cran: SAM | Projects | Ecosyste.ms: Papers

10.1186/gb-2007-8-9-r191

Characterization of heterotypic interaction effects in vitro to deconvolute global gene expression profiles in cancer
Cited by: 78
Author(s): Martin Buess, Dimitry S.A. Nuyten, Trevor Hastie, Torsten O. Nielsen, Robert Pesich, Patrick O. Brown
Software Mentions: 1
Published: over 19 years ago

10.1186/gb-2007-8-9-r193

Identification of novel stem cell markers using gap analysis of gene expression data
Cited by: 9
Author(s): Paul M. Krzyzanowski, Miguel A. Andrade‐Navarro
Software Mentions: 1
Published: over 19 years ago

10.1186/gb-2007-8-6-r117

Genetic background influences murine prostate gene expression: implications for cancer phenotypes
Cited by: 23
Author(s): Daniella Bianchi‐Frias, Colin C. Pritchard, Brigham H. Mecham, Ilsa M. Coleman, Peter S. Nelson
Software Mentions: 1
Published: over 19 years ago

10.1186/gb-2008-9-4-r72

Perceiving molecular evolution processes in Escherichia coli by comprehensive metabolite and gene expression profiling
Cited by: 19
Author(s): Vijayendran Chandran, Aiko Barsch, Karl Friehs, Karsten Niehaus, Anke Becker, Erwin Flaschel
Software Mentions: 1
Published: over 18 years ago

10.1186/gb-2009-10-9-r90

mRNA expression profiles show differential regulatory effects of microRNAs between estrogen receptor-positive and estrogen receptor-negative breast cancer
Cited by: 93
Author(s): Chao Cheng, Xuping Fu, Pedro Alves, Mark Gerstein
Software Mentions: 1
Published: over 17 years ago

10.1186/gb-2010-11-8-r88

A standard variation file format for human genome sequences
Cited by: 81
Author(s): Martin G. Reese, Barry Moore, Colin Batchelor, Fidel Salas, Fiona Cunningham, Gábor Marth, Lincoln Stein, Paul Flicek, Mark Yandell, Karen Eilbeck
Software Mentions: 1
Published: over 16 years ago

10.1186/gb-2011-12-1-r3

Defining potentially conserved RNA regulons of homologous zinc-finger RNA-binding proteins
Cited by: 30
Author(s): Tanja Scherrer, Christian Femmer, Ralph Schiess, Ruedi Aebersold, André P. Gerber
Software Mentions: 1
Published: over 15 years ago

10.1186/gb-2009-10-11-r123

Serum-dependent transcriptional networks identify distinct functional roles for H-Ras and N-Ras during initial stages of the cell cycle
Cited by: 14
Author(s): Esther Castellano, Carmen Guerrero, Alejandro Núñez, Javier De Las Rivas, Eugenio Santos
Software Mentions: 1
Published: over 17 years ago

10.1186/1939-8433-6-19

Genome-wide identification and analysis of Japonica and Indica cultivar-preferred transcripts in rice using 983 Affymetrix array data
Cited by: 24
Author(s): Ki Hong Jung, Hyun Jung Gho, Hoi Khoanh Giong, Anil Kumar Nalini Chandran, Quynh N. Nguyen, Hee Bak Choi, Tian Zhang, Wen Wang, Jin Hyun Kim, Hong Kyu Choi, Gynheung An
Software Mentions: 1
Published: almost 13 years ago

10.1186/s12284-018-0218-1

Identification of a cold-tolerant locus in rice (Oryza sativa L.) using bulked segregant analysis with a next-generation sequencing strategy
Cited by: 48
Author(s): Jian Sun, Liuqing Yang, Jingguo Wang, Hualong Liu, Hongliang Zheng, Dongwei Xie, Minghui Zhang, Mingfang Feng, Yan Jia, Hongwei Zhao, Detang Zou
Software Mentions: 1
Published: over 8 years ago

10.1016/j.xpro.2020.100046

Generation of Sequencing Libraries for Structural Analysis of Bacterial 5′ UTRs
Cited by: 0
Author(s): Dmitriy Ignatov, Karolis Vaitkevicius, Jörgen Johansson
Software Mentions: 1
Published: almost 6 years ago

10.1177/2158244019837313

From Bright Bodies to iChoose: Using a CBPR Approach to Develop Childhood Obesity Intervention Materials for Rural Virginia
Cited by: 7
Author(s): Fabio A. Almeida, Jamie Zoellner, Jennie L. Hill, Wen You, Ramine Alexander, Xiaolu Hou, Paul A. Estabrooks
Software Mentions: 1
Published: over 7 years ago

