cran: SAM | Projects | Ecosyste.ms: Papers

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

10.3390/ijms20174295

The Role of Extracellular Matrix Expression, ERK1/2 Signaling and Cell Cohesiveness for Cartilage Yield from iPSCs
Cited by: 12
Author(s): Justyna Buchert, Solvig Diederichs, Ursula Kreuser, Christian Merle, Wiltrud Richter
Software Mentions: 1
Published: about 7 years ago

10.1186/s12859-018-2207-1

NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data
Cited by: 28
Author(s): Fang Li, Jiang Hu, Depeng Wang, Kai Wang
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-2105-5-185

Cited by: 33
Author(s): Virginie Aris, Michael J. Cody, Jeff Cheng, James Dermody, Patricia Soteropoulos, Michael Recce, Peter Tolias
Software Mentions: 1
Published: over 22 years ago

10.1186/1471-2105-13-S7-S9

Comparison of data-merging methods with SVM attribute selection and classification in breast cancer gene expression
Cited by: 38
Author(s): Vitoantonio Bevilacqua, Paolo Pannarale, Mirko Abbrescia, Claudia Cava, Angelo Paradiso, Stefania Tommasi
Software Mentions: 1
Published: over 14 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: about 11 years ago

10.3390/ijms20215278

Gender Related Changes in Gene Expression Induced by Valproic Acid in A Mouse Model of Autism and the Correction by S-adenosyl Methionine. Does It Explain the Gender Differences in Autistic Like Behavior?
Cited by: 17
Author(s): Liza Weinstein-Fudim, Zivanit Ergaz, Gadi Turgeman, Joseph Yanai, Moshe Szyf, Asher Ornoy
Software Mentions: 1
Published: almost 7 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

10.18632/oncotarget.13886

Detection of ALK rearrangements in lung cancer patients using a homebrew PCR assay
Cited by: 2
Author(s): Hui Yu, Jian Chang, Fang Liu, Qifeng Wang, Yegang Lu, Zhuan Xu Zhang, Jiabing Shen, Qian Zhai, Meng Xia, Jialei Wang, Xun Ye
Software Mentions: 1
Published: almost 10 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: almost 11 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: almost 11 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: almost 11 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: almost 11 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: almost 11 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: almost 11 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: almost 11 years ago

10.1007/s40520-020-01646-5

Intranasal delivery of BDNF rescues memory deficits in AD11 mice and reduces brain microgliosis
Cited by: 20
Author(s): Chiara Braschi, Simona Capsoni, Roberto Narducci, Andrea Poli, Gabriele Sansevero, Rossella Brandi, Lamberto Maffei, Antonino Cattaneo, Nicoletta Berardi
Software Mentions: 1
Published: about 6 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

10.3390/ijms20246350

Single-Molecule Long-Read Sequencing Reveals the Diversity of Full-Length Transcripts in Leaves of Gnetum (Gnetales)
Cited by: 8
Author(s): Nan Deng, Chen Hou, Fengfeng Ma, Caixia Liu, Yuxin Tian
Software Mentions: 1
Published: almost 7 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

10.18632/oncotarget.14201

Aneuploidy related transcriptional changes in endometrial cancer link low expression of chromosome 15q genes to poor survival
Cited by: 3
Author(s): Karen Klepsland Mauland, Elisabeth Wik, Erling A. Høivik, Kanthida Kusonmano, Mari K. Halle, Ansgar Berg, Hans Kristian Haugland, Anne Margrete Øyan, Karl‐Henning Kalland, Ingunn M. Stefansson, Lars A. Akslen, Camilla Krakstad, Jone Trovik, Henrica M.J. Werner, Helga B. Salvesen
Software Mentions: 1
Published: over 9 years ago

10.1038/srep25274

Changes in variation at the MHC class II DQA locus during the final demise of the woolly mammoth
Cited by: 12
Author(s): Patrícia Pečnerová, David Díez-del-Molino, Sergey Vartanyan, Love Dalén
Software Mentions: 1
Published: over 10 years ago

