10.1002/pchj.309

Seeing the forest in order and the trees in disorder: Environmental orderliness versus disorderliness affects the perceptual processing style
Cited by: 2
Author(s): Kaiyun Li, Huijing Yang, Xueyang Wang, Tuo Zhang, Lu Ping, Fengxun Lin
Software Mentions: 2
Published: about 7 years ago

10.3758/s13423-021-01906-z

Mental representation of autobiographical memories along the sagittal mental timeline: Evidence from spatiotemporal interference
Cited by: 9
Author(s): Alice Teghil, Isabel Beatrice Marc, Maddalena Boccia
Software Mentions: 2
Published: over 5 years ago

10.3389/fpls.2016.00794

Nod Factor Effects on Root Hair-Specific Transcriptome of Medicago truncatula: Focus on Plasma Membrane Transport Systems and Reactive Oxygen Species Networks
Cited by: 47
Author(s): Isabelle Damiani, Alice Drain, Marjorie Guichard, Sandrine Balzergue, Alexandre Boscari, Jean-Christophe Boyer, Véronique Brunaud, Sylvain Cottaz, Corinne Rancurel, Martine Da Rocha, Cécile Fizames, Sébastien Fort, Isabelle Gaillard, Vincent Maillol, Etienne G. J. Danchin, Hatem Rouached, E. Samain, Yanhua Su, Julien Thouin, Bruno Touraine, Alain Puppo, Jean‐Marie Frachisse, Nicolas Pauly, Hervé Sentenac
Software Mentions: 2
Published: about 10 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: about 11 years ago

10.3389/fpsyt.2021.633102

Spouse-Appraised Memory Functioning Predicts Memory Decline Better Than Subjective Memory Complaints in Community Dwelling Older Adults at Genetic Risk for Alzheimer's Disease
Cited by: 3
Author(s): Youssef Bellaali, John L. Woodard, Bernard Hanseeuw, Adrian Ivanoiu
Software Mentions: 2
Published: over 5 years ago

10.1186/s12920-018-0415-1

Distributed gene clinical decision support system based on cloud computing
Cited by: 2
Author(s): Bo Xu, Changlong Li, Hang Zhuang, Jiali Wang, Qingfeng Wang, Chao Wang, Xuehai Zhou
Software Mentions: 2
Published: over 7 years ago

10.1186/1471-2105-12-S14-S7

ClipCrop: a tool for detecting structural variations with single-base resolution using soft-clipping information
Cited by: 42
Author(s): Shin Suzuki, Tomohiro Yasuda, Yuichi Shiraishi, Satoru Miyano, Masao Nagasaki
Software Mentions: 2
Published: over 14 years ago

10.1186/s12920-015-0101-5

Molecular subtypes of urothelial carcinoma are defined by specific gene regulatory systems
Cited by: 55
Author(s): Pontus Eriksson, Mattias Aine, Srinivas Veerla, Fredrik Liedberg, Gottfrid Sjödahl, Mattias Höglund
Software Mentions: 2
Published: about 11 years ago

10.1186/1471-2164-15-20

Sex specific expression and distribution of small RNAs in papaya
Cited by: 21
Author(s): Rishi Aryal, Guru Jagadeeswaran, Yun Zheng, Qingyi Yu, Ramanjulu Sunkar, Ray Ming
Software Mentions: 2
Published: over 12 years ago

10.1186/1755-8794-4-57

Identification of transcriptional regulatory networks specific to pilocytic astrocytoma
Cited by: 18
Author(s): Hrishikesh Deshmukh, Jinsheng Yu, Jahangheer Shaik, Tobey J. MacDonald, Arie Perry, Jacqueline E. Payton, David H. Gutmann, Mark A. Watson, Rakesh Nagarajan
Software Mentions: 2
Published: about 15 years ago

10.3389/fpls.2021.657240

Comparison of Short-Read Sequence Aligners Indicates Strengths and Weaknesses for Biologists to Consider
Cited by: 21
Author(s): Ryan Musich, Lance Cadle‐Davidson, Michael V. Osier
Software Mentions: 2
Published: over 5 years ago

10.3389/fpls.2014.00633

Effects of proteome rebalancing and sulfur nutrition on the accumulation of methionine rich δ-zein in transgenic soybeans
Cited by: 27
Author(s): Won‐Seok Kim, Joseph M. Jez, Hari B. Krishnan
Software Mentions: 2
Published: over 11 years ago

10.1186/1471-2164-13-417

Improving mapping and SNP-calling performance in multiplexed targeted next-generation sequencing
Cited by: 6
Author(s): Abdou ElSharawy, Michael Förster, Nadine Schracke, Andreas Keller, Ingo Thomsen, Britt‐Sabina Petersen, Björn Stade, Peer F. Stähler, Stefan Schreiber, Philip Rosenstiel, André Franke
Software Mentions: 2
Published: almost 14 years ago

10.1186/s12885-017-3226-4

Genome-wide methylation analysis identifies a core set of hypermethylated genes in CIMP-H colorectal cancer
Cited by: 27
Author(s): Tyler McInnes, Donghui Zou, Dasari S. Rao, Francesca Maree Munro, Vicky Phillips, John L. McCall, Michael A. Black, Anthony E. Reeve, Parry Guilford
Software Mentions: 2
Published: over 9 years ago