10.1155/2012/639038

Global Gene Expression Profiling of Human Osteosarcomas Reveals Metastasis-Associated Chemokine Pattern
Cited by: 31
Author(s): Heidi M. Namløs, Stine H. Kresse, Christoph Müller, Jörn Henriksen, Rita Holdhus, Gunnar Sæter, Øyvind S. Bruland, Bodil Bjerkehagen, Vidar M. Steen, Ola Myklebost
Software Mentions: 1
Published: over 14 years ago

10.1155/2012/805614

Comparative Gene Expression Profiling of Benign and Malignant Lesions Reveals Candidate Therapeutic Compounds for Leiomyosarcoma
Cited by: 16
Author(s): Badreddin Edris, Jonathan A. Fletcher, Robert B. West, Matt van de Rijn, Andrew H. Beck
Software Mentions: 1
Published: over 14 years ago

10.3109/03009742.2011.623137

Gene expression analysis of rheumatoid arthritis synovial lining regions by cDNA microarray combined with laser microdissection: up-regulation of inflammation-associated STAT1, IRF1, CXCL9, CXCL10, and CCL5
Cited by: 67
Author(s): Satoshi Yoshida, Fumiko Arakawa, Fujio Higuchi, Yukinao Ishibashi, Masafumi Goto, Yasuo Sugita, Yuko Nomura, Daisuke Niino, Kay Shimizu, Ryosuke Aoki, Keiko Hashikawa, Yoshizo Kimura, Kaori Yasuda, Kosuke Tashiro, Satoru Kuhara, Kensei Nagata, Koichi Ohshima
Software Mentions: 1
Published: over 14 years ago

10.1186/s13049-016-0216-5

Non-technical skills evaluation in the critical care air ambulance environment: introduction of an adapted rating instrument - an observational study
Cited by: 27
Author(s): Julia A Myers, David Powell, Alex Psirides, Karyn Hathaway, Sarah Aldington, Michael Haney
Software Mentions: 1
Published: over 10 years ago

10.1093/schbul/sby117

Attenuated Post-Movement Beta Rebound Associated With Schizotypal Features in Healthy People
Cited by: 18
Author(s): Benjamin A. E. Hunt, Elizabeth B. Liddle, Lauren E. Gascoyne, Lorenzo Magazzini, Bethany Routley, Krish D. Singh, Peter G. Morris, Matthew J. Brookes, Peter F. Liddle
Software Mentions: 1
Published: almost 8 years ago

10.1038/sdata.2014.39

Flow-dependent regulation of genome-wide mRNA and microRNA expression in endothelial cells in vivo
Cited by: 24
Author(s): Sandeep Kumar, Chan Woo Kim, Dong Ju Son, Chih-Wen Ni, Hanjoong Jo
Software Mentions: 1
Published: almost 12 years ago

10.1038/sdata.2018.120

Emotional ratings and skin conductance response to visual, auditory and haptic stimuli
Cited by: 54
Author(s): Elia Gatti, Elena Calzolari, Emanuela Maggioni, Marianna Obrist
Software Mentions: 1
Published: about 8 years ago

10.1038/s41597-019-0339-4

Evaluating sequence data quality from the Swift Accel-Amplicon CFTR Panel
Cited by: 2
Author(s): Marco L. Leung, Deborah Watson, Courtney Vaccaro, Fernanda Mafra, Adam S Wenocur, Tiancheng Wang, Håkon Håkonarson, Avni Santani
Software Mentions: 1
Published: over 6 years ago

10.1038/s41597-020-0366-1

The Chieti Affective Action Videos database, a resource for the study of emotions in psychology
Cited by: 12
Author(s): Adolfo Di Crosta, Pasquale La Malva, Claudio Manna, Anna Marín, Rocco Palumbo, Maria Cristina Verrocchio, Michela Cortini, Nicola Mammarella, Alberto Di Domenico
Software Mentions: 1
Published: over 6 years ago

10.1038/srep02191

Modulation of Post-Antibiotic Bacterial Community Reassembly and Host Response by Candida albicans
Cited by: 103
Author(s): John R. Erb-Downward, Nicole R. Falkowski, Katie L. Mason, Ryan Muraglia, Gary B. Huffnagle
Software Mentions: 1
Published: about 13 years ago

10.1038/srep07857

Cancer systems biology of TCGA SKCM: Efficient detection of genomic drivers in melanoma
Cited by: 74
Author(s): Jian Guan, Rohit Gupta, Fabian V. Filipp
Software Mentions: 1
Published: over 11 years ago

10.1038/srep08785

Excess of Rare Variants in Genes that are Key Epigenetic Regulators of Spermatogenesis in the Patients with Non-Obstructive Azoospermia
Cited by: 36
Author(s): Zesong Li, Yi Huang, Honggang Li, Jingchu Hu, Xiao Liu, Tao Jiang, Guangqing Sun, Aifa Tang, Xiaojuan Sun, Weiping Qian, Yong Zeng, Jun Xie, Wei Zhao, Yu Xu, Tingting He, Chengliang Dong, Qunlong Liu, Lisha Mou, Jingxiao Lu, Zheguang Lin, Song Wu, Shengjie Gao, Guangwu Guo, Qiang Feng, Yingrui Li, Xiuqing Zhang, Jun Wang, Huanming Yang, Jian Wang, Chengliang Xiong, Zhiming Cai, Yaoting Gui
Software Mentions: 1
Published: over 11 years ago

