cran: gplots | Projects | Ecosyste.ms: Papers

10.7554/eLife.11469

An experimentally validated network of nine haematopoietic transcription factors reveals mechanisms of cell state stability
Cited by: 55
Author(s): Judith Schütte, Huange Wang, Stella Antoniou, Andrew Jarratt, Nicola K. Wilson, Joey Riepsaame, Fernando J. Calero-Nieto, Victoria Moignard, Silvia Basilico, Sarah Kinston, Rebecca Hannah, Mun Chiang Chan, Sylvia Nürnberg, Willem H. Ouwehand, Nicola Bonzanni, Marella Ftr de Bruijn, Berthold Göttgens
Software Mentions: 3
Published: over 10 years ago

10.1155/2020/3075729

Comprehensive Analysis of lncRNAs Related to the Prognosis of Esophageal Cancer Based on ceRNA Network and Cox Regression Model
Cited by: 4
Author(s): Chao Li, Wu Yao, Congcong Zhao, Yang Guo, Jingjing Wei, Yuanmeng Qi, Ruoxuan Huang, Qiuyan Zhao, Changfu Hao
Software Mentions: 3
Published: over 5 years ago

10.1186/s13099-020-00351-y

Gut microbiome of native Arab Kuwaitis
Cited by: 6
Author(s): Erica L Plummer, Dieter Bulach, Glen P. Carter, M. John Albert
Software Mentions: 3
Published: over 6 years ago

10.7554/eLife.47866

Elevating acetyl-CoA levels reduces aspects of brain aging
Cited by: 72
Author(s): António Currais, Ling Huang, Joshua Goldberg, Michael Petrascheck, Gamze Ates, António Pinto-Duarte, Maxim N. Shokhirev, David Schubert, Pamela Maher
Software Mentions: 3
Published: almost 7 years ago

10.1155/2019/7376034

Identification of Potential Biomarkers and Survival Analysis for Head and Neck Squamous Cell Carcinoma Using Bioinformatics Strategy: A Study Based on TCGA and GEO Datasets
Cited by: 37
Author(s): Yujie Shen, Jinhui Liu, Liqing Zhang, Shikun Dong, Jiacheng Zhang, Yaqin Liu, Han Zhou, Wei Dong
Software Mentions: 3
Published: about 7 years ago

10.7717/peerj.1602

Characterisation of the human uterine microbiome in non-pregnant women through deep sequencing of the V1-2 region of the 16S rRNA gene
Cited by: 195
Author(s): Hans Verstraelen, Ramiro Vílchez-Vargas, Fabian Desimpel, Ruy Jáuregui, Nele Vankeirsbilck, Steven Weyers, Rita Verhelst, Petra De Sutter, Dietmar H. Pieper, Tom Van de Wiele
Software Mentions: 3
Published: over 10 years ago

10.7717/peerj.175

Data reuse and the open data citation advantage
Cited by: 358
Author(s): Heather Piwowar
Software Mentions: 3
Published: almost 13 years ago

10.1371/journal.pone.0111297

Distinct Strains of Toxoplasma gondii Feature Divergent Transcriptomes Regardless of Developmental Stage
Cited by: 26
Author(s): Matthew McKnight Croken, Yanfen Ma, Lye Meng Markillie, Ron Taylor, Galya Orr, Louis M. Weiss, Kami Kim
Software Mentions: 3
Published: almost 12 years ago

10.7150/ijms.63402

Bioinformatics analysis identified shared differentially expressed genes as potential biomarkers for Hashimoto's thyroiditis-related papillary thyroid cancer
Cited by: 8
Author(s): Chang Liu, Yu Pan, Qinyu Li, Yifan Zhang
Software Mentions: 3
Published: over 5 years ago

10.1186/s13148-020-00895-5

H3K27ac acetylome signatures reveal the epigenomic reorganization in remodeled non-failing human hearts
Cited by: 17
Author(s): Jiayi Pei, Magdaléna Harakaľová, Thomas A. Treibel, R Thomas Lumbers, Bastiaan J. Boukens, Igor R. Efimov, Jip T. van Dinter, Arantxa González, Begoña López, Hamid el Azzouzi, Noortje van den Dungen, Christian G.M. van Dijk, Merle M. Krebber, Hester M. den Ruijter, Gérard Pasterkamp, Dirk J. Duncker, Edward E. S. Nieuwenhuis, Roel de Weger, Manon M. H. Huibers, Aryan Vink, Jason H. Moore, James Moon, Marianne C. Verhaar, Georgios Kararigas, Michal Mokrý, Folkert W. Asselbergs, Caroline Cheng
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pgen.1007390

Danger signals activate a putative innate immune system during regeneration in a filamentous fungus
Cited by: 25
Author(s): Elizabeth Medina-Castellanos, José Manuel Villalobos-Escobedo, Meritxell Riquelme, Nick D. Read, Cei Abreu‐Goodger, Alfredo Herrera-Estrella
Software Mentions: 3
Published: over 7 years ago

10.1186/s12864-020-06778-6

Impacts of local population history and ecology on the evolution of a globally dispersed pathogen
Cited by: 18
Author(s): Andreína I. Castillo, Carlos Chacón-Díaz, Neysa Rodríguez-Murillo, Helvécio Della Coletta-Filho, Rodrigo P. P. Almeida
Software Mentions: 3
Published: over 6 years ago