10.1186/1471-2164-10-196

Molecular profiles of Quadriceps muscle in myostatin-null mice reveal PI3K and apoptotic pathways as myostatin targets
Cited by: 78
Author(s): Ilham Chelh, Bruno Meunier, Brigitte Picard, Mark James Reecy, Catherine Chevalier, Jean-François Hocquette, Isabelle Cassar-Malek
Software Mentions: 2
Published: over 17 years ago

10.3389/fphys.2018.00625

Immunomodulatory Effects of Dietary Seaweeds in LPS Challenged Atlantic Salmon Salmo salar as Determined by Deep RNA Sequencing of the Head Kidney Transcriptome
Cited by: 19
Author(s): Arjan P. Palstra, J. Kals, A. Blanco Garcia, Ron P. Dirks, M. Poelman
Software Mentions: 2
Published: about 8 years ago

10.1186/1471-2164-9-580

Development and validation of a gene expression oligo microarray for the gilthead sea bream (Sparus aurata)
Cited by: 58
Author(s): Serena Ferraresso, Nicola Vitulo, Alba Nicoletta Mininni, Chiara Romualdi, Barbara Cardazzo, Enrico Negrisolo, Richard Reinhardt, Adelino V.M. Canário, Tomaso Patarnello, Luca Bargelloni
Software Mentions: 2
Published: over 17 years ago

10.1089/ast.2016.1533

Habitability on Early Mars and the Search for Biosignatures with the ExoMars Rover
Cited by: 350
Author(s): Jorge L. Vago, Francès Westall, A. J. Coates, R. Jaumann, Oleg Korablev, Valérie Ciarletti, И. Г. Митрофанов, Jean-Luc Josset, M. C. De Sanctis, Jean‐Pierre Bibring, Fernando Rull, Fred Goesmann, Harald Steininger, W. Goetz, W. B. Brinckerhoff, Cyril Szopa, F. Raulin, Howell G. M. Edwards, Lyle G. Whyte, Alberto González Fairén, J. C. Bridges, Ernst Hauber, G. G. Ori, Stéphanie C. Werner, D. Loizeau, R. O. Kuzmin, R. M. E. Williams, J. Flahaut, F. Forget, D. Rodionov, H. Svedhem, E. Sefton‐Nash, Gerhard Kminek, L. Lorenzoni, Luc Joudrier, В. А. Михайлов, Alexander Zashchirinskiy, S. Alexashkin, F. Calantropio, Andrea Merlo, Pantelis Poulakis, Olivier Witasse, Olivier Bayle, Silvia Bayón, Uwe J. Meierhenrich, John Carter, Juan Manuel García‐Ruiz, P. Baglioni, A. F. C. Haldemann, Andrew Ball, A. Debus, Robert Lindner, Frédéric Haessig, D. Monteiro, R. Trautner, Christoph Voland, Pierre Rebeyre, D. Goulty, F. Didot, Stephen Durrant, Eric Zekri, D. Koschny, Andrea De Toni, Gianfranco Visentin, Martin Zwick, M. van Winnendael, Martín Azkarate, Christophe Carreau
Software Mentions: 2
Published: about 9 years ago

10.3389/fpls.2014.00533

A chromatin modifying enzyme, SDG8, is involved in morphological, gene expression, and epigenetic responses to mechanical stimulation
Cited by: 43
Author(s): Christopher I. Cazzonelli, Nazia Nisar, Andrea C. Roberts, Kevin Murray, Justin O. Borevitz, Barry J. Pogson
Software Mentions: 2
Published: almost 12 years ago

10.1186/s12885-019-5786-y

miR-520d-5p can reduce the mutations in hepatoma cancer cells and iPSCs-derivatives
Cited by: 5
Author(s): Naruhisa Miura, Y. Ishihara, Yugo Miura, Mai Kimoto, Keigo Miura
Software Mentions: 2
Published: about 7 years ago

10.1186/1471-2148-14-19

Integrated shotgun sequencing and bioinformatics pipeline allows ultra-fast mitogenome recovery and confirms substantial gene rearrangements in Australian freshwater crayfishes
Cited by: 85
Author(s): Han Ming Gan, Mark B. Schultz, Christopher M. Austin
Software Mentions: 2
Published: over 12 years ago

10.1038/s41598-017-09285-z

Genome-wide Target Enrichment-aided Chip Design: a 66 K SNP Chip for Cashmere Goat
Cited by: 11
Author(s): Xuguang Qiao, Rui Su, Yan Wang, Ruijun Wang, Ting Yang, Xiaokai Li, Wei Chen, Shiyang He, Yu Jiang, Qiwu Xu, Wenting Wan, Yaolei Zhang, Wenguang Zhang, Chen Jiang, Bin Liu, Xin Liu, Yixing Fan, Duoyuan Chen, Jiang Huai-zhi, Dongming Fang, Zhihong Liu, Xiaowen Wang, Yanjun Zhang, Danqing Mao, Zhiying Wang, Ran Di, Qianjun Zhao, Tao Zhong, Huanming Yang, Jian Wang, Wen Wang, Yang Dong, Xiaoli Chen, Xun Xu, Jinquan Li
Software Mentions: 2
Published: almost 9 years ago

10.3389/fped.2019.00343

Biallelic Missense Mutation in the ECEL1 Underlies Distal Arthrogryposis Type 5 (DA5D)
Cited by: 14
Author(s): Muhammad Umair, Amjad Khan, Amir Hayat, Safdar Abbas, Abdulaziz Asiri, Muhammad Younus, Wajid Amin, Shoaib Nawaz, Shazia Khan, Erum Malik, Majid Alfadhel, Farooq Ahmad
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-017-09247-5