10.1038/srep11895

Identification of reproducible drug-resistance-related dysregulated genes in small-scale cancer cell line experiments
Cited by: 10
Author(s): Lu Ao, Haidan Yan, Tingting Zheng, Yan Wang, Man‐Li Tong, Qingzhou Guan, Xiangyu Li, Hao Cai, Mengyao Li, Zheng Guo
Software Mentions: 1
Published: about 11 years ago

10.1038/srep11035

Identification of ULK1 as a novel biomarker involved in miR-4487 and miR-595 regulation in neuroblastoma SH-SY5Y cell autophagy
Cited by: 29
Author(s): Yi Chen, Shuya Wang, Lan Zhang, Tao Xie, Sicheng Song, Jian Huang, Yonghui Zhang, Liang Ouyang, Bo Liu
Software Mentions: 1
Published: about 11 years ago

10.1038/srep10752

Characterization of species-specific genes regulated by E2-2 in human plasmacytoid dendritic cells
Cited by: 11
Author(s): Man Cheng, Xuyuan Zhang, Haisheng Yu, Pu Du, Joël Plumas, Laurence Chaperot, Lishan Su, Liguo Zhang
Software Mentions: 1
Published: about 11 years ago

10.1038/srep13488

Quantitative analysis on electric dipole energy in Rashba band splitting
Cited by: 12
Author(s): Jisook Hong, Jun‐Won Rhim, Changyoung Kim, Seung Ryong Park, Ji Hoon Shim
Software Mentions: 1
Published: almost 11 years ago

10.1038/srep14900

Trends and variability of the atmosphere–ocean turbulent heat flux in the extratropical Southern Hemisphere
Cited by: 5
Author(s): Agnieszka Herman
Software Mentions: 1
Published: almost 11 years ago

10.1038/srep15243

A scanning acoustic microscope discriminates cancer cells in fluid
Cited by: 38
Author(s): Katsutoshi Miura, Seiji Yamamoto
Software Mentions: 1
Published: almost 11 years ago

10.1038/srep15478

An evidence-based knowledgebase of metastasis suppressors to identify key pathways relevant to cancer metastasis
Cited by: 19
Author(s): Min Zhao, Zhe Li, Hong Qu
Software Mentions: 1
Published: almost 11 years ago

10.1038/srep16732

miR-34a screened by miRNA profiling negatively regulates Wnt/β-catenin signaling pathway in Aflatoxin B1 induced hepatotoxicity
Cited by: 62
Author(s): Liye Zhu, Jing Gao, Kunlun Huang, Yunbo Luo, Boyang Zhang, Wentao Xu
Software Mentions: 1
Published: over 10 years ago

10.1038/srep16904

Collective effects of common SNPs in foraging decisions in Caenorhabditis elegans and an integrative method of identification of candidate genes
Cited by: 14
Author(s): Zuobin Zhu, Qing Lu, Junjing Wang, Shi Huang
Software Mentions: 1
Published: over 10 years ago

10.1038/srep17069

Enhancing the sensitivity of a micro-diaphragm resonating sensor by effectively positioning the mass on the membrane
Cited by: 13
Author(s): Jinsik Kim, Hye Jin Kim, Eun Ae Cho, Hyun Joon Shin, Jung Ho Park, Kyo Seon Hwang
Software Mentions: 1
Published: over 10 years ago

10.1038/srep17303

Compatibility between mitochondrial and nuclear genomes correlates with the quantitative trait of lifespan in Caenorhabditis elegans
Cited by: 21
Author(s): Zuobin Zhu, Qing Lu, Fangfang Zeng, Junjing Wang, Shi Huang
Software Mentions: 1
Published: over 10 years ago

10.1038/srep17252

Impacts of IOD, ENSO and ENSO Modoki on the Australian Winter Wheat Yields in Recent Decades
Cited by: 64
Author(s): Chaoxia Yuan, Toshio Yamagata
Software Mentions: 1
Published: over 10 years ago

10.1038/srep18405

Identification of a highly efficient stationary phase promoter in Bacillus subtilis
Cited by: 49
Author(s): Xiaoxia Yu, XU Jiang-tao, Xiaoqing Liu, Xiaoyu Chu, Ping Wang, Jian Tian, Ningfeng Wu, Yanting Fan
Software Mentions: 1
Published: over 10 years ago

10.1038/srep17749

Comparative transcriptome analysis of grapevine in response to copper stress
Cited by: 96
Author(s): Xiangpeng Leng, Haifeng Jia, Xin Sun, Lingfei Shangguan, Qian Mei, Baoju Wang, Jinggui Fang
Software Mentions: 1
Published: over 10 years ago

