Gomes‐Alves, Ángel González, Juan A. Bernal, Luis Jesús Jiménez-Borreguero, Paula M. Alves, Luis R‐Borlado, Jesús Vázquez, António Bernad
Software Mentions: 2
Published: about 7 years ago
10.1186/1471-2164-15-381
Dynamics of mRNA and polysomal abundance in early 3T3-L1 adipogenesis
Cited by: 7
Author(s): Silvia von der Heyde, Carolin Fromm‐Dornieden, Gabriela Salinas-Riester, Tim Beißbarth, Bernhard Baumgartner
Software Mentions: 2
Published: over 10 years ago
10.1038/s41598-018-26718-5
Transcriptome analysis of the reef-building octocoral, Heliopora coerulea
Cited by: 16
Author(s): Christine Guzman, Chuya Shinzato, Tsai-Ming Lu, Cecilia Conaco
Software Mentions: 2
Published: over 6 years ago
10.1038/s41598-018-31668-z
Transcriptome Analysis of Gossypium hirsutum L. Reveals Different Mechanisms among NaCl, NaOH and Na2CO3 Stress Tolerance
Cited by: 22
Author(s): Binglei Zhang, Xiugui Chen, Xuke Lu, Na Shu, Xiaoge Wang, Xiaomin Yang, Shuai Wang, Junjuan Wang, Lixue Guo, Delong Wang, Wuwei Ye
Software Mentions: 2
Published: about 6 years ago
10.1038/s41598-018-34267-0
Genome-wide patterns of local adaptation in Western European Drosophila melanogaster natural populations
Cited by: 20
Author(s): Lídia Mateo, Gabriel E. Rech
Software Mentions: 2
Published: about 6 years ago
10.1038/s41598-019-39110-8
Genetic map construction and QTL analysis of leaf-related traits in soybean under monoculture and relay intercropping
Cited by: 4
Author(s): Dai-Ling Liu, Siwei Chen, Xinchun Liu, Feng Yang, Weiguo Liu, Yuanbin She, Junbo Du, Chunyan Liu, Wenyu Yang, Xiaoling Wu
Software Mentions: 2
Published: over 5 years ago
10.1186/s12862-020-1591-0
The modular nature of protein evolution: domain rearrangement rates across eukaryotic life
Cited by: 29
Author(s): Elias Dohmen, Steffen Klasberg, Erich Bornberg‐Bauer, Sören W. Perrey, Carsten Kemena
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41598-020-59177-y
Physiological and transcriptomic analysis provide novel insight into cobalt stress responses in willow
Cited by: 15
Author(s): Yiming Wang, Qi Yang, Hui Xu, Yan-Jing Liu, Hai-Ling Yang
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41598-020-60030-5
Neural Functions Play Different Roles in Triple Negative Breast Cancer (TNBC) and non-TNBC
Cited by: 12
Author(s): Renbo Tan, Haoyang Li, Zhenyu Huang, Yi Zhou, Mengchu Tao, Xin Gao, Ying Xu
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41598-020-61422-3
Edgetic perturbation signatures represent known and novel cancer biomarkers
Cited by: 4
Author(s): Evans Kataka, Jan Zaucha, Goar Frishman, Andreas Ruepp, Dmitrij Frishman
Software Mentions: 2
Published: over 4 years ago
10.1186/s12862-014-0207-y
Functional phylogenomics analysis of bacteria and archaea using consistent genome annotation with UniFam
Cited by: 16
Author(s): Juanjuan Chai, Guruprasad Kora, Tae-Hyuk Ahn, Doreene R. Hyatt, Chongle Pan
Software Mentions: 2
Published: about 10 years ago