Prevalence of Rare Genetic Variations and Their Implications in NGS-data Interpretation
Cited by: 17
Author(s): Yangrae Cho, Chul‐Ho Lee, Eun-Goo Jeong, Minho Kim, Jong Hui Hong, Yun Woong Ko, Bomnun Lee, Gilly Yun, Byong Joon Kim, Jongcheol Jung, Jongsun Jung, Jin Sung Lee
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12885-016-2109-4

Regulation of the tumour suppressor PDCD4 by miR-499 and miR-21 in oropharyngeal cancers
Cited by: 49
Author(s): Xiaoying Zhang, Harriet E. Gee, Barbara Rose, Cheok Soon Lee, Jonathan Clark, Michael Elliott, Jennifer R. Gamble, Murray J. Cairns, Adrian L. Harris, Samantha Khoury, Nham Tran
Software Mentions: 2
Published: over 10 years ago

10.1038/s41598-017-15516-0

Identification of selection signals by large-scale whole-genome resequencing of cashmere goats
Cited by: 35
Author(s): Xiaokai Li, Rui Su, Wenting Wan, Wenguang Zhang, Jiang Huai-zhi, Xuguang Qiao, Yixing Fan, Yanjun Zhang, Ruijun Wang, Zhihong Liu, Zhiying Wang, Bin Liu, Yue Ma, Hongping Zhang, Qianjun Zhao, Tao Zhong, Ran Di, Yu Jiang, Wei Chen, Wen Wang, Yang Dong, Jinquan Li
Software Mentions: 2
Published: over 8 years ago

10.3389/fped.2021.652011

Identification of a Rare Exon 19 Skipping Mutation in ALMS1 Gene in Alström Syndrome Patients From Two Unrelated Saudi Families
Cited by: 8
Author(s): Omar I. Saadah, Babajan Banaganapalli, Naglaa M. Kamal, Ahmed N. Sahly, Hadeel A. Alsufyani, Arif Mohammed, Aftab Ahmad, Khalidah Khalid Nasser, Jumana Y. Al‐Aama, Noor Ahmad Shaik
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2015.00163

Hidden among the crowd: differential DNA methylation-expression correlations in cancer occur at important oncogenic pathways
Cited by: 12
Author(s): Adrián Mosquera Orgueira
Software Mentions: 2
Published: about 11 years ago

10.3389/fgene.2020.00406

Analysis of the Mouse Y Chromosome by Single-Molecule Sequencing With Y Chromosome Enrichment
Cited by: 9
Author(s): Yuki Yano, Tomoki Chiba, Hiroshi Asahara
Software Mentions: 2
Published: about 6 years ago

10.1186/1471-2180-12-22

A comparison of two distinct murine macrophage gene expression profiles in response to Leishmania amazonensisinfection
Cited by: 24
Author(s): Christian M. Probst, Rodrigo A Silva, Juliana Perrone Bezerra de Menezes, Taís Fontoura de Almeida, Ivana Nunes Gomes, Andreia Cristine Dallabona, Luiz Shozo Ozaki, Gregory A. Buck, Daniela Parada Pavoni, Marco Aurélio Krieger, Patrícia Sampaio Tavares Veras
Software Mentions: 2
Published: over 14 years ago

10.3389/fphys.2020.610049

Physiological Effects of Water Flow Induced Swimming Exercise in Seabream Sparus aurata
Cited by: 16
Author(s): Arjan P. Palstra, Ana Roque, L. Kruijt, Pauline Jéhannet, Jaume Pérez‐Sánchez, Ron P. Dirks
Software Mentions: 2
Published: over 5 years ago

10.3389/fpsyg.2017.00855

The Affective Norms for Polish Short Texts (ANPST) Database Properties and Impact of Participants’ Population and Sex on Affective Ratings
Cited by: 11
Author(s): Kamil K. Imbir
Software Mentions: 2
Published: about 9 years ago

10.1093/g3journal/jkab076

Evidence of gene nucleotide composition favoring replication and growth in a fastidious plant pathogen
Cited by: 5
Author(s): Andreína I. Castillo, Rodrigo P. P. Almeida
Software Mentions: 2
Published: over 5 years ago

10.1073/pnas.2022928118

Signatures of immune dysfunction in HIV and HCV infection share features with chronic inflammation in aging and persist after viral reduction or elimination
Cited by: 16
Author(s): Cesar J. L. Angel, Edward A. Pham, Huixun Du, Francesco Vallania, Benjamin Fram, Kevin Pérez, Thai Nguyen, Yael Rosenberg-Hasson, Aijaz Ahmed, Cornelia L. Dekker, Philip Grant, Purvesh Khatri, Holden T. Maecker, Jeffrey S. Glenn, Mark M. Davis, David Furman
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2407-11-332

Serum estradiol levels associated with specific gene expression patterns in normal breast tissue and in breast carcinomas
Cited by: 35
Author(s): Vilde Drageset Haakensen, Trine Bjøro, Torben Lüders, Margit Riis, Ida K. Bukholm, Vessela N. Kristensen, Melissa A. Troester, Marit M. Homen, Giske Ursin, Anne Lise Børresen-Dale, Åslaug Helland
Software Mentions: 2
Published: almost 15 years ago

10.3389/fgene.2020.603093

Detection of Pathogenic Microbe Composition Using Next-Generation Sequencing Data
Cited by: 0
Author(s): Huijing Zhao, Shuang Wang, Xiguo Yuan
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2019.00296