10.1038/srep25543

Evolved resistance to colistin and its loss due to genetic reversion in Pseudomonas aeruginosa
Cited by: 58
Author(s): Jiyoung Lee, Young Kyoung Park, Eun Seon Chung, In Young Na, Kwan Soo Ko
Software Mentions: 1
Published: over 10 years ago

10.1038/srep25397

Identification of side- and shear-dependent microRNAs regulating porcine aortic valve pathogenesis
Cited by: 40
Author(s): Swetha Rathan, Casey Jane Ankeny, Sivakkumar Arjunon, Zannatul Ferdous, Sandeep Kumar, Joan Fernández Esmerats, Jonathon Heath, Robert M. Nerem, Ajit P. Yoganathan, Hanjoong Jo
Software Mentions: 1
Published: over 10 years ago

10.1038/srep25614

Multiple gene mutations identified in patients infected with influenza A (H7N9) virus
Cited by: 7
Author(s): Cuicui Chen, Mingbang Wang, Zhaoqin Zhu, Jieming Qu, Xiuhong Xi, Xinjun Tang, Xiangda Lao, E. Scott Seeley, Tao Li, Xiaomei Fan, Chunling Du, Qin Wang, Lin Yang, Yunwen Hu, Chunxue Bai, Zhiyong Zhang, Shuaiyao Lu, Yuanlin Song, Wenhao Zhou
Software Mentions: 1
Published: over 10 years ago

10.1038/srep26342

Distinctive features of single nucleotide alterations in induced pluripotent stem cells with different types of DNA repair deficiency disorders
Cited by: 7
Author(s): Koji Okamura, Hironari Sakaguchi, Rie Sakamoto-Abutani, Mahito Nakanishi, Ken Nishimura, Mayu Yamazaki-Inoue, Manami Ohtaka, Vaiyapuri Subbarayan Periasamy, Ali A. Alshatwi, Akon Higuchi, Kazunori Hanaoka, Kazuhiko Nakabayashi, Shuji Takada, Kenichiro Hata, Masashi Toyoda, Akihiro Umezawa
Software Mentions: 1
Published: over 10 years ago

10.1038/srep26315

Evolutionary potential and adaptation of Banksia attenuata (Proteaceae) to climate and fire regime in southwestern Australia, a global biodiversity hotspot
Cited by: 8
Author(s): Tianhua He, Haylee M. D’Agui, Seng Han Lim, Neal J. Enright, Yiqi Luo
Software Mentions: 1
Published: over 10 years ago

10.1038/srep25516

CT-Finder: A Web Service for CRISPR Optimal Target Prediction and Visualization
Cited by: 32
Author(s): Houxiang Zhu, Lauren Misel, Mitchell Graham, Michael L. Robinson, Chun Liang
Software Mentions: 1
Published: over 10 years ago

10.1111/acel.12376

Changes in neuronal CycD/Cdk4 activity affect aging, neurodegeneration, and oxidative stress
Cited by: 7
Author(s): Amalia Icreverzi, Aida Flor A. de la Cruz, David W. Walker, Bruce A. Edgar
Software Mentions: 1
Published: about 11 years ago

10.1186/1471-2105-9-142

Ranking analysis of F-statistics for microarray data
Cited by: 10
Author(s): Yuan De Tan, Myriam Fornage, Hongyan Xu
Software Mentions: 1
Published: over 18 years ago

10.1038/srep27289

High hydrostatic pressure adaptive strategies in an obligate piezophile Pyrococcus yayanosii
Cited by: 45
Author(s): Grégoire Michoud, Mohamed Jebbar
Software Mentions: 1
Published: over 10 years ago

10.1038/srep27496

Rapid identification of fruit length loci in cucumber (Cucumis sativus L.) using next-generation sequencing (NGS)-based QTL analysis
Cited by: 61
Author(s): Qingzhen Wei, Wenyuan Fu, Yunzhu Wang, Xiaodong Qin, Jing Wang, Ji Li, Qunfeng Lou, Jinfeng Chen
Software Mentions: 1
Published: over 10 years ago