10.1038/srep18775

Ultrasound-aided Multi-parametric Photoacoustic Microscopy of the Mouse Brain
Cited by: 70
Author(s): Bo Ning, Naidi Sun, Rui Cao, Ruimin Chen, K. Kirk Shung, John A. Hossack, Lee J, Qifa Zhou, Song Hu
Software Mentions: 1
Published: over 10 years ago

10.1038/srep18796

Characterization of vegetative inflorescence (mc-vin) mutant provides new insight into the role of MACROCALYX in regulating inflorescence development of tomato
Cited by: 35
Author(s): Fernando J. Yuste‐Lisbona, Muriel Quinet, Antonia Fernández-Lozano, Benito Pineda, Vicente Moreno, Trinidad Angosto, Rafael Lozano
Software Mentions: 1
Published: over 10 years ago

10.1038/srep19264

Psmir: a database of potential associations between small molecules and miRNAs
Cited by: 17
Author(s): Fengyan Meng, Jing Wang, Erfu Dai, Feng Yang, Xiaowen Chen, Shuyuan Wang, Xuexin Yu, Dianming Liu, Wei Jiang
Software Mentions: 1
Published: over 10 years ago

10.1038/srep19260

Analysis of a four generation family reveals the widespread sequence-dependent maintenance of allelic DNA methylation in somatic and germ cells
Cited by: 12
Author(s): Aifa Tang, Yi Huang, Zesong Li, Shengqing Wan, Lisha Mou, Guangliang Yin, Ning Li, Jun Xie, Yudong Xia, Xianxin Li, Liya Luo, Junwen Zhang, Shen Chen, Song Wu, Jihua Sun, Xiaojuan Sun, Ziyu Jiang, Jing Chen, Yingrui Li, Jian Wang, Jun Wang, Zhiming Cai, Yaoting Gui
Software Mentions: 1
Published: over 10 years ago

10.1038/srep19272

Exposure to Polycyclic Aromatic Hydrocarbons, Plasma Cytokines and Heart Rate Variability
Cited by: 24
Author(s): Binyao Yang, Qifei Deng, Wangzhen Zhang, Yingying Feng, Xiayun Dai, Wei Feng, Xiaosheng He, Suli Huang, X Zhang, Xiaohai Li, Dafeng Lin, Meian He, Huan Guo, Huizhen Sun, Jing Yuan, Jiachun Lü, Frank B. Hu, Xiaomin Zhang, Tangchun Wu
Software Mentions: 1
Published: over 10 years ago

10.1038/srep19199

Genomic-assisted haplotype analysis and the development of high-throughput SNP markers for salinity tolerance in soybean
Cited by: 141
Author(s): Gunvant Patil, Tuyen Do, Tri D. Vuong, Babu Valliyodan, Jeong Dong Lee, Juhi Chaudhary, J. Grover Shannon, Henry T. Nguyen
Software Mentions: 1
Published: over 10 years ago

10.1038/srep19763

Phenotypic Characterization Analysis of Human Hepatocarcinoma by Urine Metabolomics Approach
Cited by: 34
Author(s): Qun Li, Han Liu, Cong Wang, Binbing Li
Software Mentions: 1
Published: over 10 years ago

10.1038/srep19616

The role of motility and chemotaxis in the bacterial colonization of protected surfaces
Cited by: 41
Author(s): Einat Shaer Tamar, Moriah Koler, Ady Vaknin
Software Mentions: 1
Published: over 10 years ago

10.1038/srep21542

Reactive oxygen species regulate leaf pulvinus abscission zone cell separation in response to water-deficit stress in cassava
Cited by: 49
Author(s): Wenbin Liao, Gan Wang, Yayun Li, Bin Wang, Peng Zhang, Ming Peng
Software Mentions: 1
Published: over 10 years ago

10.1038/srep22599

MiR-708 promotes steroid-induced osteonecrosis of femoral head, suppresses osteogenic differentiation by targeting SMAD3
Cited by: 79
Author(s): Hao Cheng, Shuai Yang, Weihua Xu, Jacson K. Shen, Shunan Ye, Xianzhe Liu, Zhe Dong, Bokui Xiao, Yong Feng
Software Mentions: 1
Published: over 10 years ago

10.1038/srep23113

The importance of interacting climate modes on Australia’s contribution to global carbon cycle extremes
Cited by: 63
Author(s): James Cleverly, Derek Eamus, Qunying Luo, Natalia Restrepo‐Coupe, Natascha Kljun, Xuanlong Ma, Cäcilia Ewenz, Longhui Li, Qiang Yu, Alfredo Huete
Software Mentions: 1
Published: over 10 years ago