Mining Magnaporthe oryzae sRNAs With Potential Transboundary Regulation of Rice Genes Associated With Growth and Defense Through Expression Profile Analysis of the Pathogen-Infected Rice
Cited by: 7
Author(s): Hao Zhang, Sifei Liu, Haowu Chang, Mengping Zhan, Qing‐Ming Qin, Borui Zhang, Zhi Li, Yuanning Liu
Software Mentions: 2
Published: over 7 years ago

10.3389/fgene.2019.01190

Whole Genome Resequencing Reveals Selection Signatures Associated With Important Traits in Ethiopian Indigenous Goat Populations
Cited by: 6
Author(s): Haile Berihulay, Yefang Li, Berihu Gebrekidan, Gebremedhin Gebreselassie, Xuexue Liu, Lin Jiang, Yue Ma
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-021-07456-x

Immune profiles of male giant panda (Ailuropoda melanoleuca) during the breeding season
Cited by: 3
Author(s): Hsin-Hsin Shen, Caiwu Li, Ming He, Yan Huang, Jing Wang, Minglei Wang, Bisong Yue, Xiuyue Zhang
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-018-33752-w

The pathogenic mechanisms of Tilletia horrida as revealed by comparative and functional genomics
Cited by: 13
Author(s): Ai‐Jun Wang, Linxiu Pang, Na Wang, Peng Ai, Desuo Yin, Shuangcheng Li, Qi Deng, Jun Zhu, Yueyang Liang, Jianqing Zhu, Ping Li, Anqi Zheng
Software Mentions: 2
Published: almost 8 years ago

10.3389/fgene.2017.00231

Using RNA Sequence and Structure for the Prediction of Riboswitch Aptamer: A Comprehensive Review of Available Software and Tools
Cited by: 29
Author(s): Deborah Antunes, Natasha Andressa Nogueira Jorge, Ernesto R. Caffarena, Fábio Passetti
Software Mentions: 2
Published: over 8 years ago

10.3389/fgene.2021.634635

Research on the Mechanism of Soybean Resistance to Phytophthora Infection Using Machine Learning Methods
Cited by: 5
Author(s): Junxia Chi, Shizeng Song, Hao Zhang, Yuanning Liu, Hengyi Zhao, Liyan Dong
Software Mentions: 2
Published: over 5 years ago

10.3389/fendo.2012.00133

Thyroid cancer cell lines: an overview
Cited by: 104
Author(s): Manuel Saiselet, Sébastien Floor, Maxime Tarabichi, Geert Dom, Aline Hébrant, Wilma C.G. van Staveren, Carine Maenhaut
Software Mentions: 2
Published: over 14 years ago

10.1186/s12864-015-1295-9

Inorganic Arsenic-induced cellular transformation is coupled with genome wide changes in chromatin structure, transcriptome and splicing patterns
Cited by: 39
Author(s): Caitlyn Riedmann, Ye Ma, Manana Melikishvili, Steven Grason Godfrey, Zhou Zhang, Kuey Chu Chen, Eric C. Rouchka, Yvonne Fondufe‐Mittendorf
Software Mentions: 2
Published: over 11 years ago

10.1007/s10456-016-9527-4

Identification of HIF-2α-regulated genes that play a role in human microvascular endothelial sprouting during prolonged hypoxia in vitro
Cited by: 40
Author(s): Tessa D. Nauta, Marloes van den Broek, S. Gibbs, Tineke C. T. M. van der Pouw‐Kraan, Cees B.M. Oudejans, Victor W.M. van Hinsbergh, Pieter Koolwijk
Software Mentions: 2
Published: almost 10 years ago

10.3389/fncom.2016.00077

ARTIE: An Integrated Environment for the Development of Affective Robot Tutors
Cited by: 7
Author(s): Luis-Eduardo Imbernón Cuadrado, Ángeles Manjarrés Riesco, Félix de la Paz López
Software Mentions: 2
Published: almost 10 years ago

10.1186/1471-2407-10-196

Genomic expression and single-nucleotide polymorphism profiling discriminates chromophobe renal cell carcinoma and oncocytoma
Cited by: 88
Author(s): Min‐Han Tan, Chin Fong Wong, Hwei Ling Tan, Ximing J. Yang, Jonathon A. Ditlev, Daisuke Matsuda, Sok Kean Khoo, Jun Sugimura, Tomoaki Fujioka, Kyle A. Furge, Eric J. Kort, Sophie Giraud, Sophie Ferlicot, Philippe Vielh, Delphine Amsellem-Ouazana, B Debré, T. Flam, Nicolas Thiounn, Marc Zerbib, Benoît Galand, S. Droupy, Vincent Molinié, Annick Vieillefond, Puay Hoon Tan, Stéphane Richard, Bin Tean Teh
Software Mentions: 2
Published: about 16 years ago

10.3389/fcell.2021.715275

Identification of Somatic Mutation-Driven Immune Cells by Integrating Genomic and Transcriptome Data
Cited by: 2
Author(s): Ying Jiang, Buhong Zheng, Yang Yang, Xiangmei Li, Junwei Han
Software Mentions: 2
Published: about 5 years ago

10.1186/1471-2164-7-114

Gene expression alterations in brains of mice infected with three strains of scrapie
Cited by: 81
Author(s): Pamela J. Skinner, H. Abbassi, Bruce Chesebro, Richard E. Race, Cavan Reilly, Ashley T. Haase
Software Mentions: 2
Published: about 20 years ago