10.1186/s13073-019-0694-y

A KHDC3L mutation resulting in recurrent hydatidiform mole causes genome-wide DNA methylation loss in oocytes and persistent imprinting defects post-fertilisation
Cited by: 41
Author(s): Hannah Demond, Zahra Anvar, Bahia Namavar Jahromi, Ángela Sparago, Ankit Verma, Maryam Davari, Luciano Calzari, Silvia Russo, Mojgan Akbarzadeh‐Jahromi, David Gabriel Monk, Simon Andrews, Andrea Riccio, Gavin Kelsey
Software Mentions: 3
Published: over 6 years ago

10.1093/gbe/evv144

Comparative Genomics of a Bacterivorous Green Alga Reveals Evolutionary Causalities and Consequences of Phago-Mixotrophic Mode of Nutrition
Cited by: 27
Author(s): John A. Burns, Amber Paasch, Apurva Narechania, Eun-Soo Kim
Software Mentions: 3
Published: about 11 years ago

10.1007/s00784-021-03860-5

Gingival phenotype assessment methods and classifications revisited: a preclinical study
Cited by: 7
Author(s): Kai R. Fischer, Jasmin Büchel, Tiziano Testori, Giulio Rasperini, Thomas Attin, Patrick R. Schmidlin
Software Mentions: 3
Published: over 5 years ago

10.1186/1471-2164-15-773

Maize protein phosphatase gene family: identification and molecular characterization
Cited by: 53
Author(s): Kaifa Wei, Si Pan
Software Mentions: 3
Published: over 12 years ago

10.1186/s12864-020-6570-8

MicroRNA expression profile analysis in sperm reveals hsa-mir-191 as an auspicious omen of in vitro fertilization
Cited by: 37
Author(s): Hua Xu, Xin Wang, Zhikai Wang, Jianhui Li, Zhiming Xu, Maohua Miao, Guowu Chen, Xiang-Dong Lei, Jun Wu, Huijuan Shi, Ke Wang, Tiancheng Zhang, Xiaoxi Sun
Software Mentions: 3
Published: over 6 years ago

10.1186/s12864-021-07683-2

A comprehensive RNA-Seq-based gene expression atlas of the summer squash (Cucurbita pepo) provides insights into fruit morphology and ripening mechanisms
Cited by: 11
Author(s): Aliki Xanthopoulou, Javier Montero‐Pau, Belén Picó, Panagiotis Boumpas, Eleni Tsaliki, Harry S. Paris, Athanasios Tsaftaris, Apostolos Kalivas, Ιfigeneia Mellidou, Ioannis Ganopoulos
Software Mentions: 3
Published: over 5 years ago

10.1186/s13059-017-1251-x

Dynamic DNA methylation reconfiguration during seed development and germination
Cited by: 187
Author(s): Taiji Kawakatsu, Joseph R. Nery, Rosa Castanon, Joseph R. Ecker
Software Mentions: 3
Published: almost 9 years ago

10.1371/journal.pone.0213823

Natural and human-impacted diversity of bryophytes along an elevational gradient on an oceanic island (La Palma, Canarias)
Cited by: 4
Author(s): Raquel Hernández‐Hernández, Jürgen Kluge, Claudine Ah‐Peng, Juana María González‐Mancebo
Software Mentions: 3
Published: over 7 years ago

10.1038/s42003-020-01227-2

Nrf2 contributes to the weight gain of mice during space travel
Cited by: 25
Author(s): Takafumi Suzuki, Akira Uruno, Akane Yumoto, Keiko Taguchi, Mikiko Suzuki, Nobuhiko Harada, Rie Ryoke, Eriko Naganuma, Nanae Osanai, Aya Goto, Hiroko Suda, Ryan Browne, Akihito Otsuki, Fumiki Katsuoka, Michael Zorzi, Takahiro Yamazaki, Daisuke Saigusa, S. Koshiba, Takashi Nakamura, Satoshi Fukumoto, Hironobu Ikehata, Keizo Nishikawa, Norio Suzuki, Ikuo Hirano, Ritsuko Shimizu, Tetsuya Oishi, Hozumi Motohashi, Hirona Tsubouchi, Risa Okada, Takashi Kudo, Michihiko Shimomura, Thomas W. Kensler, Hiroyasu Mizuno, Masaki Shimizu, Satoru Takahashi, Dai Shiba, Masayuki Yamamoto
Software Mentions: 3
Published: almost 6 years ago

10.1186/s13059-014-0412-4

Non-targeted transcription factors motifs are a systemic component of ChIP-seq datasets
Cited by: 55
Author(s): Rebecca Worsley Hunt, Wyeth W. Wasserman
Software Mentions: 3
Published: about 12 years ago

10.1371/journal.pgen.1007238

EAT1 transcription factor, a non-cell-autonomous regulator of pollen production, activates meiotic small RNA biogenesis in rice anther tapetum
Cited by: 68
Author(s): Seijiro Ono, Hua Liu, Katsutoshi Tsuda, Eigo Fukai, Keisuke Tanaka, Takuji Sasaki, Ken–Ichi Nonomura
Software Mentions: 3
Published: over 8 years ago

