pypi: analysis | Projects | Ecosyste.ms: Papers

10.1186/s12864-017-3675-9

Transcriptome analysis reveals potential mechanisms underlying differential heart development in fast- and slow-growing broilers under heat stress
Cited by: 23
Author(s): J. Zhang, Carl J. Schmidt, Susan J. Lamont
Software Mentions: 4
Published: over 9 years ago

10.1038/srep09027

Genome wide expression profiling of p53 regulated miRNAs in neuroblastoma
Cited by: 28
Author(s): Ali Rihani, Alan Van Goethem, Maté Ongenaert, Sara De Brouwer, Pieter-Jan Volders, Saurabh Agarwal, Katleen De Preter, Pieter Mestdagh, Jason M. Shohet, Franki Speleman, Jo Vandesompele, Tom Van Maerken
Software Mentions: 4
Published: over 11 years ago

10.3390/jcm10112259

Learning from Embryogenesis—A Comparative Expression Analysis in Melanoblast Differentiation and Tumorigenesis Reveals miRNAs Driving Melanoma Development
Cited by: 4
Author(s): Lisa Linck-Paulus, Lisa Lämmerhirt, Daniel Völler, Katharina Meyer, Julia C. Engelmann, Rainer Spang, Norbert Eichner, Gunter Meister, Silke Kuphal, Anja‐Katrin Bosserhoff
Software Mentions: 4
Published: about 5 years ago

10.18632/aging.102190

Long non-coding RNA CASC19 is associated with the progression and prognosis of advanced gastric cancer
Cited by: 23
Author(s): Wenjie Wang, Changan Guo, Rui Li, Zipeng Xu, Jianping Yu, Ye Yan, Jun Zhao, Jing Wang, Wen-An Wang, An Zhang, Hongtao Li, Chen Wang, Hongbin Liu
Software Mentions: 4
Published: about 7 years ago

10.1093/bioinformatics/btz275

NGSEP3: accurate variant calling across species and sequencing protocols
Cited by: 44
Author(s): Daniel Tello, Juanita Gil, Cristian D Loaiza, John J. Riascos, Nicolás Cardozo, Jorge Duitama
Software Mentions: 4
Published: over 7 years ago

10.1111/jcmm.15650

Combined analysis of RNA‐sequence and microarray data reveals effective metabolism‐based prognostic signature for neuroblastoma
Cited by: 4
Author(s): Xinyao Meng, Chenzhao Feng, Erhu Fang, Jiexiong Feng, Xiang Zhao
Software Mentions: 4
Published: about 6 years ago

10.1111/jcmm.16343

Prognostic values and immune suppression of the S100A family in pancreatic cancer
Cited by: 23
Author(s): Hongkai Zhuang, Xinming Chen, Fengying Dong, Zedan Zhang, Zixuan Zhou, Zuyi Ma, Shanzhou Huang, Bin Chen, Chuanzhao Zhang
Software Mentions: 4
Published: over 5 years ago

10.1038/s41380-020-0767-8

AP-1 controls the p11-dependent antidepressant response
Cited by: 25
Author(s): Revathy U. Chottekalapanda, Salina Kalik, Jodi Gresack, Alyssa Ayala, Melanie Gao, Wei Wang, Sarah J. Meller, Ammar Aly, Anne Schaefer, Paul Greengard
Software Mentions: 4
Published: about 6 years ago

10.7150/jca.39723

Weighted gene co-expression network analysis identified MYL9 and CNN1 are associated with recurrence in colorectal cancer
Cited by: 15
Author(s): Qiu Xiao, Shen-Hong Cheng, Fei Xu, Jinwen Yin, Liyang Wang, Xinyou Zhang
Software Mentions: 4
Published: over 6 years ago

10.7150/jca.56506

Identification of Hub Genes and Small Molecule Drugs Associated with Acquired Resistance to Gefitinib in Non-Small Cell Lung Cancer
Cited by: 8
Author(s): Guangda Li, You-Zhi Ma, Mingwei Yu, Xiaoxiao Li, Xinjie Chen, Yu Tang Gao, Pei-Yu Cheng, Gan‐Lin Zhang, Xiaomin Wang
Software Mentions: 4
Published: over 5 years ago