10.1038/s41598-019-47218-0

E2F1 Drives Breast Cancer Metastasis by Regulating the Target Gene FGF13 and Altering Cell Migration
Cited by: 48
Author(s): Daniel P. Hollern, Matthew Swiatnicki, Jonathan Rennhack, Sean A. Misek, Brooke C. Matson, Andrew McAuliff, Kathleen A. Gallo, Kathleen M. Caron, Eran R. Andrechek
Software Mentions: 2
Published: about 7 years ago

10.1186/s12864-018-4890-8

A high-density genetic map of extra-long staple cotton (Gossypium barbadense) constructed using genotyping-by-sequencing based single nucleotide polymorphic markers and identification of fiber traits-related QTL in a recombinant inbred line population
Cited by: 24
Author(s): Fan Lü, Liping Wang, Xinyi Wang, Haiyan Zhang, Yanfei Zhu, Jiayan Guo, Wenwei Gao, Hao Geng, Quanjia Chen, Yanying Qu
Software Mentions: 2
Published: about 8 years ago

10.1186/1471-2407-10-490

Transcriptional profiling of ErbB signalling in mammary luminal epithelial cells - interplay of ErbB and IGF1 signalling through IGFBP3 regulation
Cited by: 17
Author(s): Jenny Worthington, Mariana Fianco Bertani, Hong‐Lin Chan, Bertran Gerrits, John F. Timms
Software Mentions: 2
Published: almost 16 years ago

10.3389/fcell.2021.607782

Hypermethylation and Downregulation of UTP6 Are Associated With Stemness Properties, Chemoradiotherapy Resistance, and Prognosis in Rectal Cancer: A Co-expression Network Analysis
Cited by: 1
Author(s): Yiyi Zhang, Qun Gao, Yong Wu, Yong Peng, Jinfu Zhuang, Yuanfeng Yang, Weizhong Jiang, Xing Liu, Guoxian Guan
Software Mentions: 2
Published: almost 5 years ago

10.3389/fcell.2020.00242

Detection of Allosteric Effects of lncRNA Secondary Structures Altered by SNPs in Human Diseases
Cited by: 7
Author(s): Xiaoyan Lu, Yu Ding, Yu Bai, Jing Li, Guosi Zhang, Siyu Wang, Wenyan Gao, Liangde Xu, Hong Wang
Software Mentions: 2
Published: over 6 years ago

10.3389/fcell.2020.628222

Structural and Biochemical Characterization of EFhd1/Swiprosin-2, an Actin-Binding Protein in Mitochondria
Cited by: 6
Author(s): Sang A Mun, Jongseo Park, Kyoung Ryoung Park, Youngjin Lee, Jung Youn Kang, Tae‐In Park, Minho Jin, Jamie O. Yang, Chang‐Duk Jun, Soo Hyun Eom
Software Mentions: 2
Published: over 5 years ago

10.1186/s12864-019-5915-7

Integrated application of multi-omics provides insights into cold stress responses in pufferfish Takifugu fasciatus
Cited by: 46
Author(s): Xintian Wen, Yadong Hu, Xinyu Zhang, Xiaozhen Wei, Tao Wang, Shaowu Yin
Software Mentions: 2
Published: about 7 years ago

10.3389/fbioe.2021.731247

Rapid Enabling of Gluconobacter oxydans Resistance to High D-Sorbitol Concentration and High Temperature by Microdroplet-Aided Adaptive Evolution
Cited by: 3
Author(s): Li Liu, Weizhu Zeng, Shiqin Yu, Jianghua Li, Jingwen Zhou
Software Mentions: 2
Published: almost 5 years ago

10.3389/fbioe.2020.00882

Cell Reprogramming With CRISPR/Cas9 Based Transcriptional Regulation Systems
Cited by: 26
Author(s): K. M. Shakirova, Viktoriia Y. Ovchinnikova, Э. Б. Дашинимаев
Software Mentions: 2
Published: about 6 years ago

10.3389/fbioe.2020.00711

Development and Application of CRISPR/Cas in Microbial Biotechnology
Cited by: 36
Author(s): Wentao Ding, Zhipeng Yang, Shuobo Shi
Software Mentions: 2
Published: about 6 years ago

10.1186/1471-2164-14-191

Multiphasic analysis of whole exome sequencing data identifies a novel mutation of ACTG1 in a nonsyndromic hearing loss family
Cited by: 33
Author(s): Gibeom Park, Jungsoo Gim, Ah Reum Kim, Kyou‐Sup Han, Hyosang Kim, Seung-Ha Oh, Taesung Park, Woong-Yang Park, Byung Yoon Choi
Software Mentions: 2
Published: over 13 years ago

10.1186/1471-2164-13-354

Genome-wide SNP discovery in walnut with an AGSNP pipeline updated for SNP discovery in allogamous organisms
Cited by: 37
Author(s): Frank M. You, Karin R. Deal, Jirui Wang, Monica Britton, Joseph Fass, Dazhen Lin, Abhaya M. Dandekar, Charles A. Leslie, Mallikarjuna K. Aradhya, Ming Luo, Jan Dvořák
Software Mentions: 2
Published: over 14 years ago

10.1186/s12915-020-00928-8

The transcriptional trajectories of pluripotency and differentiation comprise genes with antithetical architecture and repetitive-element content
Cited by: 5
Author(s): Aristeidis G. Telonis, Isidore Rigoutsos
Software Mentions: 2
Published: over 5 years ago