10.1186/1471-2105-9-49

A dynamic Bayesian network approach to protein secondary structure prediction
Cited by: 62
Author(s): Xin‐Qiu Yao, Huaiqiu Zhu, Zhen‐Su She
Software Mentions: 1
Published: over 18 years ago

10.1186/1471-2105-9-S9-S10

The balance of reproducibility, sensitivity, and specificity of lists of differentially expressed genes in microarray studies
Cited by: 222
Author(s): Leming Shi, Wendell Jones, Roderick V. Jensen, Stephen Harris, Roger Perkins, Federico Goodsaid, Lei Guo, Lisa J. Croner, Cecilie Boysen, Hong Fang, Feng Qian, Shashi Amur, Wenjun Bao, Cátálin Bárbácioru, Vincent Bertholet, Xiaoxi Cao, Tzu Ming Chu, Patrick J. Collins, Xiao Hui Fan, Felix W. Frueh, James C. Fuscoe, Xu Guo, Jing Han, Damir Herman, Huixiao Hong, Ernest S. Kawasaki, Quan Zhen Li, Yuling Luo, Yunqing Ma, Nan Mei, Ron L. Peterson, Raj K. Puri, Richard Shippy, Zhenqiang Su, Yongming Sun, Hongmei Sun, Brett T. Thorn, Yaron Turpaz, Charles Wang, Sue Jane Wang, Janet A. Warrington, James C. Willey, Jie Wu, Qian Xie, Liang Zhang, Lu Zhang, Sheng Zhong, Russell D. Wolfinger, Weida Tong
Software Mentions: 1
Published: about 18 years ago

10.1038/srep27815

Rotman Lens-Based Circular Array for Generating Five-mode OAM Radio Beams
Cited by: 44
Author(s): Xudong Bai, Xianling Liang, Jianping Li, Kun Wang, Junping Geng, Ronghong Jin
Software Mentions: 1
Published: over 10 years ago

10.1038/srep28262

Detection of orbital angular momentum using a photonic integrated circuit
Cited by: 26
Author(s): Guanghao Rui, Bing Gu, Yiping Cui, Qiwen Zhan
Software Mentions: 1
Published: about 10 years ago

10.1038/srep28662

Ecological determinants of mean family age of angiosperm trees in forest communities in China
Cited by: 6
Author(s): Hong Qian, Shengbin Chen
Software Mentions: 1
Published: about 10 years ago

10.1038/srep29234

HANDS2: accurate assignment of homoeallelic base-identity in allopolyploids despite missing data
Cited by: 6
Author(s): Amina Khan, Eric J. Belfield, Nicholas P. Harberd, Aziz Mithani
Software Mentions: 1
Published: about 10 years ago

10.1038/srep29160

MSC from fetal and adult lungs possess lung-specific properties compared to bone marrow-derived MSC
Cited by: 42
Author(s): Sara Rolandsson Enes, Annika Andersson Sjöland, Ingrid Skog, Lennart Hansson, Hillevi Larsson, Katarina Le Blanc, Leif Eriksson, Leif Bjermer, Stefan Scheding, Gunilla Westergren‐Thorsson
Software Mentions: 1
Published: about 10 years ago

10.1186/1471-2105-13-244

The LO-BaFL method and ALS microarray expression analysis
Cited by: 9
Author(s): Cristina Baciu, Kevin J. Thompson, Jean-Luc Mougeot, Benjamin Rix Brooks, Juliane Weller
Software Mentions: 1
Published: almost 14 years ago

10.1038/srep29389

Peroxiredoxin 1 interacts with and blocks the redox factor APE1 from activating interleukin-8 expression
Cited by: 31
Author(s): Hassan Nassour, Zhiqiang Wang, Amine Saad, Arturo Papaluca, Nicolas Brosseau, El Bachir Affar, Moulay A. Alaoui‐Jamali, Dindial Ramotar
Software Mentions: 1
Published: about 10 years ago