10.1186/s13024-018-0254-8

Identification and therapeutic modulation of a pro-inflammatory subset of disease-associated-microglia in Alzheimer’s disease
Cited by: 227
Author(s): Srikant Rangaraju, Eric B. Dammer, Syed Ali Raza, Priyadharshini Rathakrishnan, Hailian Xiao, Tianwen Gao, Duc M. Duong, Michael W. Pennington, James J. Lah, Nicholas T. Seyfried, Aĺlan I. Levey
Software Mentions: 4
Published: about 8 years ago

10.15252/msb.20156108

Cell cycle networks link gene expression dysregulation, mutation, and brain maldevelopment in autistic toddlers
Cited by: 72
Author(s): Tiziano Pramparo, Michael Lombardo, Kathleen Campbell, Cynthia Carter Barnes, Steven Marinero, Stephanie Solso, Julia Young, Maisi Mayo, Anders M. Dale, Clelia Ahrens‐Barbeau, Sarah Murray, Linda Lopez, Nathan E. Lewis, Karen Pierce, Eric Courchesne
Software Mentions: 4
Published: over 10 years ago

10.1186/s13059-019-1866-1

547 transcriptomes from 44 brain areas reveal features of the aging brain in non-human primates
Cited by: 25
Author(s): Mingli Li, Shihao Wu, Jinjin Zhang, Hang-Yu Tian, Yong Shao, Zhengbo Wang, David M. Irwin, Jiali Li, Xintian Hu, Dongdong Wu
Software Mentions: 4
Published: over 6 years ago

10.1186/s12870-020-02637-4

Revealing the full-length transcriptome of caucasian clover rhizome development
Cited by: 13
Author(s): Xiujie Yin, Kun Yi, Yihang Zhao, Yue Hu, Li Xu, Taotao He, Jiaxue Liu, Guowen Cui
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12862-019-1420-5

Alternated selection mechanisms maintain adaptive diversity in different demographic scenarios of a large carnivore
Cited by: 6
Author(s): Rita Gomes Rocha, Vanessa Magalhães, José V. López‐Bao, W. van der Loo, Luís Llaneza, Francisco Álvares, Pedro J. Esteves, Raquel Godinho
Software Mentions: 4
Published: over 7 years ago

10.1186/s12918-018-0542-5

Genome-scale model-driven strain design for dicarboxylic acid production in Yarrowia lipolytica
Cited by: 51
Author(s): Pramod Kumar Mishra, Na-Rae Lee, Meiyappan Lakshmanan, Minsuk Kim, Byung‐Gee Kim, Dong-Yup Lee
Software Mentions: 4
Published: over 8 years ago

10.1186/s13024-020-00394-4

Trem2 deficiency differentially affects phenotype and transcriptome of human APOE3 and APOE4 mice
Cited by: 40
Author(s): Nicholas F. Fitz, Cody M. Wolfe, Brittany E. Playso, Richard J. Biedrzycki, Yi Lü, Kyong Nyon Nam, Iliya Lefterov, Radosveta Koldamova
Software Mentions: 4
Published: about 6 years ago

10.1038/s41438-020-00416-8

Identification of key gene networks controlling organic acid and sugar metabolism during watermelon fruit development by integrating metabolic phenotypes and gene expression profiles
Cited by: 66
Author(s): Muhammad Umer, Luqman Bin Safdar, Haileslassie Gebremeskel, Shengjie Zhao, Pingli Yuan, Huiling Zhu, Mohamed Omar Kaseb, Muhammad Anees, Xingrong Lu, Nan He, Chengsheng Gong, Wenge Liu
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0032453

Astrocyte-Specific Expression Patterns Associated with the PDGF-Induced Glioma Microenvironment
Cited by: 66
Author(s): Amanda Katz, Nduka Amankulor, Kenneth L. Pitter, Karim Y. Helmy, Massimo Squatrito, Eric C. Holland
Software Mentions: 4
Published: over 14 years ago

10.1038/srep12615

Decrease of mRNA Editing after Spinal Cord Injury is Caused by Down-regulation of ADAR2 that is Triggered by Inflammatory Response
Cited by: 27
Author(s): Antonio Fabio Di Narzo, Alexey Kozlenkov, Yongchao Ge, Bin Zhang, Leo Sanelli, Zacnicte May, Yanqing Li, Karim Fouad, Christopher P. Cardozo, Eugene V. Koonin, David J. Bennett, Stella Dracheva
Software Mentions: 4
Published: about 11 years ago