10.1242/bio.014308

Genome-wide ChIP-seq analysis of human TOP2B occupancy in MCF7 breast cancer epithelial cells
Cited by: 40
Author(s): Catriona Manville, Kayleigh A. Smith, Zbysław Sońdka, Holly Ashlene Rance, Simon Cockell, Ian G. Cowell, Ka Cheong Lee, Nicholas J. Morris, Kay Padget, Graham Jackson, Caroline A. Austin
Software Mentions: 3
Published: almost 11 years ago

10.1111/acel.12707

Overexpression of PGC-1α in aging muscle enhances a subset of young-like molecular patterns
Cited by: 50
Author(s): Sofia F. Garcia, Nadee Nissanka, Edson Assunção Mareco, Susana G. Rossi, Susana Peralta, Francisca Díaz, Richard L. Rotundo, Robson Francisco Carvalho, Carlos T. Moraes
Software Mentions: 3
Published: over 8 years ago

10.1136/bmj.k452

Maternal thyroid function and child educational attainment: prospective cohort study
Cited by: 30
Author(s): Scott M. Nelson, Caroline Haig, Alex McConnachie, Naveed Sattar, Susan M. Ring, George Davey Smith, Debbie A. Lawlor, Robert Lindsay
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-017-3663-0

Transcriptome analysis of the two unrelated fungal β-lactam producers Acremonium chrysogenum and Penicillium chrysogenum: Velvet-regulated genes are major targets during conventional strain improvement programs
Cited by: 22
Author(s): Dominik Terfehr, Tim A. Dahlmann, Ulrich Kück
Software Mentions: 3
Published: over 9 years ago

10.1016/j.csbj.2021.04.008

Simultaneous profiling of Arabidopsis thaliana and Vibrio vulnificus MO6-24/O transcriptomes by dual RNA-seq analysis
Cited by: 5
Author(s): Yongsoon Park, Jong‐Seok Park, Mi Kyung Lee, Sung‐Hee Jung, Seon‐Kyu Kim, Choong-Min Ryu
Software Mentions: 3
Published: over 5 years ago

10.1186/s40168-016-0199-5

The structure and diversity of human, animal and environmental resistomes
Cited by: 310
Author(s): Chandan Pal, Johan Bengtsson‐Palme, Erik Kristiansson, D. G. Joakim Larsson
Software Mentions: 3
Published: almost 10 years ago

10.1371/journal.pone.0119741

Multivariate and Phylogenetic Analyses Assessing the Response of Bacterial Mat Communities from an Ancient Oligotrophic Aquatic Ecosystem to Different Scenarios of Long-Term Environmental Disturbance
Cited by: 12
Author(s): Silvia Pajares, Valeria Souza, Luis E. Eguiarte
Software Mentions: 3
Published: over 11 years ago

10.1093/dnares/dsy044

A unique life-strategy of an endophytic yeast Rhodotorula mucilaginosa JGTA-S1—a comparative genomics viewpoint
Cited by: 24
Author(s): Diya Sen, Karnelia Paul, Chinmay Saha, G. N. Mukherjee, Mayurakshi Nag, Samrat Ghosh, A. K. Das, A. Seal, Sucheta Tripathy
Software Mentions: 3
Published: over 7 years ago

10.1186/s12864-018-4510-7

Transcription start site profiling uncovers divergent transcription and enhancer-associated RNAs in Drosophila melanogaster
Cited by: 30
Author(s): Michael P. Meers, Karen Adelman, Robert J. Duronio, Brian D. Strahl, Daniel J. McKay, A. Gregory Matera
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-021-07426-3

Transcriptome analysis of the transdifferentiation of canine BMSCs into insulin producing cells
Cited by: 2
Author(s): Jinglu Wang, Pengxiu Dai, Tong Zou, Yangou Lv, Wen Zhao, Xinke Zhang, Yihua Zhang
Software Mentions: 3
Published: over 5 years ago

10.3390/genes11080884

Transcriptome Profiling and Differential Gene Expression in Canine Microdissected Anagen and Telogen Hair Follicles and Interfollicular Epidermis
Cited by: 7
Author(s): Dominique J Wiener, Kátia R. Groch, Magdalena A. T. Brunner, Tosso Leeb, Vidhya Jagannathan, Monika Maria Welle
Software Mentions: 3
Published: about 6 years ago

10.3390/genes8110310

Gut Microbiome and Putative Resistome of Inca and Italian Nobility Mummies
Cited by: 18
Author(s): Tasha M. Santiago-Rodríguez, Gino Fornaciari, Stefania Luciani, Gary A. Toranzos, Isolina Marota, Valentina Giuffra, Raúl J. Cano
Software Mentions: 3
Published: almost 9 years ago

10.7554/eLife.68466

LIN37-DREAM prevents DNA end resection and homologous recombination at DNA double-strand breaks in quiescent cells
Cited by: 10
Author(s): Bo-Ruei Chen, Yinan Wang, Anthony Tubbs, Dali Zong, Faith C Fowler, Nicholas Zolnerowich, Wei Wu, Amelia Bennett, Chun-Chin Chen, Wendy Feng, André Nussenzweig, Jessica K. Tyler, Barry P. Sleckman
Software Mentions: 3
Published: almost 5 years ago