10.1186/s12864-018-4791-x

Identification of recombination events in outbred species with next-generation sequencing data
Cited by: 5
Author(s): Shentong Tao, Jiyan Wu, Dan Yao, Yuhua Chen, Wenguo Yang, Chunfa Tong
Software Mentions: 2
Published: about 8 years ago

10.1007/978-3-030-49392-9_15

Results from a Replicated Experiment on the Affective Reactions of Novice Developers When Applying Test-Driven Development
Cited by: 0
Author(s): Simone Romano, Giuseppe Scanniello, María Teresa Baldassarre, Davide Fucci, Danilo Caivano
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-020-69351-x

A negative covariation between toxoplasmosis and CoVID-19 with alternative interpretations
Cited by: 20
Author(s): Łukasz Jankowiak, Lajos Rózsa, Piotr Tryjanowski, Anders Pape Møller
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-020-69152-2

Transcriptional portrait of M. bovis BCG during biofilm production shows genes differentially expressed during intercellular aggregation and substrate attachment
Cited by: 10
Author(s): Mario Alberto Flores-Valdéz, Michel de Jesús Aceves-Sánchez, Eliza J.R. Peterson, Nitin S. Baliga, Jorge Madrigal, Miguel A. De la Cruz, Miguel A. Ares, Sarah E M Born, Martin I. Voskuil, Nayeli Areli Pérez-Padilla, Mirna Burciaga-Flores, Tanya A. Camacho-Villegas, María Guadalupe Espinoza-Jorge
Software Mentions: 2
Published: about 6 years ago

10.3389/fgene.2020.00113

FBXW4 Acts as a Protector of FOLFOX-Based Chemotherapy in Metastatic Colorectal Cancer Identified by Co-Expression Network Analysis
Cited by: 6
Author(s): Yiyi Zhang, Lijun Sun, Xiaojie Wang, Yanwu Sun, Ying Chen, Meifang Xu, Pan Chi, Xingrong Lu, Zongbin Xu
Software Mentions: 2
Published: over 6 years ago

10.1186/s12915-020-0763-0

Ribosomal RNA fragmentation into short RNAs (rRFs) is modulated in a sex- and population of origin-specific manner
Cited by: 28
Author(s): Tess Cherlin, Rogan Magee, Jing Yi, Venetia Pliatsika, Phillipe Loher, Isidore Rigoutsos
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-017-4098-3

Biological networks in Parkinson’s disease: an insight into the epigenetic mechanisms associated with this disease
Cited by: 28
Author(s): Paulami Chatterjee, Dilip Roy, Malay Bhattacharyya, Sanghamitra Bandyopadhyay
Software Mentions: 2
Published: almost 9 years ago

10.1186/s40360-020-00402-9

Prospects of Indole derivatives as methyl transfer inhibitors: antimicrobial resistance managers
Cited by: 4
Author(s): Suprim Tha, Sapana Shakya, Rajani Malla, Pramod Aryal
Software Mentions: 2
Published: about 6 years ago

10.12688/f1000research.2-217.v2

MethylExtract: High-Quality methylation maps and SNV calling from whole genome bisulfite sequencing data
Cited by: 16
Author(s): Guillermo Barturen, Antonio Rueda, José Luis Tejera Oliver, Michael Hackenberg
Software Mentions: 2
Published: over 12 years ago

10.12688/f1000research.8382.2

Closing gaps between open software and public data in a hackathon setting: User-centered software prototyping
Cited by: 12
Author(s): Ben Busby, Matthew Lesko, August, January Hackathon participants, Lisa Federer
Software Mentions: 2
Published: about 10 years ago

10.12688/f1000research.21142.2

Falco: high-speed FastQC emulation for quality control of sequencing data
Cited by: 104
Author(s): Guilherme de Sena Brandine, Andrew D. Smith
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2105-7-152

Domain-based small molecule binding site annotation
Cited by: 27
Author(s): Kevin A. Snyder, Hume A. Feldman, Michel Dumontier, John J. Salama, Christopher W. V. Hogue
Software Mentions: 2
Published: over 20 years ago

10.1186/1471-2164-14-270

Genome analyses of the wheat yellow (stripe) rust pathogen Puccinia striiformis f. sp. triticireveal polymorphic and haustorial expressed secreted proteins as candidate effectors
Cited by: 189
Author(s): Dario Cantu, Vanesa Segovia, Dan MacLean, R. A. Bayles, Xianming Chen, Sophien Kamoun, Jorge Dubcovsky, Diane G. O. Saunders, Cristóbal Uauy
Software Mentions: 2
Published: over 13 years ago

10.1107/S1744309109050416

Structures of the first representatives of Pfam family PF06938 (DUF1285) reveal a new fold with repeated structural motifs and possible involvement in signal transduction
Cited by: 7
Author(s): Gye Won Han, Constantina Bakolitsa, Mitchell D. Miller, Abhinav Kumar, Dennis Carlton, Rafaël Najmanovich, Polat Abdubek, Tamara Astakhova, Herbert L. Axelrod, Connie Chen, Hsiu Ju Chiu, Thomas Clayton, Debanu Das, Marc C. Deller, Lian Duan, Dustin C. Ernst, Julie Feuerhelm, Joanna C Grant, Anna Grzechnik, Lukasz Jaroszewski, Kevin K. Jin, Hope A. Johnson, Heath E. Klock, Mark W. Knuth, Piotr Koźbiał, Sanjeev Krishna, David Marciano, Daniel McMullan, Andrew Morse, Edward Nigoghossian, Linda Okach, Ron Reyes, Christopher L. Rife, Natasha Sefcovic, Henry J Tien, Christine B Trame, H. van den Bedem, Dana Weekes, Qingping Xu, Keith O. Hodgson, John Wooley, Marc‐André Elsliger, Ashley M. Deacon, Adam Godzik, Scott A. Lesley, Ian A. Wilson
Software Mentions: 2
Published: over 16 years ago