10.1186/1752-0509-6-65

Gene interaction enrichment and network analysis to identify dysregulated pathways and their interactions in complex diseases
Cited by: 49
Author(s): Yu Liu, Mehmet Koyutürk, Jill S. Barnholtz‐Sloan, Mark R. Chance
Software Mentions: 4
Published: about 14 years ago

10.1186/s13326-015-0026-0

Ambiguity and variability of database and software names in bioinformatics
Cited by: 8
Author(s): Geraint Duck, Aleksandar Kovačević, David L. Robertson, Robert Stevens, Goran Nenadić
Software Mentions: 4
Published: about 11 years ago

10.1186/s40478-021-01232-4

Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice
Cited by: 5
Author(s): Cristina Cudalbu, Pierre Bady, Marta Lai, Lijing Xin, Olga Gusyatiner, Marie‐France Hamou, Mario Lepore, Jean‐Philippe Brouland, Roy Thomas Daniel, Andreas F. Hottinger, Monika E. Hegi
Software Mentions: 4
Published: about 5 years ago

10.1186/s13024-021-00462-3

A proteomic network approach resolves stage-specific molecular phenotypes in chronic traumatic encephalopathy
Cited by: 4
Author(s): Laura Gutierrez-Quiceno, Eric B. Dammer, Ashlyn G. Johnson, James Webster, Rhythm Shah, Duc M. Duong, Luming Yin, Nicholas T. Seyfried, Victor E. Alvarez, Thor D. Stein, Ann C. McKee, Chadwick M. Hales
Software Mentions: 4
Published: about 5 years ago

10.1111/jcmm.16573

Development and validation of glycolysis‐related prognostic score for prediction of prognosis and chemosensitivity of pancreatic ductal adenocarcinoma
Cited by: 7
Author(s): Xiuping Zhang, Qinjunjie Chen, Qu Liu, Yang Wang, Fei Wang, Zhiming Zhao, Guodong Zhao, Wan Yee Lau, Yinghong Gao, Rong Liu
Software Mentions: 4
Published: over 5 years ago

10.1186/s13072-019-0286-5

BRD4 bimodal binding at promoters and drug-induced displacement at Pol II pause sites associates with I-BET sensitivity
Cited by: 20
Author(s): Pierre Khoueiry, Aoife Ward Gahlawat, Massimo Petretich, Anne-Marie Michon, Daniel F. Simola, Enid Y.N. Lam, Eileen E. M. Furlong, Vladimı́r Beneš, Mark A. Dawson, Rab K. Prinjha, Gerard Drewes, Paola Grandi
Software Mentions: 4
Published: about 7 years ago

10.3390/life11050367

Activation of Blood Vessel Development in Endometrial Stromal Cells In Vitro Cocultured with Human Peri-Implantation Embryos Revealed by Single-Cell RNA-Seq
Cited by: 4
Author(s): Bo Lv, Xiaoyu Xu, Xunyi Zhang, Lingbin Qi, He We, Lu Wang, Xian Chen, Luying Peng, Jinfeng Xue, Yao Ji, Zhigang Xue
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-020-06909-z

Integrating RNA-Seq with GWAS reveals novel insights into the molecular mechanism underpinning ketosis in cattle
Cited by: 23
Author(s): Ze Yan, Hanyu Huang, Ellen Freebern, D. R. dos Santos, Dongmei Dai, Jingfang Si, Chengbin Ma, Jie Cao, Gang Guo, George E. Liu, Li Ma, Lingzhao Fang, Yi Zhang
Software Mentions: 4
Published: about 6 years ago

10.1136/gutjnl-2019-320430

Western-type diet influences mortality from necrotising pancreatitis and demonstrates a central role for butyrate
Cited by: 57
Author(s): Fons F van den Berg, Demi van Dalen, Sanjiv Hyoju, Hjalmar C. van Santvoort, Marc G. Besselink, W. Joost Wiersinga, Olga Zaborina, Marja A. Boermeester, John C. Alverdy
Software Mentions: 3
Published: almost 6 years ago