10.1002/mbo3.312

Evaluation of <scp>DNA</scp> extraction kits and phylogenetic diversity of the porcine gastrointestinal tract based on Illumina sequencing of two hypervariable regions
Cited by: 52
Author(s): Katharina Burbach, Jana Seifert, Dietmar H. Pieper, Amélia Camarinha‐Silva
Software Mentions: 3
Published: almost 11 years ago

10.3390/genes8100268

Low-Grade Dysplastic Nodules Revealed as the Tipping Point during Multistep Hepatocarcinogenesis by Dynamic Network Biomarkers
Cited by: 10
Author(s): Lina Lu, Zhenfei Jiang, Yulin Dai, Luonan Chen
Software Mentions: 3
Published: almost 9 years ago

10.3390/microorganisms9040855

Use of an Alignment-Free Method for the Geographical Discrimination of GTPVs Based on the GPCR Sequences
Cited by: 0
Author(s): Tesfaye Rufael, Yang Liu, Melaku Sombo, Jacqueline Kasiiti Lichoti, Janchivdorj Erdenebaatar, Bazartseren Boldbaatar, Reingard Grabherr, Tirumala Bharani Kumar Settypalli, Francisco J. Berguido, Angelika Loitsch, Delesa Damena, Giovanni Cattoli, Adama Diallo, Charles Euloge Lamien
Software Mentions: 3
Published: over 5 years ago

10.1534/g3.119.400037

Evolution of Antibiotic Synthesis Gene Clusters in the Streptomyces globisporus TFH56, Isolated from Tomato Flower
Cited by: 6
Author(s): Gyeongjun Cho, Youn‐Sig Kwak
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0161967

CYR61 and TAZ Upregulation and Focal Epithelial to Mesenchymal Transition May Be Early Predictors of Barrett’s Esophagus Malignant Progression
Cited by: 6
Author(s): Joana Cardoso, Marta Mesquita, António Dias Pereira, Mónica Bettencourt-Dias, Paula Chaves, José B. Pereira-Leal
Software Mentions: 3
Published: almost 10 years ago

10.1534/g3.118.200910

Sex-Specific Co-expression Networks and Sex-Biased Gene Expression in the Salmonid Brook Charr Salvelinus fontinalis
Cited by: 18
Author(s): Ben J. G. Sutherland, Jenni M. Prokkola, Céline Audet, Louis Bernatchez
Software Mentions: 3
Published: over 7 years ago

10.1242/dmm.047803

Mutant non-coding RNA resource in mouse embryonic stem cells
Cited by: 3
Author(s): Jens Hansen, Harald von Melchner, Wolfgang Wurst
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pntd.0007397

Interplay between proinflammatory cytokines, miRNA, and tissue lesions in Anisakis-infected Sprague-Dawley rats
Cited by: 21
Author(s): Jerko Hrabar, Željka Trumbić, Ivana Bočina, Ivana Bušelić, Anamarija Vrbatović, Ivona Mladineo
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0078613

Distinct Phyllosphere Bacterial Communities on Arabidopsis Wax Mutant Leaves
Cited by: 77
Author(s): Eva E. Reisberg, U. Hildebrandt, Markus Riederer, Ute Hentschel
Software Mentions: 3
Published: almost 13 years ago

10.1128/mSphere.00017-18

Air-Dried Brown Seaweed, Ascophyllum nodosum , Alters the Rumen Microbiome in a Manner That Changes Rumen Fermentation Profiles and Lowers the Prevalence of Foodborne Pathogens
Cited by: 30
Author(s): Mi Zhou, Martin Hünerberg, Yanhong Chen, Tim Reuter, Tim A. McAllister, F. D. Evans, Alan T. Critchley, Le Luo Guan
Software Mentions: 3
Published: over 8 years ago

10.1007/s12253-015-9926-7

Exploring the Molecular Mechanism and Biomakers of Liver Cancer Based on Gene Expression Microarray
Cited by: 8
Author(s): Pengfei Liu, Wenhua Jiang, He Ren, Huilai Zhang, Jihui Hao
Software Mentions: 3
Published: over 11 years ago

10.1371/journal.pone.0134406

Differential Gene Expression in Colon Tissue Associated With Diet, Lifestyle, and Related Oxidative Stress
Cited by: 25
Author(s): Martha L. Slattery, Daniel F. Pellatt, Lila E. Mullany, Roger K. Wolff
Software Mentions: 3
Published: about 11 years ago

10.15252/embj.201696056

A novel microglial subset plays a key role in myelinogenesis in developing brain
Cited by: 316
Author(s): Agnieszka Włodarczyk, Inge R. Holtman, Martin Krueger, Nir Yogev, Julia Bruttger, Reza Khorooshi, Anouk Benmamar‐Badel, Jelkje J. de Boer-Bergsma, Nellie Anne Martin, Khalad Karram, Isabella Kramer, Erik Boddeke, Ari Waisman, Bart J. L. Eggen, Trevor Owens
Software Mentions: 3
Published: almost 9 years ago