10.1038/srep29525

Salmonella Degrades the Host Glycocalyx Leading to Altered Infection and Glycan Remodeling
Cited by: 54
Author(s): Narine Arabyan, Dayoung Park, Soraya Foutouhi, Allison M. Weis, Bihua C. Huang, Cynthia Williams, Prerak Desai, Jigna Shah, Richard Jeannotte, Nguyet Kong, Carlito B. Lebrilla, Bart C. Weimer
Software Mentions: 1
Published: about 10 years ago

10.1038/srep29849

Identification of novel candidate drivers connecting different dysfunctional levels for lung adenocarcinoma using protein-protein interactions and a shortest path approach
Cited by: 21
Author(s): Chen Lei, Tao Huang, Yuhang Zhang, Yang Jiang, Mingyue Zheng, Yu-Dong Cai
Software Mentions: 1
Published: about 10 years ago

10.1038/srep30330

BATCH-GE: Batch analysis of Next-Generation Sequencing data for genome editing assessment
Cited by: 81
Author(s): Annekatrien Boel, Wouter Steyaert, Nina De Rocker, Björn Menten, Bert Callewaert, Anne De Paepe, Paul Coucke, Andy Willaert
Software Mentions: 1
Published: about 10 years ago

10.3390/ijms21010290

Molecular Mapping and Candidate Gene Analysis for GA3 Responsive Short Internode in Watermelon (Citrullus lanatus)
Cited by: 20
Author(s): Haileslassie Gebremeskel, Junling Dou, Bingbing Li, Shengjie Zhao, Umer Muhammad, Xingrong Lu, Nan He, Wenge Liu
Software Mentions: 1
Published: over 6 years ago

10.1038/srep31180

Investigation of the functional role of human Interleukin-8 gene haplotypes by CRISPR/Cas9 mediated genome editing
Cited by: 32
Author(s): Manjunatha R. Benakanakere, Lívia S. Finoti, Urara Tanaka, Gregory R. Grant, Raquel Mantuaneli Scarel‐Caminaga, Denis F. Kinane
Software Mentions: 1
Published: about 10 years ago

10.1038/srep31453

Facial feedback and autonomic responsiveness reflect impaired emotional processing in Parkinson’s Disease
Cited by: 8
Author(s): Michela Balconi, Francesca Pala, Rosa Manenti, Michela Brambilla, Chiara Cobelli, Sandra Rosini, Alberto Benussi, Alessandro Padovani, Barbara Borroni, Maria Cotelli
Software Mentions: 1
Published: about 10 years ago

10.3390/ijms21061999

Identification of Candidate Genes Involved in Curd Riceyness in Cauliflower
Cited by: 4
Author(s): Zhenqing Zhao, Xin Sheng, Huifang Yu, Jiansheng Wang, Yusen Shen, Honghui Gu
Software Mentions: 1
Published: over 6 years ago

10.1038/srep31052

Localising the auditory N1m with event-related beamformers: localisation accuracy following bilateral and unilateral stimulation
Cited by: 6
Author(s): Lauren E. Gascoyne, Paul L. Furlong, Arjan Hillebrand, Siân F. Worthen, Caroline Witton
Software Mentions: 1
Published: about 10 years ago

10.3390/ijms21072373

The Position and Complex Genomic Architecture of Plant T-DNA Insertions Revealed by 4SEE
Cited by: 6
Author(s): Ronen Krispil, Miriam Tannenbaum, Avital Sarusi-Portuguez, Olga Loza, Olga Raskina, Ofir Hakim
Software Mentions: 1
Published: over 6 years ago

10.18632/oncotarget.14509

Clonal evolution in therapy-related neoplasms
Cited by: 21
Author(s): Emiliano Fabiani, Giulia Falconi, Luana Fianchi, Marianna Criscuolo, Tiziana Ottone, Laura Cicconi, Stefan Hohaus, Simona Sica, Massimiliano Postorino, Antonino Neri, Marta Lionetti, Giuseppe Leone, Francesco Lo‐Coco, Maria Teresa Voso
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2105-11-400