10.1093/gigascience/giz138

Pseudo-chromosome–length genome assembly of a double haploid “Bartlett” pear (Pyrus communis L.)
Cited by: 64
Author(s): Gareth Linsmith, Stéphane Rombauts, Sara Montanari, Cecilia Deng, Jean‐Marc Celton, Philippe Guérif, Chang Liu, Rolf Lohaus, Jason D. Zurn, Alessandro Cestaro, Nahla V. Bassil, Linda V. Bakker, Elio Schijlen, Susan E. Gardiner, Yves Lespinasse, Charles‐Eric Durel, Riccardo Velasco, David B. Neale, David Chagné, Yves Van de Peer, Michela Troggio, Luca Bianco
Software Mentions: 3
Published: over 6 years ago

10.1186/gm130

Integration of microRNA changes in vivo identifies novel molecular features of muscle insulin resistance in type 2 diabetes
Cited by: 228
Author(s): Iain J. Gallagher, Camilla Schéele, Pernille Keller, Annemette Nielsen, Judit Reményi, Christian P. Fischer, Karim Roder, John Babraj, Claes Wahlestedt, György Hutvágner, Bente Klarlund Pedersen, James A. Timmons
Software Mentions: 3
Published: over 16 years ago

10.1016/j.molcel.2018.01.034

NADH Shuttling Couples Cytosolic Reductive Carboxylation of Glutamine with Glycolysis in Cells with Mitochondrial Dysfunction
Cited by: 157
Author(s): Edoardo Gaude, Christina Schmidt, Payam A. Gammage, Aurélien Dugourd, Thomas S. Blacker, Sew Peak Chew, Julio Sáez-Rodríguez, John S. O’Neill, György Szabadkai, Michal Minczuk, Christian Frezza
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0257254

Knocking out TMEM38B in human foetal osteoblasts hFOB 1.19 by CRISPR/Cas9: A model for recessive OI type XIV
Cited by: 4
Author(s): Laura Leoni, Francesca Tonelli, Roberta Besio, Roberta Gioia, Francesco Moccia, Antonio Rossi, Antonella Forlino
Software Mentions: 3
Published: almost 5 years ago

10.1186/1476-4598-11-41

Gene expression changes as markers of early lapatinib response in a panel of breast cancer cell lines
Cited by: 23
Author(s): Fiona O’Neill, Stephen F. Madden, Sinéad Aherne, Martin Clynes, John Crown, Padraig Doolan, Robert O’Connor
Software Mentions: 3
Published: about 14 years ago

10.1186/s13059-016-1005-1

Ligation-free ribosome profiling of cell type-specific translation in the brain
Cited by: 47
Author(s): Nicholas Hornstein, Daniela Torres, Sohani Das Sharma, Guomei Tang, Peter Canoll, Peter A. Sims
Software Mentions: 3
Published: about 10 years ago

10.1093/molbev/msaa002

Disrupted Gene Networks in Subfertile Hybrid House Mice
Cited by: 20
Author(s): Katy Morgan, Bettina Harr, Michael A. White, Bret A. Payseur, Leslie M. Turner
Software Mentions: 3
Published: over 6 years ago

10.1186/s41065-021-00183-z

RTP4 is a novel prognosis-related hub gene in cutaneous melanoma
Cited by: 7
Author(s): Yiqi Li, Jue Qi, Jiankang Yang
Software Mentions: 3
Published: about 5 years ago

10.3390/microorganisms8101579

The Core and Distinction of the Gut Microbiota in Chinese Populations across Geography and Ethnicity
Cited by: 16
Author(s): Dong‐Tsamn Lin, Ran Wang, Junjie Luo, Fazheng Ren, Zhenglong Gu, Yiqiang Zhao, Liang Zhao
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12885-021-08687-7

A novel survival model based on a Ferroptosis-related gene signature for predicting overall survival in bladder cancer
Cited by: 22
Author(s): Yingchun Liang, Fangdie Ye, Chenyang Xu, Lina Zou, Yun Hu, Jimeng Hu, Haowen Jiang
Software Mentions: 3
Published: almost 5 years ago

10.3390/genes12020257

Differential Expression of a Panel of Ten CNTN1-Associated Genes during Prostate Cancer Progression and the Predictive Properties of the Panel towards Prostate Cancer Relapse
Cited by: 2
Author(s): Yan Gu, Mathilda Jing Chow, Anil Kapoor, Xiaozeng Lin, Wenjuan Mei, Damu Tang
Software Mentions: 3
Published: over 5 years ago