10.1038/srep23083

Hemodynamic (fNIRS) and EEG (N200) correlates of emotional inter-species interactions modulated by visual and auditory stimulation
Cited by: 20
Author(s): Michela Balconi, Maria Elide Vanutelli
Software Mentions: 1
Published: over 10 years ago

10.1038/srep23384

Higher-order Multivariable Polynomial Regression to Estimate Human Affective States
Cited by: 18
Author(s): Wei Jie, Tong Chen, Guangyuan Liu, Jiemin Yang
Software Mentions: 1
Published: over 10 years ago

10.1038/srep24052

Degradation Physics of High Power LEDs in Outdoor Environment and the Role of Phosphor in the degradation process
Cited by: 54
Author(s): Preetpal Singh, Cher Ming Tan
Software Mentions: 1
Published: over 10 years ago

10.1038/srep24236

Transcriptome Variability in Keratocystic Odontogenic Tumor Suggests Distinct Molecular Subtypes
Cited by: 7
Author(s): Shijia Hu, Kimon Divaris, Joel S. Parker, Ricardo Padilla, Valerie A. Murrah, J. Timothy Wright
Software Mentions: 1
Published: over 10 years ago

10.1111/pbi.13002

Time-specific and pleiotropic quantitative trait loci coordinately modulate stem growth in<i>Populus</i>
Cited by: 30
Author(s): Qingzhang Du, Xiaohui Yang, Jianbo Xie, Mingyang Quan, Xiao Liang, Wenjie Lu, Jiaxing Tian, Chenrui Gong, Jinhui Chen, Bai-Lian Li, Deqiang Zhang
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-019-40019-5

Functional divergence of thyrotropin beta-subunit paralogs gives new insights into salmon smoltification metamorphosis
Cited by: 23
Author(s): Mitchell S. Fleming, Gersende Maugars, Anne-Gaëlle Lafont, Jocelyn Rancon, Romain Fontaine, Rasoul Nourizadeh-Lillabadi, Finn‐Arne Weltzien, Elena Santidrián Yebra-Pimentel, Ron P. Dirks, Stephen D. McCormick, Karine Rousseau, Patrick Martin, Sylvie Dufour
Software Mentions: 1
Published: over 7 years ago

10.1111/pbi.13030

Resequencing of <i>cv</i> CRI‐12 family reveals haplotype block inheritance and recombination of agronomically important genes in artificial selection
Cited by: 18
Author(s): Xuke Lu, Xiaoqiong Fu, Delong Wang, Junyi Wang, Xiugui Chen, Meirong Hao, Junjuan Wang, Kyle A. Gervers, Lixue Guo, Shuai Wang, Zujun Yin, Weili Fan, Chunwei Shi, Xiaoge Wang, Jun Peng, Chao Chen, Ruifeng Cui, Na Shu, Binglei Zhang, Mingge Han, Xin Zhao, Mingchun Mu, John Z. Yu, Wuwei Ye
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-15-273

SNP Discovery for mapping alien introgressions in wheat
Cited by: 78
Author(s): Vijay K. Tiwari, Shichen Wang, Sunish K. Sehgal, Jan Vrána, Bernd Friebe, Marie Kubaláková, Praveen Chhuneja, Jaroslav Doležel, Eduard Akhunov, Bhanu Kalia, Jamal S. M. Sabir, Bikram S. Gill
Software Mentions: 1
Published: over 12 years ago

10.1111/pbi.12826

Assembly and analysis of aqingkereference genome demonstrate its close genetic relation to modern cultivated barley
Cited by: 48
Author(s): Fei Dai, Xiaolei Wang, Xiaoqi Zhang, Zhonghua Chen, Eviatar Nevo, Gulei Jin, Dezhi Wu, Chengdao Li, Guoping Zhang
Software Mentions: 1
Published: almost 9 years ago

10.1111/pbi.12704

A novel functional gene associated with cold tolerance at the seedling stage in rice
Cited by: 56
Author(s): Junliang Zhao, Shaohong Zhang, Jingfang Dong, Ting Yang, Xingxue Mao, Qing Liu, Xiaofei Wang, Bin Liu
Software Mentions: 1
Published: over 9 years ago

10.1111/pbi.13203

A high‐throughput BAC end analysis protocol ( <scp>BAC</scp> ‐anchor) for profiling genome assembly and physical mapping
Cited by: 4
Author(s): Xiaohui Yang, Yan Yu, Jian Ling, Jiantao Guan, Xuewu Guo, Dan Dong, Liping Jin, Sanwen Huang, Jun Li, Guangcun Li
Software Mentions: 1
Published: about 7 years ago

10.1111/pbi.13138

Strong gene activation in plants with genome‐wide specificity using a new orthogonal <scp>CRISPR</scp>/Cas9‐based programmable transcriptional activator
Cited by: 70
Author(s): Sara Selma, Joan Miquel Bernabé‐Orts, Marta Vázquez‐Vilar, Borja Diego-Martin, María Ajenjo, Victor García‐Carpintero, Antonio Granell, Diego Orzáez
Software Mentions: 1
Published: about 7 years ago