Intensity dependent estimation of noise in microarrays improves detection of differentially expressed genes
Cited by: 26
Author(s): Amit Zeisel, Amir Almasi‐Hashiani, Wolfgang J. Köstler, Eytan Domany
Software Mentions: 1
Published: about 16 years ago

10.1186/1471-2105-15-S9-S12

ARYANA: Aligning Reads by Yet Another Approach
Cited by: 0
Author(s): Milad Gholami, Aryan Arbabi, Ali Sharifi-Zarchi, Hamidreza Chitsaz, Mehdi Sadeghi
Software Mentions: 1
Published: about 12 years ago

10.1186/1471-2105-7-99

Determination of strongly overlapping signaling activity from microarray data
Cited by: 26
Author(s): Ghislain Bidaut, Karsten Suhre, Jean‐Michel Claverie, Michael F. Ochs
Software Mentions: 1
Published: over 20 years ago

10.1186/1471-2105-16-S18-S5

Analysis of genomic rearrangements by using the Burrows-Wheeler transform of short-read data
Cited by: 7
Author(s): Kouichi Kimura, Atsushi Koike
Software Mentions: 1
Published: almost 11 years ago

10.1038/srep33297

Genome-wide analysis of long intergenic non-coding RNAs in chickpea and their potential role in flower development
Cited by: 63
Author(s): Niraj Khemka, Vikash Singh, Rohini Garg, Mukesh Jain
Software Mentions: 1
Published: about 10 years ago

10.3390/ijms21103661

Synthetic Strategies and Computational Inhibition Activity Study for Triazinyl-Substituted Benzenesulfonamide Conjugates with Polar and Hydrophobic Amino Acids as Inhibitors of Carbonic Anhydrases
Cited by: 8
Author(s): Mária Bodnár Mikulová, Dáša Kružlicová, Daniel Pecher, Claudiu T. Supuran, Peter Mikuš
Software Mentions: 1
Published: over 6 years ago

10.1111/acel.13029

Voluntary exercise normalizes the proteomic landscape in muscle and brain and improves the phenotype of progeroid mice
Cited by: 16
Author(s): Jaime M. Ross, Giuseppe Coppotelli, Rui M. Branca, Kyung Mi Kim, Janne Lehtiö, David Sinclair, Lar̀s Olson
Software Mentions: 1
Published: about 7 years ago

10.1038/srep34941

Genome scans for divergent selection in natural populations of the widespread hardwood species Eucalyptus grandis (Myrtaceae) using microsatellites
Cited by: 15
Author(s): Zexing Song, Miaomiao Zhang, Fagen Li, Qijie Weng, Chanpin Zhou, Li Mei, Jie Li, Huanhua Huang, Xiaoyong Mo, Gan Shen
Software Mentions: 1
Published: almost 10 years ago

10.1038/srep35664

HER2-encoded mir-4728 forms a receptor-independent circuit with miR-21-5p through the non-canonical poly(A) polymerase PAPD5
Cited by: 16
Author(s): Inga Newie, Rolf Søkilde, Helena Persson, Thiago Jacomasso, Andrej Gorbatenko, Åke Borg, Michiel de Hoon, Stine Falsig Pedersen, Carlos Rovira
Software Mentions: 1
Published: almost 10 years ago

10.1038/srep35936

The use of targeted genomic capture and massively parallel sequencing in diagnosis of Chinese Leukoencephalopathies
Cited by: 13
Author(s): Xiaole Wang, Fang He, Fei Yin, Chao Chen, Liwen Wu, Lei Yang, Jing Peng
Software Mentions: 1
Published: almost 10 years ago