10.3390/genes8100269

The Plasticizer Bisphenol A Perturbs the Hepatic Epigenome: A Systems Level Analysis of the miRNome
Cited by: 27
Author(s): Ludivine Renaud, Willian A. da Silveira, E. Starr Hazard, Jonathan Simpson, Silvia Falcinelli, Dongjun Chung, Oliana Carnevali, Gary Hardiman
Software Mentions: 3
Published: almost 9 years ago

10.3390/genes12050753

Weighted Gene Co-Expression Network Analysis Reveals Hub Genes Contributing to Fuzz Development in Gossypium arboreum
Cited by: 6
Author(s): Feng Xu, Liyan Shang, Hongyan Cheng, Dongyun Zuo, Youping Zhang, Qiaolian Wang, Limin Lv, Guoli Song
Software Mentions: 3
Published: over 5 years ago

10.3390/genes10020074

Macrophages from Susceptible and Resistant Chicken Lines have Different Transcriptomes following Marek’s Disease Virus Infection
Cited by: 17
Author(s): Pankaj Chakraborty, Richard Kuo, Lonneke Vervelde, Bernadette M. Dutia, Pete Kaiser, Jacqueline Smith
Software Mentions: 3
Published: over 7 years ago

10.3389/fcvm.2021.713983

Pan-Cancer Analysis of Atrial-Fibrillation-Related Innate Immunity Gene ANXA4
Cited by: 6
Author(s): Tao Yan, Shijie Zhu, Yu Shi, Changming Xie, Miao Zhu, Yangyang Zhang, Chunsheng Wang, Changfa Guo
Software Mentions: 3
Published: almost 5 years ago

10.3390/metabo10080303

Metabolic Modelling as a Framework for Metabolomics Data Integration and Analysis
Cited by: 42
Author(s): Svetlana Volkova, Marta R. A. Matos, Matthias Mattanovich, Igor Marín de Mas
Software Mentions: 3
Published: about 6 years ago

10.1186/s41065-019-0096-6

Identification of five hub genes as monitoring biomarkers for breast cancer metastasis in silico
Cited by: 45
Author(s): Yun Cai, Jie Mei, Zhuang Xiao, Bujie Xu, Xiaozheng Jiang, Yongjie Zhang, Yichao Zhu
Software Mentions: 3
Published: about 7 years ago

10.1016/j.ccell.2018.08.015

The Oncogenic Transcription Factor RUNX1/ETO Corrupts Cell Cycle Regulation to Drive Leukemic Transformation
Cited by: 75
Author(s): N Martinez-Soria, Lynsey McKenzie, Julia Draper, Anetta Ptasińska, Hasan Issa, Sandeep Potluri, Helen J. Blair, Anna Pickin, Asmida Isa, Paulynn Suyin Chin, Ricky Tirtakusuma, Dan Coleman, Sirintra Nakjang, Salam A. Assi, Victoria J. Forster, Mojgan Reza, Edward Law, Philip Berry, Dorothée Mueller, Cameron S. Osborne, Alex Elder, Simon Bomken, Deepali Pal, James M. Allan, Gareth J. Veal, Peter N. Cockerill, Christian Wichmann, Josef Vormoor, Georges Lacaud, Constanze Bonifer, Olaf Heidenreich
Software Mentions: 3
Published: almost 8 years ago

10.1186/s12920-020-0693-2

Potential role of genomic imprinted genes and brain developmental related genes in autism
Cited by: 8
Author(s): Jian Li, Xue Lü, Mingya Wang, Yunyun Hu, Kaiyu Xue, Shuanglin Gu, Lili Lv, Saijun Huang, Wei Xie
Software Mentions: 3
Published: over 6 years ago

10.1002/ejp.1270

A machine-learned analysis of human gene polymorphisms modulating persisting pain points to major roles of neuroimmune processes
Cited by: 11
Author(s): Dario Kringel, Catharina Lippmann, Michael J. Parnham, Eija Kalso, Alfred Ultsch, Jörn Lötsch
Software Mentions: 3
Published: about 8 years ago