10.1186/s40478-021-01118-5

Molecular analysis of pediatric CNS-PNET revealed nosologic heterogeneity and potent diagnostic markers for CNS neuroblastoma with FOXR2-activation
Cited by: 19
Author(s): Andrey Korshunov, Konstantin Okonechnikov, Felix Schmitt-Hoffner, Marina Ryzhova, Felix Sahm, Damian Stichel, Daniel Schrimpf, David Reuß, Philipp Sievers, Abigail K Suwala, Ella Kumirova, Olga Zheludkova, Andrey Golanov, David Jones, Stefan M. Pfister, Marcel Kool, Andreas von Deimling
Software Mentions: 2
Published: over 5 years ago

10.1186/s12870-021-02970-2

BdERECTA controls vasculature patterning and phloem-xylem organization in Brachypodium distachyon
Cited by: 7
Author(s): Kaori Sakai, Sylvie Citerne, Sébastien Antelme, Philippe Le Bris, Sylviane Daniel, Axelle Bouder, Angélina D’Orlando, Amy Cartwright, Frédérique Tellier, Stéphanie Pateyron, Étienne Delannoy, Debbie Laudencia‐Chingcuanco, Grégory Mouille, Jean-Christophe Palauqui, John P. Vogel, Richard Sibout
Software Mentions: 2
Published: over 5 years ago

10.1002/evl3.39

Male-biased gene expression resolves sexual conflict through the evolution of sex-specific genetic architecture
Cited by: 62
Author(s): Alison E. Wright, Matteo Fumagalli, Christopher R. Cooney, Natasha I. Bloch, Filipe Garrett Vieira, Séverine D. Buechel, Niclas Kolm, Judith E. Mank
Software Mentions: 2
Published: over 8 years ago

10.1186/1471-2164-8-294

Design and evaluation of Actichip, a thematic microarray for the study of the actin cytoskeleton
Cited by: 6
Author(s): Jean Muller, André Mehlen, Guillaume Vetter, Mikalai M. Yatskou, Arnaud Muller, Frédéric Chalmel, Olivier Poch, Evelyne Friederich, Laurent Vallar
Software Mentions: 2
Published: almost 19 years ago

10.1111/eva.12890

Restoration‐mediated secondary contact leads to introgression of alewife ecotypes separated by a colonial‐era dam
Cited by: 10
Author(s): Kerry Reid, John Carlos Garza, Steven R. Gephard, Adalgisa Caccone, David M. Post, Eric P. Palkovacs
Software Mentions: 2
Published: over 6 years ago

10.12688/f1000research.22954.3

QUARTIC: QUick pArallel algoRithms for high-Throughput sequencIng data proCessing
Cited by: 3
Author(s): Frédéric Jarlier, Nicolas Joly, Nicolas Fedy, Thomas Magalhaes, Leonor Sirotti, Paul Paganiban, F. Elizabeth Martin, Michael T. McManus, Philippe Hupé
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12864-018-5277-6

Constructing tissue-specific transcriptional regulatory networks via a Markov random field
Cited by: 6
Author(s): Shuping Ma, Tao Jiang, Rui Jiang
Software Mentions: 2
Published: over 7 years ago

10.1186/1471-2105-9-348

Gene Vector Analysis (Geneva): A unified method to detect differentially-regulated gene sets and similar microarray experiments
Cited by: 13
Author(s): Stephen Tanner, Pankaj Agarwal
Software Mentions: 2
Published: almost 18 years ago

10.1186/1471-2105-8-285

miRAS: a data processing system for miRNA expression profiling study
Cited by: 2
Author(s): Feng Tian, Huayue Zhang, Xinyu Zhang, Chi Song, Yuanming Xia, Yiqing Wu, Xiangjun Liu
Software Mentions: 2
Published: almost 19 years ago

10.1186/s40001-014-0052-x

RETRACTED ARTICLE: Ranking candidate genes of esophageal squamous cell carcinomas based on differentially expressed genes and the topological properties of the co-expression network
Cited by: 3
Author(s): Yi Shen, Jicheng Tantai, Heng Zhao
Software Mentions: 2
Published: over 11 years ago

10.1186/1756-8935-4-10

Genome-wide mapping of imprinted differentially methylated regions by DNA methylation profiling of human placentas from triploidies
Cited by: 74
Author(s): Ryan K. C. Yuen, Ruiwei Jiang, Maria S. Peñaherrera, Deborah E. McFadden, Wendy P. Robinson
Software Mentions: 2
Published: about 15 years ago

10.1007/s11356-017-0515-z

Transcriptional changes measured in rice roots after exposure to arsenite-contaminated sediments
Cited by: 7
Author(s): Alexandra Brinke, Georg Reifferscheid, Roland Klein, Ute Feiler, Sebastian Buchinger
Software Mentions: 2
Published: over 8 years ago