10.1111/pbi.13420

Genomic prediction of maize microphenotypes provides insights for optimizing selection and mining diversity
Cited by: 15
Author(s): Xiaoqing Yu, Samuel Leiboff, Xianran Li, Tingting Guo, Natalie Ronning, Xiaoyu Zhang, Gary J. Muehlbauer, Marja C.P. Timmermans, Patrick S. Schnable, Michael J. Scanlon, Jianming Yu
Software Mentions: 1
Published: about 6 years ago

10.1186/s12864-018-4636-7

Genome and transcriptome of the natural isopropanol producer Clostridium beijerinckii DSM6423
Cited by: 24
Author(s): Hadrien Máté de Gérando, François Wasels, Angélique Bisson, Benjamin Clément, Frédérique Bidard, Etienne Jourdier, Ana M. López-Contreras, Nicolas Lopes Ferreira
Software Mentions: 1
Published: over 8 years ago

10.1002/pld3.317

Quantification of gray mold infection in lettuce using a bispectral imaging system under laboratory conditions
Cited by: 1
Author(s): Clifton G. Scarboro, Stephanie M. Ruzsa, Colleen J. Doherty, Michael W. Kudenov
Software Mentions: 1
Published: over 5 years ago

10.1002/pld3.306

A cellular expression map of epidermal and subepidermal cell layer‐enriched transcription factor genes integrated with the regulatory network in Arabidopsis shoot apical meristem
Cited by: 2
Author(s): Shivani Bhatia, Harish Kumar, Monika Mahajan, Manisha Yadav, Prince Saini, Shalini Yadav, Shivani Sahu, Jayesh Kumar Sundaram, Ram Kishor Yadav
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-15-180

Whole genome sequencing of the black grouse (Tetrao tetrix): reference guided assembly suggests faster-Z and MHC evolution
Cited by: 38
Author(s): Biao Wang, Robert Ekblom, Ignas Bunikis, Heli Siitari, Jacob Höglund
Software Mentions: 1
Published: over 12 years ago

10.1186/1471-2164-14-315

Exploring the larval transcriptome of the common sole (Solea solea L.)
Cited by: 42
Author(s): Serena Ferraresso, Alessio Bonaldo, Luca Parma, Stefano Cinotti, Paola Massi, Luca Bargelloni, Pier Paolo Gatta
Software Mentions: 1
Published: over 13 years ago

10.1186/s13007-017-0198-y

Improved classification accuracy of powdery mildew infection levels of wine grapes by spatial-spectral analysis of hyperspectral images
Cited by: 63
Author(s): Uwe Knauer, Andrea Matros, Tijana Petrović, T Zanker, Eileen S. Scott, Udo Seiffert
Software Mentions: 1
Published: about 9 years ago

10.1186/s13007-019-0521-x

Sensory assessment of Cercospora beticola sporulation for phenotyping the partial disease resistance of sugar beet genotypes
Cited by: 13
Author(s): E. C. Oerke, Marlene Leucker, Ulrike Steiner
Software Mentions: 1
Published: over 6 years ago

10.1186/s13007-021-00719-4

Heritable gene editing using FT mobile guide RNAs and DNA viruses
Cited by: 26
Author(s): Jianfeng Lei, Peng Dai, Yue Li, Wanqi Zhang, Guantong Zhou, Chao Liu, Xiaodong Liu
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-019-38898-9

Whole exome sequencing identifies a novel intron heterozygous mutation in TSC2 responsible for tuberous sclerosis complex
Cited by: 6
Author(s): Yicong Ye, Yong Zeng
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-13-500

Accurate variant detection across non-amplified and whole genome amplified DNA using targeted next generation sequencing
Cited by: 22
Author(s): Abdou ElSharawy, Jason Warner, Jeff Olson, Michael Förster, Markus B. Schilhabel, Darren R. Link, Stefan Rose-John, Stefan Schreiber, Philip Rosenstiel, James Brayer, André Franke
Software Mentions: 1
Published: almost 14 years ago

10.1186/1471-2164-8-87

Array-based genotyping and expression analysis of barley cv. Maythorpe and Golden Promise
Cited by: 40
Author(s): Harkamal Walia, Clyde Wilson, Pascal Condamine, Abdelbagi M. Ismail, Jin Xu, Xinping Cui, Timothy J. Close
Software Mentions: 1
Published: over 19 years ago

10.1186/1746-4811-8-3

Hyperspectral imaging for small-scale analysis of symptoms caused by different sugar beet diseases
Cited by: 257
Author(s): Anne-Katrin Mahlein, Ulrike Steiner, Christian Hillnhütter, H. W. Dehne, E. C. Oerke
Software Mentions: 1
Published: over 14 years ago