10.15252/embj.201592383

Cytokine‐induced megakaryocytic differentiation is regulated by genome‐wide loss of a <scp>uSTAT</scp> transcriptional program
Cited by: 67
Author(s): Hyun Jung Park, Juan Li, Rebecca Hannah, Simon C. Biddie, Ana Leal-Cervantes, Kristina Kirschner, David Flores Santa Cruz, Veronika Sexl, Berthold Göttgens, Anthony Green
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pgen.1005748

Genome-Wide Transcriptional Regulation Mediated by Biochemically Distinct SWI/SNF Complexes
Cited by: 91
Author(s): Jesse R. Raab, Samuel Resnick, Terry Magnuson
Software Mentions: 3
Published: over 10 years ago

10.1186/s13071-020-04035-z

Dafachronic acid and temperature regulate canonical dauer pathways during Nippostrongylus brasiliensis infectious larvae activation
Cited by: 10
Author(s): Katherine Omueti Ayoade, Faith R. Carranza, Woong Hee Cho, Zhu Wang, Steven A. Kliewer, David J. Mangelsdorf, Jonathan D. C. Stoltzfus
Software Mentions: 3
Published: over 6 years ago

10.1534/g3.117.040105

Extensive Copy Number Variation in Fermentation-Related Genes AmongSaccharomyces cerevisiaeWine Strains
Cited by: 46
Author(s): Jacob L. Steenwyk, Antonis Rokas
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0169805

Novel Analysis of Immune Cells from Nasal Microbiopsy Demonstrates Reliable, Reproducible Data for Immune Populations, and Superior Cytokine Detection Compared to Nasal Wash
Cited by: 47
Author(s): Simon P. Jochems, Katherine Piddock, Jamie Rylance, Hugh Adler, Beatriz F. Carniel, Andrea Collins, Jenna F. Gritzfeld, Carole A. Hancock, Helen Hill, Jesús Reiné, Alexandra L. Seddon, Carla Solórzano, Syba Sunny, A Zachary Trimble, A. Wright, Seher Zaidi, Stephen B. Gordon, Daniela M. Ferreira
Software Mentions: 3
Published: over 9 years ago

10.1186/s12864-016-2906-9

An integrative genomics approach for identifying novel functional consequences of PBRM1 truncated mutations in clear cell renal cell carcinoma (ccRCC)
Cited by: 18
Author(s): Yuanyuan Wang, Xingyi Guo, Michael J. Bray, Zhiyong Ding, Zhongming Zhao
Software Mentions: 3
Published: about 10 years ago

10.1186/s12864-018-5207-7

Altered expression of K13 disrupts DNA replication and repair in Plasmodium falciparum
Cited by: 30
Author(s): Justin Gibbons, Katrina A. Button-Simons, Swamy Rakesh Adapa, Suzanne Li, Maxwell Pietsch, Min Zhang, Xiangyun Liao, John Adams, Michael T. Ferdig, Rays H. Y. Jiang
Software Mentions: 3
Published: over 7 years ago

10.15252/emmm.201708274

Identification of potential therapeutic targets in prostate cancer through a cross‐species approach
Cited by: 30
Author(s): Sarah Jurmeister, Antonio Ramos-Montoya, Carmen Sandi, Nelma Pértega‐Gomes, Karan Wadhwa, Alastair Lamb, Mark J. Dunning, Jan Attig, Jason S. Carroll, Lee G.D. Fryer, Sérgio Luís Felisbino, David E. Neal
Software Mentions: 3
Published: over 8 years ago

10.1038/s41598-021-87479-2

Soil CO2 emission and soil attributes associated with the microbiota of a sugarcane area in southern Brazil
Cited by: 3
Author(s): Mara Regina Moitinho, Daniel De Bortoli Teixeira, Elton da Silva Bicalho, Alan Rodrigo Panosso, Antônio Sérgio Ferraudo, Gener Tadeu Pereira, Siu Mui Tsai, Beatriz Maria Ferrari Borges, Newton La Scala
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0117439

Effects of the Diet on the Microbiota of the Red Palm Weevil (Coleoptera: Dryophthoridae)
Cited by: 65
Author(s): Matteo Montagna, Bessem Chouaia, Giuseppe Mazza, Erica M. Prosdocimi, Elena Crotti, Valeria Mereghetti, Violetta Vacchini, Annamaria Giorgi, Alessio De Biase, S. Longo, Rita Cervo, G.C. Lozzia, Alberto Alma, Claudio Bandi, Daniele Daffonchio
Software Mentions: 3
Published: over 11 years ago

10.1002/ece3.3542

Precopulatory but not postcopulatory male reproductive traits diverge in response to mating system manipulation inDrosophila melanogaster
Cited by: 15
Author(s): Kristina U. Wensing, Mareike Koppik, Claudia Fricke
Software Mentions: 3
Published: almost 9 years ago

10.1371/journal.pone.0082319

Testing the Reproducibility of Multiple Displacement Amplification on Genomes of Clonal Endosymbiont Populations
Cited by: 21
Author(s): Kirsten Ellegaard, Lisa Klasson, Siv G. E. Andersson
Software Mentions: 3
Published: over 12 years ago

10.3389/fvets.2021.666512

Tandem Mass Tag-Based Quantitative Proteomic Analysis of Chicken Bursa of Fabricius Infected With Reticuloendotheliosis Virus
Cited by: 3
Author(s): Dahan Yang, Xiaoping Lv, Shujun Zhang, Shangen Zheng
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0172521