10.1186/s12859-019-2791-8

DNAscan: personal computer compatible NGS analysis, annotation and visualisation
Cited by: 15
Author(s): Alfredo Iacoangeli, Ahmad Al Khleifat, William Sproviero, Aleksey Shatunov, Ashley Jones, Sarah Morgan, Alan Pittman, Richard Dobson, Stephen J. Newhouse, Ammar Al‐Chalabi
Software Mentions: 2
Published: over 7 years ago

10.1002/eji.200838232

Fibroblasts from different sites may promote or inhibit recruitment of flowing lymphocytes by endothelial cells
Cited by: 81
Author(s): Helen M. McGettrick, Emily Smith, Andrew Filer, Stephen Kissane, M Salmon, Christopher D. Buckley, G. Ed Rainger, Gerard B. Nash
Software Mentions: 2
Published: over 17 years ago

10.1155/2020/5859023

Quyushengxin Formula Causes Differences in Bacterial and Phage Composition in Ulcerative Colitis Patients
Cited by: 7
Author(s): Haojie Yang, Dan Gan, Ying Li, Xiaosu Wang, Lan Jin, Kaijian Qin, Can Cui, Jiong Wu, Zhenyi Wang
Software Mentions: 2
Published: about 6 years ago

10.1289/ehp.10861

Drinking-Water Arsenic Exposure Modulates Gene Expression in Human Lymphocytes from a U.S. Population
Cited by: 128
Author(s): Angeline S. Andrew, Dianne V. Jewell, Rebecca A. Mason, Michael L. Whitfield, Jason H. Moore, Margaret R. Karagas
Software Mentions: 2
Published: over 18 years ago

10.1111/1462-2920.14590

Riding the wave of genomics to investigate aquatic coliphage diversity and activity
Cited by: 25
Author(s): Slawomir Michniewski, Tamsin Redgwell, Aurelija Grigonyte, Branko Rihtman, Maria del Mar Aguiló-Ferretjans, Joseph Alexander Christie-Oleza, Eleanor Jameson, David J. Scanlan, Andrew Millard
Software Mentions: 2
Published: over 7 years ago

10.1186/1471-2105-11-351

Identifying differentially regulated subnetworks from phosphoproteomic data
Cited by: 31
Author(s): Martin Klammer, Klaus Godl, Andreas Tebbe, Christoph Schaab
Software Mentions: 2
Published: about 16 years ago

10.1289/ehp.10216

Nanosize Titanium Dioxide Stimulates Reactive Oxygen Species in Brain Microglia and Damages Neurons <i>in Vitro</i>
Cited by: 399
Author(s): Thomas Long, Julianne Tajuba, Preethi Sama, Navid B. Saleh, Carol D. Swartz, Joel Parker, Susan Hester, Gregory V. Lowry, Bellina Veronesi
Software Mentions: 2
Published: over 18 years ago

10.1186/s12870-018-1585-x

Comparative transcriptomics identifies patterns of selection in roses
Cited by: 13
Author(s): Shubin Li, Mingyu Zhong, Xue Dong, Xiaoling Jiang, Yuxing Xu, Yibo Sun, Fang Cheng, Li D, Kaixue Tang, Wang Si-qing, Silan Dai, Jin‐Yong Hu
Software Mentions: 2
Published: over 7 years ago

10.1186/1471-2164-8-452

Gene expression analysis reveals early changes in several molecular pathways in cerebral malaria-susceptible mice versus cerebral malaria-resistant mice
Cited by: 55
Author(s): Nicolas Nf Delahaye, Nicolas Coltel, Denis Puthier, Mathieu Barbier, P. Benech, Florence Joly, Fuad Fa Iraqi, Georges E. Grau, Catherine Nguyen, Pascal Rihet
Software Mentions: 2
Published: over 18 years ago

10.1186/s40793-020-00354-x

Impact of process temperature and organic loading rate on cellulolytic / hydrolytic biofilm microbiomes during biomethanation of ryegrass silage revealed by genome-centered metagenomics and metatranscriptomics
Cited by: 12
Author(s): Irena Maus, Michael Klocke, Jaqueline Derenkó, Yvonne Stolze, Michael Beckstette, Carsten Jost, Daniel Wibberg, Jochen Blom, Christian Henke, Katharina Willenbücher, Madis Rumming, Antje Rademacher, Alfred Pühler, Alexander Sczyrba, Andreas Schlüter
Software Mentions: 2
Published: over 6 years ago

10.3390/cells9081864

S-Adenosylmethionine Treatment of Colorectal Cancer Cell Lines Alters DNA Methylation, DNA Repair and Tumor Progression-Related Gene Expression
Cited by: 15
Author(s): Sára Zsigrai, Alexandra Kalmár, Zsófia Brigitta Nagy, Barbara Kinga Barták, Gábor Valcz, Krisztina Andrea Szigeti, Orsolya Galamb, Titanilla Dankó, Anna Sebestyén, Gábor Barna, V. Szabó, Orsolya Pipek, Anna Medgyes-Horváth, István Csabai, Zsolt Tulassay, Péter Igaz, István Takács, Béla Molnár
Software Mentions: 2
Published: almost 6 years ago

10.1002/advs.201901380

Targeting YAP1/LINC00152/FSCN1 Signaling Axis Prevents the Progression of Colorectal Cancer
Cited by: 106
Author(s): Chunlin Ou, Zhenqiang Sun, Xiaoyun He, Xiaoling Li, Songqing Fan, Xiang Zheng, Ping Qiu, Guiyuan Li, Xiayu Li, Jian Ma
Software Mentions: 2
Published: over 6 years ago