10.1038/s41598-019-41577-4

A multi-stage association study of plasma cytokines identifies osteopontin as a biomarker for acute coronary syndrome risk and severity
Cited by: 1
Author(s): Kuai Yu, Binyao Yang, Haijing Jiang, Jun Li, Kai Yan, Xuezhen Liu, Lue Zhou, Handong Yang, Xiulou Li, Xinwen Min, Ce Zhang, Xiaoting Luo, Wenhua Mei, Shan Sun, Liyun Zhang, Xiang Cheng, Meian He, Xiaomin Zhang, An Pan, Frank B. Hu, Tangchun Wu
Software Mentions: 1
Published: over 7 years ago

10.34133/2021/9765952

Classification of Rice Yield Using UAV-Based Hyperspectral Imagery and Lodging Feature
Cited by: 15
Author(s): Jian Wang, Bizhi Wu, Markus V. Kohnen, Daqi Lin, Changcai Yang, Xiaowei Wang, Ailing Qiang, Wei Liu, Jian Kang, Hua Li, Jing Shen, Tianhao Yao, Jun Su, Bangyu Li, Lianfeng Gu
Software Mentions: 1
Published: over 5 years ago

10.3390/ijms131012857

Fragment-Based Screening by Protein Crystallography: Successes and Pitfalls
Cited by: 47
Author(s): Zorik Chilingaryan, Zhou Yin, Aaron J. Oakley
Software Mentions: 1
Published: almost 14 years ago

10.3390/plants10040771

Mapping of Genetic Locus for Leaf Trichome Formation in Chinese Cabbage Based on Bulked Segregant Analysis
Cited by: 6
Author(s): Rujia Zhang, Yiming Ren, Huiyuan Wu, Yang Yu, Mengguo Yuan, Haonan Liang, Changwei Zhang
Software Mentions: 1
Published: over 5 years ago

10.3390/plants10091935

Genetic Loci Associated with Resistance to Zucchini Yellow Mosaic Virus in Squash
Cited by: 6
Author(s): Swati Shrestha, Vincent Njung’e Michael, Yuqing Fu, Geoffrey Meru
Software Mentions: 1
Published: almost 5 years ago

10.3390/plants9081052

Comparative Microbiome Study of Mummified Peach Fruits by Metagenomics and Metatranscriptomics
Cited by: 11
Author(s): Yeonhwa Jo, Chang–Gi Back, Hoseong Choi, Won Kyong Cho
Software Mentions: 1
Published: almost 6 years ago

10.3390/plants4030356

Senescence Meets Dedifferentiation
Cited by: 7
Author(s): Yemima Givaty Rapp, Vanessa Ransbotyn, Gideon Grafi
Software Mentions: 1
Published: about 11 years ago

10.1186/1471-2105-7-181

Detection of divergent genes in microbial aCGH experiments
Cited by: 8
Author(s): Lars Snipen, Dirk Repsilber, Ludvig Nyquist, Andreas Ziegler, Ågot Aakra, Are H. Aastveit
Software Mentions: 1
Published: over 20 years ago

10.1186/s12864-021-07772-2

A two-way rectification method for identifying differentially expressed genes by maximizing the co-function relationship
Cited by: 0
Author(s): Bolin Chen, Li Gao, Xuequn Shang
Software Mentions: 1
Published: about 5 years ago

10.1186/1471-2105-6-86

Cited by: 24
Author(s): Prinal Trivedi, Jode W. Edwards, Jelai Wang, Gary L. Gadbury, Vinodh Srinivasasainagendra, Stanislav O. Zakharkin, Kyoungmi Kim, Tapan Mehta, Jacob P. L. Brand, Amit Patki, Grier P. Page, David B. Allison
Software Mentions: 1
Published: over 21 years ago

10.1186/1471-2164-13-S2-S4

Haplotype and minimum-chimerism consensus determination using short sequence data
Cited by: 19
Author(s): Shawn T. O’Neil, Scott J. Emrich
Software Mentions: 1
Published: over 14 years ago

10.3390/plants10040751

Nanoimpact in Plants: Lessons from the Transcriptome
Cited by: 11
Author(s): Susana García-Sánchez, Michal Gala, Gabriel Žoldák
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-016-3377-8

Transcriptome analysis in switchgrass discloses ecotype difference in photosynthetic efficiency
Cited by: 9
Author(s): Desalegn D. Serba, Srinivasa Rao Uppalapati, Nick Krom, Shreyartha Mukherjee, Yuhong Tang, Kirankumar S. Mysore, Malay C. Saha
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pbio.1002031

Selective Modulation of Interhemispheric Functional Connectivity by HD-tACS Shapes Perception
Cited by: 242
Author(s): Randolph F. Helfrich, Hannah Knepper, Guido Nolte, Daniel Strüber, Stefan Rach, Christoph S. Herrmann, Till R. Schneider, Andreas K. Engel
Software Mentions: 1
Published: over 11 years ago