10.1038/srep35284

Genome-wide diversity and gene expression profiling of Babesia microti isolates identify polymorphic genes that mediate host-pathogen interactions
Cited by: 67
Author(s): Joana C. Silva, Emmanuel Cornillot, Carrie McCracken, Sahar Usmani‐Brown, Ankit Dwivedi, Olukemi O. Ifeonu, Jonathan Crabtree, Hanzel T. Gotia, Azan Z. Virji, Christelle Reynès, Jacques Colinge, Vidya P. Kumar, Lauren Lawres, Joseph E. Pazzi, Jozelyn Pablo, Christopher Hung, Jana Brancato, Priti Kumari, Joshua Orvis, Kyle Tretina, Marcus C. Chibucos, Sandy Ott, Lisa Sadzewicz, Naomi Sengamalay, Amol C. Shetty, Qi Su, Luke J. Tallon, Claire M. Fraser, Roger Frutos, Douglas M. Molina, Peter J. Krause, Choukri Ben Mamoun
Software Mentions: 1
Published: almost 10 years ago

10.1038/srep36227

Identifying reproducible cancer-associated highly expressed genes with important functional significances using multiple datasets
Cited by: 2
Author(s): Haiyan Huang, Xiangyu Li, You Guo, Yuncong Zhang, Xusheng Deng, Lufei Chen, Jiahui Zhang, Zheng Guo, Lu Ao
Software Mentions: 1
Published: almost 10 years ago

10.1186/1755-8794-4-41

Molecular conservation of estrogen-response associated with cell cycle regulation, hormonal carcinogenesis and cancer in zebrafish and human cancer cell lines
Cited by: 30
Author(s): Siew Hong Lam, Serene G. P. Lee, Chin Yo Lin, Jane S. Thomsen, Pan Fu, K. R. K. Murthy, Haixia Li, Kunde Ramamoorthy Govindarajan, Lin C H Nick, Guillaume Bourque, Zhiyuan Gong, Thomas Lufkin, Edison T. Liu, Sinnakaruppan Mathavan
Software Mentions: 1
Published: over 15 years ago

10.1186/s12920-015-0082-4

Effects of statin on circulating microRNAome and predicted function regulatory network in patients with unstable angina
Cited by: 18
Author(s): Jingjin Li, Hong Chen, Jingyi Ren, Junxian Song, Feng Zhang, Jing Zhang, Chongyou Lee, Sufang Li, Qiang Geng, Yin Cao, Ning Xu
Software Mentions: 1
Published: over 11 years ago

10.1186/1755-8794-3-17

Predicting environmental chemical factors associated with disease-related gene expression data
Cited by: 24
Author(s): Chirag Patel, Atul J. Butte
Software Mentions: 1
Published: over 16 years ago

10.1186/1755-8794-3-58

Comparative gene expression profiling analysis of urothelial carcinoma of the renal pelvis and bladder
Cited by: 51
Author(s): Zhongfa Zhang, Kyle A. Furge, Ximing J. Yang, Bin Tean Teh, Donna E. Hansel
Software Mentions: 1
Published: almost 16 years ago

10.1038/srep35860

Shedding light on cell compartmentation in the candidate phylum Poribacteria by high resolution visualisation and transcriptional profiling
Cited by: 27
Author(s): Martin T. Jahn, Sebastian M. Markert, Tae Woo Ryu, Timothy Ravasi, Christian Stigloher, Ute Hentschel, Lucas Moitinho‐Silva
Software Mentions: 1
Published: almost 10 years ago

10.1186/1755-8794-6-S2-S4

Curation-free biomodules mechanisms in prostate cancer predict recurrent disease
Cited by: 8
Author(s): James L. Chen, Alexander O. Hsu, Xinan Yang, Jiànróng Lǐ, Younghee Lee, Gurunadh Parinandi, Haiquan Li, Yves A. Lussier
Software Mentions: 1
Published: over 13 years ago

10.1038/srep36877

Transcriptome analysis of follicles reveals the importance of autophagy and hormones in regulating broodiness of Zhedong white goose
Cited by: 31
Author(s): Jing Yu, Ya‐Ping Lou, Ayong Zhao
Software Mentions: 1
Published: almost 10 years ago