Chronically dysregulated NOTCH1 interactome in the dentate gyrus after traumatic brain injury
Cited by: 16
Author(s): Noora Puhakka, Anna Bot, Niina Vuokila, Konrad J. Dębski, Katarzyna Łukasiuk, Asla Pitkänen
Software Mentions: 3
Published: over 9 years ago

10.3389/fpsyt.2021.632519

The Impact of COVID-19 Pandemic and Lockdown on Alcohol Consumption: A Perspective From Hair Analysis
Cited by: 9
Author(s): Eugenio Alladio, Lia Visintin, Tonia Lombardo, Roberto Testi, Alberto Salomone, Marco Vincenti
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-019-5460-4

RNA-sequencing analysis of shell gland shows differences in gene expression profile at two time-points of eggshell formation in laying chickens
Cited by: 22
Author(s): Samiullah Khan, Shu‐Biao Wu, Juliet R. Roberts
Software Mentions: 3
Published: over 7 years ago

10.3389/fpls.2020.01028

Bacterial Diversity and Interaction Networks of Agave lechuguilla Rhizosphere Differ Significantly From Bulk Soil in the Oligotrophic Basin of Cuatro Cienegas
Cited by: 19
Author(s): Nguyen E. López-Lozano, Andrea Echeverría Molinar, Elizabeth Alejandra Ortiz Durán, Maribel Hernández-Rosales, Valeria Souza
Software Mentions: 3
Published: about 6 years ago

10.1002/mbo3.494

wblE2 transcription factor in Streptomyces griseus S4‐7 plays an important role in plant protection
Cited by: 7
Author(s): Hyun Ji Cho, Young Chul Kwon, Da-Ran Kim, Gyeongjun Cho, Seong Won Hong, Dong-Won Bae, Youn‐Sig Kwak
Software Mentions: 3
Published: over 9 years ago

10.12952/journal.elementa.000064

Urban microbial ecology of a freshwater estuary of Lake Michigan
Cited by: 40
Author(s): James S. Fisher, Ryan J. Newton, Deborah K. Dila, Sandra L. McLellan
Software Mentions: 3
Published: over 11 years ago

10.3389/fpls.2020.00105

ATR-FTIR Microspectroscopy Brings a Novel Insight Into the Study of Cell Wall Chemistry at the Cellular Level
Cited by: 14
Author(s): Clément Cuello, Paul J. Marchand, Françoise Laurans, Camille Grand-Perret, Véronique Laine-Prade, Gilles Pilate, Annabelle Déjardin
Software Mentions: 3
Published: over 6 years ago

10.1128/mSystems.00075-16

Zonal Soil Type Determines Soil Microbial Responses to Maize Cropping and Fertilization
Cited by: 27
Author(s): Mengxin Zhao, Bo Sun, Linwei Wu, Qun Gao, Wang Feng, Chongqing Wen, Mengmeng Wang, Yuting Liang, Lauren Hale, Jizhong Zhou, Yunfeng Yang
Software Mentions: 3
Published: almost 10 years ago

10.3389/fpls.2017.00148

Comparative Genomics Integrated with Association Analysis Identifies Candidate Effector Genes Corresponding to Lr20 in Phenotype-Paired Puccinia triticina Isolates from Australia
Cited by: 28
Author(s): Jing Qin Wu, Sharadha Sakthikumar, Chongmei Dong, Peng Zhang, Christina A. Cuomo, Robert Park
Software Mentions: 3
Published: over 9 years ago

10.3390/microorganisms8070981

Comparison of Rumen Microbiota and Serum Biochemical Indices in White Cashmere Goats Fed Ensiled or Sun-Dried Mulberry Leaves
Cited by: 15
Author(s): Yaoyue Wang, Qingmiao Shen, Shu Zhong, Yulin Chen, Yuxin Yang
Software Mentions: 3
Published: about 6 years ago

10.1111/1462-2920.15546

A novel methoxydotrophic metabolism discovered in the hyperthermophilic archaeon Archaeoglobus fulgidus
Cited by: 9
Author(s): Cornelia U. Welte, R.M. de Graaf, Paula Dalcin Martins, Robert S. Jansen, Mike S. M. Jetten, Julia M. Kurth
Software Mentions: 3
Published: over 5 years ago

10.1186/s12870-015-0555-9

Microspore culture reveals complex meiotic behaviour in a trigenomic Brassica hybrid
Cited by: 20
Author(s): Annaliese S. Mason, Junko Takahira, Chhaya Atri, Birgit Samans, Alice Hayward, Wallace Cowling, Jacqueline Batley, Matthew N. Nelson
Software Mentions: 3
Published: about 11 years ago

10.3389/fpls.2016.02064

Cowpea Nodules Harbor Non-rhizobial Bacterial Communities that Are Shaped by Soil Type Rather than Plant Genotype
Cited by: 76
Author(s): Jakson Leite, Doreen Fischer, Luc Felicianus Marie Rouws, Paulo Ivan Fernandes‐Júnior, Andreas Hofmann, Susanne Kublik, Michael Schloter, Gustavo Ribeiro Xavier, Viviane Radl
Software Mentions: 3
Published: over 9 years ago