10.1186/s12864-016-3405-8

Genome-wide expression profiling in muscle and subcutaneous fat of lambs in response to the intake of concentrate supplemented with vitamin E
Cited by: 20
Author(s): L. González-Calvo, Elda Dervishi, M. Joy, P. Sarto, Roberto Martín‐Hernández, M. Serrano, José M. Ordovás, J.H. Calvo
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pbio.0060255

Diverse RNA-Binding Proteins Interact with Functionally Related Sets of RNAs, Suggesting an Extensive Regulatory System
Cited by: 548
Author(s): Daniel J. Hogan, Daniel P. Riordan, André P. Gerber, Daniel Herschlag, Patrick O. Brown
Software Mentions: 1
Published: almost 18 years ago

10.1371/journal.pbio.1000569

Epigenetic Regulation of Learning and Memory by Drosophila EHMT/G9a
Cited by: 185
Author(s): Jamie M. Kramer, Korinna Kochinke, Merel A. W. Oortveld, Hendrik Marks, Daniela Krämer, Eiko K. de Jong, Zoltán Asztalos, J. Timothy Westwood, Hendrik G. Stunnenberg, Marla B. Sokolowski, Krystyna Keleman, Huiqing Zhou, Hans van Bokhoven, Annette Schenck
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pbio.3001153

Avoiding organelle mutational meltdown across eukaryotes with or without a germline bottleneck
Cited by: 29
Author(s): David M. Edwards, Ellen C. Røyrvik, Joanna M. Chustecki, Konstantinos Giannakis, Robert C. Glastad, Arunas L. Radzvilavicius, Iain G. Johnston
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2105-14-S5-S3

Joint genotype inference with germline and somatic mutations
Cited by: 4
Author(s): Eric Bareke, Virginie Saillour, Jean-François Spinella, Ramón Vidal, Jasmine Healy, Daniel Sinnett, Miklós Csürös
Software Mentions: 1
Published: over 13 years ago

10.1186/1471-2164-8-153

Comparison of hybridization-based and sequencing-based gene expression technologies on biological replicates
Cited by: 67
Author(s): Fang Liu, Tor Kristian Jenssen, Jeffrey M. Trimarchi, Claudio Punzo, Connie Cepko, Lucila Ohno-Machado, Eivind Hovig, Winston Patrick Kuo
Software Mentions: 1
Published: about 19 years ago

10.1371/journal.pbio.1001653

Unisexual and Heterosexual Meiotic Reproduction Generate Aneuploidy and Phenotypic Diversity De Novo in the Yeast Cryptococcus neoformans
Cited by: 146
Author(s): Ming-Jiu Ni, Marianna Feretzaki, Wenjun Li, Anna Floyd-Averette, Piotr A. Mieczkowski, Fred S. Dietrich, Joseph Heitman
Software Mentions: 1
Published: almost 13 years ago

10.1186/s12864-016-2416-9

Comparative transcriptome analysis of wheat embryo and endosperm responses to ABA and H2O2 stresses during seed germination
Cited by: 23
Author(s): Yonglong Yu, Shoumin Zhen, Wang Shu, Yaping Wang, Hui Cao, Yanzhen Zhang, Jiarui Li, Yueming Yan
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pbio.1001845

Toxoplasma Effector MAF1 Mediates Recruitment of Host Mitochondria and Impacts the Host Response
Cited by: 145
Author(s): Lena Pernas, Yaw Adomako‐Ankomah, Anjali J. Shastri, Sarah E. Ewald, Moritz Treeck, Jon P. Boyle, John C. Boothroyd
Software Mentions: 1
Published: over 12 years ago

10.1186/1471-2105-6-99

Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER
Cited by: 53
Author(s): Markus Wistrand, Erik L. L. Sonnhammer
Software Mentions: 1
Published: over 21 years ago

10.1371/journal.pbio.0040002

Conserved and Variable Functions of the σE Stress Response in Related Genomes
Cited by: 438
Author(s): Virgil A. Rhodius, Won Chul Suh, Gen Nonaka, Joyce F. West, Carol A. Gross
Software Mentions: 1
Published: over 20 years ago

10.1371/journal.pbio.0030187

Determination of Stromal Signatures in Breast Carcinoma
Cited by: 183
Author(s): Robert B. West, Dimitry S.A. Nuyten, Subbaya Subramanian, Torsten O. Nielsen, Christopher L. Corless, Brian P. Rubin, Kelli Montgomery, Shirley Zhu, Rajiv M. Patel, Tina Hernandez‐Boussard, John R. Goldblum, Patrick O. Brown, Marc J. van de Vijver, Matt van de Rijn
Software Mentions: 1
Published: about 21 years ago

Projects: cran: SAM

Science Score: 85/100

Bonuses:

Penalties:

Papers Mentioning SAM 4,566