10.1210/endocr/bqaa009

Protein Profile Changes in Circulating Placental Extracellular Vesicles in Term and Preterm Births: A Longitudinal Study
Cited by: 29
Author(s): Ramkumar Menon, Chirantan Debnath, Andrew Lai, Dominic Guanzon, Shinjini Bhatnagar, Pallavi Kshetrapal, Samantha Sheller‐Miller, Carlos Salomón
Software Mentions: 3
Published: over 6 years ago

10.1016/j.dib.2021.106730

Gaze tracking dataset for comparison of smooth and saccadic eye tracking
Cited by: 2
Author(s): Adam Pantanowitz, Kimoon Kim, Chelsey Chewins, David M. Rubin
Software Mentions: 3
Published: over 5 years ago

10.1155/2021/3524571

RNA-Seq Expression Analysis of Chronic Asthmatic Mice with Bu-Shen-Yi-Qi Formula Treatment and Prediction of Regulated Gene Targets of Anti-Airway Remodeling
Cited by: 3
Author(s): Jie Cui, Zexi Lv, Fangzhou Teng, Yi Liu, Weifeng Tang, WenQian Wang, Tulake Wuniqiemu, Jingjing Qin, Xueyi Zhu, Ying Wei, Jingcheng Dong
Software Mentions: 3
Published: over 5 years ago

10.1186/s12920-020-00767-0

Unraveling the molecular heterogeneity in type 2 diabetes: a potential subtype discovery followed by metabolic modeling
Cited by: 7
Author(s): Maryam Khoshnejat, Kaveh Kavousi, Ali Mohammad Banaei-Moghaddam, Ali Akbar Moosavi-Movahedi
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12888-020-02499-y

Dysregulation of amino acids and lipids metabolism in schizophrenia with violence
Cited by: 19
Author(s): Xiacan Chen, Jiajun Xu, Jing Tang, Xinhua Dai, Haolan Huang, Ruochen Cao, Junmei Hu
Software Mentions: 3
Published: over 6 years ago

10.1186/1471-2105-15-162

A multivariate approach to the integration of multi-omics datasets
Cited by: 214
Author(s): Chen Meng, Bernhard Küster, Aedín C. Culhane, Amin Moghaddas Gholami
Software Mentions: 3
Published: about 12 years ago

10.15252/emmm.201708304

A <scp>HIF</scp> – <scp>LIMD</scp> 1 negative feedback mechanism mitigates the pro‐tumorigenic effects of hypoxia
Cited by: 17
Author(s): Daniel E. Foxler, Katherine S. Bridge, John G. Foster, Paul Grevitt, Sean Curry, Kunal M. Shah, Kathryn M. Davidson, A. Nagano, Emanuela Gadaleta, Hefin Rhys, Paul Kennedy, Miguel A. Hermida, Ting‐Yu Chang, Peter E. Shaw, Louise E. Reynolds, Tristan R. McKay, Hsei Wei Wang, Paulo S. Ribeiro, Michael J. Plevin, Dimitrios Lagos, Nick R. Lemoine, Prabhakar Rajan, Trevor A. Graham, Claude Chelala, Kairbaan Hodivala‐Dilke, Ian Spendlove, Tyson V. Sharp
Software Mentions: 3
Published: about 8 years ago

10.3390/md18090468

Optimization of Extraction of Bioactive Peptides from Monkfish (Lophius litulon) and Characterization of Their Role in H2O2-Induced Lesion
Cited by: 14
Author(s): Xiaoxiao Tian, Jiawen Zheng, Baogui Xu, Jiena Ye, Zuisu Yang, Yuan Fang
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12920-015-0141-x

Extensive alterations of the whole-blood transcriptome are associated with body mass index: results of an mRNA profiling study involving two large population-based cohorts
Cited by: 21
Author(s): Georg Homuth, Simone Wahl, Christian Müller, Claudia Schurmann, Ulrike Mäder, Stefan Blankenberg, Maren Carstensen, Marcus Dörr, Karlhans Endlich, Christian Englbrecht, Stephan B. Felix, Christian Gieger, Harald Grallert, Christian Herder, Thomas Illig, Jochen Kruppa, Carola Marzi, Julia Mayerle, Thomas Meitinger, Andres Metspalu, Matthias Nauck, Annette Peters, Wolfgang Rathmann, Eva Reinmaa, Rainer Rettig, Michael Roden, Arne Schillert, Katharina Schramm, Leif Steil, Konstantin Strauch, Alexander Teumer, Henry Völzke, Henri Wallaschofski, Philipp S. Wild, Andreas Ziegler, Uwe Völker, Holger Prokisch, Tanja Zeller
Software Mentions: 3
Published: almost 11 years ago