10.18632/aging.101578

High expression of the breast cancer susceptibility gene BRCA1 in long-lived termite kings
Cited by: 9
Author(s): Eisuke Tasaki, Yuki Mitaka, Tomonari Nozaki, Keiko Kobayashi, Kenji Matsuura, Yoshihito Iuchi
Software Mentions: 3
Published: almost 8 years ago

10.3389/fpls.2018.00968

QTL Mapping and Validation of Adult Plant Resistance to Stripe Rust in Chinese Wheat Landrace Humai 15
Cited by: 38
Author(s): Fengping Yuan, Qingdong Zeng, Jianhui Wu, Qilin Wang, Zujun Yang, Bang-Ping Liang, Xinhong Chen
Software Mentions: 3
Published: about 8 years ago

10.1186/s13072-018-0212-2

CRX directs photoreceptor differentiation by accelerating chromatin remodeling at specific target sites
Cited by: 31
Author(s): Philip A. Ruzycki, Xiaodong Zhang, Shiming Chen
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0054379

Characterization of the Vaginal Micro- and Mycobiome in Asymptomatic Reproductive-Age Estonian Women
Cited by: 199
Author(s): Tiina Drell, Triin Lillsaar, Lea Tummeleht, Jaak Simm, Anu Aaspõllu, Edda Väin, Ivo Saarma, Andres Salumets, Gilbert Donders, Madis Metsis
Software Mentions: 3
Published: over 13 years ago

10.1371/journal.pcbi.1003189

A Self-Directed Method for Cell-Type Identification and Separation of Gene Expression Microarrays
Cited by: 30
Author(s): Neta S. Zuckerman, Yair Noam, Andrea Goldsmith, Peter P. Lee
Software Mentions: 3
Published: about 13 years ago

10.1186/s40001-021-00586-8

NR4A3 and CCL20 clusters dominate the genetic networks in CD146+ blood cells during acute myocardial infarction in humans
Cited by: 3
Author(s): Yanhui Wang, Chen-Xin Li, Jessica M. Stephenson, Sean P. Marrelli, Yanming Kou, Dong Meng, Ting Wu
Software Mentions: 3
Published: almost 5 years ago

10.3390/microorganisms8081196

Gastric Microbiome Diversities in Gastric Cancer Patients from Europe and Asia Mimic the Human Population Structure and Are Partly Driven by Microbiome Quantitative Trait Loci
Cited by: 13
Author(s): Bruno Cavadas, Rui Camacho, Joana Ferreira, Rui M. Ferreira, Céu Figueiredo, Alvis Brāzma, Nuno A. Fonseca, Luı́sa Pereira
Software Mentions: 3
Published: about 6 years ago

10.1007/s00330-021-07693-4

Reliability of NI-RADS criteria in the interpretation of contrast-enhanced magnetic resonance imaging considering the potential role of diffusion-weighted imaging
Cited by: 5
Author(s): Fabian Henry Jürgen Elsholtz, Christoph Erxleben, Hans-Christian Bauknecht, Patrick Dinkelborg, Kilian Kreutzer, Bernd Hamm, Stefan M. Niehues
Software Mentions: 3
Published: over 5 years ago

10.3389/fpls.2017.02039

Arbuscular Mycorrhizal Fungus Enhances Lateral Root Formation in Poncirus trifoliata (L.) as Revealed by RNA-Seq Analysis
Cited by: 31
Author(s): Weili Chen, Juan Li, Honghui Zhu, Pengyang Xu, Jiezhong Chen, Qing Yao
Software Mentions: 3
Published: over 8 years ago

10.3389/fpls.2017.01331

A Novel Multivariate Approach to Phenotyping and Association Mapping of Multi-Locus Gametophytic Self-Incompatibility Reveals S, Z, and Other Loci in a Perennial Ryegrass (Poaceae) Population
Cited by: 20
Author(s): Daniel Thorogood, Steven Yates, Chloé Manzanares, Leif Skøt, Matthew J. Hegarty, Tina Blackmore, Susanne Barth, Bruno Studer
Software Mentions: 3
Published: about 9 years ago

10.1186/s12864-021-07847-0

Global analysis of protein lysine 2-hydroxyisobutyrylation (Khib) profiles in Chinese herb rhubarb (Dahuang)
Cited by: 5
Author(s): Tao Qi, Jinping Li, Hong Wang, Xiaofan Han, Junrong Li, Jinzhe Du
Software Mentions: 3
Published: about 5 years ago

10.1111/eva.12762

Patterns of cross‐resistance and collateral sensitivity between clinical antibiotics and natural antimicrobials
Cited by: 15
Author(s): Abigail Colclough, Jukka Corander, Samuel K. Sheppard, Sion C. Bayliss, Michiel Vos
Software Mentions: 3
Published: over 7 years ago

10.18632/aging.203451

Intravascular emboli relates to immunosuppressive tumor microenvironment and predicts prognosis in stage III colorectal cancer
Cited by: 1
Author(s): Xiangping Song, Di Xie, Fengbo Tan, Yuan Zhou, Yuqiang Li, Zhongyi Zhou, Qian Pei, Haiping Pei
Software Mentions: 3
Published: almost 5 years ago