10.1186/1755-8794-3-2

Gene profiling of the erythro- and megakaryoblastic leukaemias induced by the Graffi murine retrovirus
Cited by: 4
Author(s): Véronique Voisin, Philippe Legault, Diana Paulina Salazar Ospina, Yaacov Ben‐David, Éric Rassart
Software Mentions: 1
Published: over 16 years ago

10.1186/1755-8794-6-S1-S11

A novel method for finding non-small cell lung cancer diagnosis biomarkers
Cited by: 15
Author(s): Quôc-Nam Trân
Software Mentions: 1
Published: over 13 years ago

10.1038/srep37061

Ligand-mediated changes in conformational dynamics of NpmA: implications for ribosomal interactions
Cited by: 5
Author(s): Nilofer Husain, Nikhil Kumar Tulsian, Wang Loo Chien, Sushant Suresh, Ganesh S. Anand, J. Sivaraman
Software Mentions: 1
Published: almost 10 years ago

10.1186/1755-8794-1-54

The distinctive gastric fluid proteome in gastric cancer reveals a multi-biomarker diagnostic profile
Cited by: 35
Author(s): Oi Lian Kon, Tai‐Tung Yip, Meng Fatt Ho, Weng Hoong Chan, Wai Keong Wong, Soo-Yong Tan, Wai Har Ng, Siok Yuen Kam, Alvin Kh Eng, Patrick A. Ho, Rosa Viner, Hock Soo Ong, M. Priyanthi Kumarasinghe
Software Mentions: 1
Published: almost 18 years ago

10.1186/1755-8794-1-13

The gene expression profiles of primary and metastatic melanoma yields a transition point of tumor progression and metastasis
Cited by: 425
Author(s): Adam I. Riker, Steven A. Enkemann, Øystein Fodstad, Suhu Liu, Shengxiang Ren, Christopher G. Morris, Yaguang Xi, Paul Howell, Brandon J. Metge, Rajeev S. Samant, Lalita A. Shevde, Wenbin Li, Steven Eschrich, Adil Daud, Jingfang Ju, Jaime Matta
Software Mentions: 1
Published: over 18 years ago

10.3390/ijms21145032

Nutri-Epigenetics and Gut Microbiota: How Birth Care, Bonding and Breastfeeding Can Influence and Be Influenced?
Cited by: 15
Author(s): Rosita Gabbianelli, Laura Bordoni, Sandra Morano, Jean Calleja‐Agius, Joan Lalor
Software Mentions: 1
Published: about 6 years ago

10.1186/s12920-016-0195-4

Integrated analysis of omics data using microRNA-target mRNA network and PPI network reveals regulation of Gnai1 function in the spinal cord of Ews/Ewsr1 KO mice
Cited by: 5
Author(s): Chai Jin Lee, Hongryul Ahn, Sean Bong Lee, Jong Yeon Shin, Woong-Yang Park, Jong‐Il Kim, Jung‐Hee Lee, Hoon Ryu, Sun Kim
Software Mentions: 1
Published: about 10 years ago

10.1186/s12920-021-00981-4

The identification of novel gene mutations for degenerative lumbar spinal stenosis using whole-exome sequencing in a Chinese cohort
Cited by: 2
Author(s): Xin Jiang, Chen Dong
Software Mentions: 1
Published: over 5 years ago

10.1186/1755-8794-3-37

The NRF2-mediated oxidative stress response pathway is associated with tumor cell resistance to arsenic trioxide across the NCI-60 panel
Cited by: 42
Author(s): Qian Liu, Hao Zhang, Lisa Smeester, Fei Zou, Matthew J. Kesic, Ilona Jaspers, Jingbo Pi, Rebecca C. Fry
Software Mentions: 1
Published: about 16 years ago

Projects: cran: SAM

Science Score: 85/100

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Penalties:

Papers Mentioning SAM 4,566