10.1186/s12870-021-02919-5

Superoxide dismutase (SOD) as a selection criterion for triticale grain yield under drought stress: a comprehensive study on genomics and expression profiling, bioinformatics, heritability, and phenotypic variability
Cited by: 39
Author(s): Armin Saed-Moucheshi, Fatemeh Sohrabi, Elham Fasihfar, Fatemeh Baniasadi, Mehrnaz Riasat, Ali-Akbar Mozafari
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-015-1450-3

The UBC-40 Urothelial Bladder Cancer cell line index: a genomic resource for functional studies
Cited by: 80
Author(s): Julie Earl, Daniel Rico, Enrique Carrillo de Santa Pau, Benjamín Rodríguez-Santiago, Marinela Méndez-Pertuz, Herbert Auer, Gonzalo Vázquez Gómez, H. Barton Grossman, David G. Pisano, Wolfgang A. Schulz, Luís A. Pérez-Jurado, Alfredo Carrato, Dan Theodorescu, Stephen J. Chanock, Alfonso Valencia, Francisco X. Real
Software Mentions: 3
Published: over 11 years ago

10.1186/1471-2229-13-14

Transcriptional programming during cell wall maturation in the expanding Arabidopsis stem
Cited by: 34
Author(s): Hardy Hall, Brian E. Ellis
Software Mentions: 3
Published: over 13 years ago

10.1007/s00253-019-09701-6

Uncovering carbohydrate metabolism through a genotype-phenotype association study of 56 lactic acid bacteria genomes
Cited by: 52
Author(s): G. Buron-Moles, Anna Chailyan, Igor Dolejš, Jochen Förster, Marta Hanna Mikš
Software Mentions: 3
Published: over 7 years ago

10.3389/fpls.2016.01229

Differential Network Analysis Reveals Evolutionary Complexity in Secondary Metabolism of Rauvolfia serpentina over Catharanthus roseus
Cited by: 13
Author(s): Shivalika Pathania, Ganesh Bagler, Paramvir Singh Ahuja
Software Mentions: 3
Published: about 10 years ago

10.1186/s12864-019-5984-7

An insight into the sialome, mialome and virome of the horn fly, Haematobia irritans
Cited by: 14
Author(s): José M. C. Ribeiro, Humberto Julio Debat, Mariana Boiani, X. Ures, Sérgio Paulo Dejato da Rocha, Martı́n Breijo
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0118201

A Combined Gene Signature of Hypoxia and Notch Pathway in Human Glioblastoma and Its Prognostic Relevance
Cited by: 45
Author(s): Khushboo Irshad, Saroj Kant Mohapatra, Chitrangda Srivastava, Harshit Garg, Seema Mishra, Bhawana Dikshit, Chitra Sarkar, Deepak Gupta, P. Sarat Chandra, Parthaprasad Chattopadhyay, Subrata Sinha, Kunzang Chosdol
Software Mentions: 3
Published: over 11 years ago

10.1186/s12864-018-5241-5

The impact of genome evolution on the allotetraploid Nicotiana rustica – an intriguing story of enhanced alkaloid production
Cited by: 22
Author(s): Nicolas Sierro, James N. D. Battey, Lucien Bovet, Verena Liedschulte, Sonia Ouadi, JH Thomas, Hervé Broye, Hélène Laparra, Aline Vuarnoz, Gerhard K. Lang, Simon Goepfert, Manuel C. Peitsch, Nikolai V. Ivanov
Software Mentions: 3
Published: over 7 years ago

10.3389/fpls.2017.00882

Metabolome Dynamics of Smutted Sugarcane Reveals Mechanisms Involved in Disease Progression and Whip Emission
Cited by: 21
Author(s): Patrícia Dayane Carvalho Schaker, Leila Priscila Peters, Thaís Regiani Cataldi, Carlos Alberto Labate, Camila Caldana, Cláudia Barros Monteiro-Vitorello
Software Mentions: 3
Published: about 9 years ago

10.3389/fpls.2019.01642

Identification of Traits Contributing to High and Stable Yields in Different Soybean Varieties Across Three Chinese Latitudes
Cited by: 32
Author(s): Minmin Li, Ying Liu, Wang Chun-sheng, Xue Yang, Dongmei Li, Xiaoming Zhang, Chongjing Xu, Zhang Yan, Wenbin Li, Lin Zhao
Software Mentions: 3
Published: over 6 years ago

10.1186/1471-2164-14-540

Solanum torvum responses to the root-knot nematode Meloidogyne incognita
Cited by: 38
Author(s): Paolo Bagnaresi, T. Sala, Tiziana Irdani, Cristina Scotto, Antonella Lamontanara, Massimiliano Beretta, Giuseppe Leonardo Rotino, S. Sestili, Luigi Cattivelli, E. Sabatini
Software Mentions: 3
Published: about 13 years ago

10.3389/fpls.2017.00362

Transcriptome Analysis of the Melon-Fusarium oxysporum f. sp. melonis Race 1.2 Pathosystem in Susceptible and Resistant Plants
Cited by: 28
Author(s): Maria Silvia Sebastiani, Paolo Bagnaresi, S. Sestili, Chiara Biselli, Antonella Zechini, Luigi Orrù, Luigi Cattivelli, N. Ficcadenti
Software Mentions: 3
Published: over 9 years ago

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