10.1186/s12944-018-0767-8

Associations between three common single nucleotide polymorphisms (rs266729, rs2241766, and rs1501299) of ADIPOQ and cardiovascular disease: a meta-analysis
Cited by: 13
Author(s): Joseph Sam Kanu, Shuang Qiu, Cheng Yi, Ri Li, Changgui Kou, Yan Gu, Yang Bai, Jingwei Shi, Yong Li, Yunkai Liu, Yaqin Yu, Yawen Liu
Software Mentions: 3
Published: about 8 years ago

10.1002/ece3.4504

Methylation divergence of invasiveCionaascidians: Significant population structure and local environmental influence
Cited by: 17
Author(s): Ping Ni, Shiguo Li, Ya‐Ping Lin, Wei Xiong, Xuena Huang, Aibin Zhan
Software Mentions: 3
Published: almost 8 years ago

10.1093/database/baw099

SorghumFDB: sorghum functional genomics database with multidimensional network analysis
Cited by: 40
Author(s): Tian Tian, Qi You, Liwei Zhang, Xin Yi, Hengyu Yan, Wenying Xu, Zhen Su
Software Mentions: 3
Published: over 10 years ago

10.1016/j.dib.2017.10.014

Waste management CDM projects barriers NVivo 10® qualitative dataset
Cited by: 5
Author(s): André Luiz Bufoni, Aracéli Cristina de Sousa Ferreira, Luciano Basto Oliveira
Software Mentions: 3
Published: over 8 years ago

10.1016/j.ymben.2017.11.011

Post-translational regulation of metabolism in fumarate hydratase deficient cancer cells
Cited by: 21
Author(s): Emanuel Gonçalvès, Marco Sciacovelli, Ana S.H. Costa, Maxine Tran, Timothy Isaac Johnson, Daniel Machado, Christian Frezza, Julio Sáez-Rodríguez
Software Mentions: 3
Published: over 8 years ago

10.3390/metabo5040794

Flux Balance Analysis Inspired Bioprocess Upgrading for Lycopene Production by a Metabolically Engineered Strain of Yarrowia lipolytica
Cited by: 28
Author(s): Komi Nambou, Xingxing Jian, Xinkai Zhang, Liujing Wei, Jiajia Lou, Catherine Madzak, Qiang Hua
Software Mentions: 3
Published: over 10 years ago

10.1186/s40170-021-00272-7

Robust metabolic transcriptional components in 34,494 patient-derived cancer-related samples and cell lines
Cited by: 3
Author(s): Vincent Christiaan Leeuwenburgh, Carlos G. Urzúa-Traslaviña, Arkajyoti Bhattacharya, Marthe T. C. Walvoort, Mathilde Jalving, Steven de Jong, Rudolf S.N. Fehrmann
Software Mentions: 3
Published: almost 5 years ago

10.1186/1755-8794-3-59

Birt-Hogg-Dubé renal tumors are genetically distinct from other renal neoplasias and are associated with up-regulation of mitochondrial gene expression
Cited by: 71
Author(s): Jeff Klomp, David Petillo, Natalie M. Niemi, Karl Dykema, Jindong Chen, Ximing J. Yang, Annika Sääf, Peter Zickert, Markus Aly, Ulf S.R. Bergerheim, Magnus Nordenskjöld, Sophie Gad, Sophie Giraud, Yves Denoux, Laurent Yonneau, A. Méjean, Viorel Vasiliu, Stéphane Richard, Jeffrey P. MacKeigan, Bin Tean Teh, Kyle A. Furge
Software Mentions: 3
Published: over 15 years ago

10.1186/s13000-014-0210-z

Unveiling transcription factor regulation and differential co-expression genes in Duchenne muscular dystrophy
Cited by: 7
Author(s): Lijun Tian, Junhua Cao, Xingqiang Deng, Chuanling Zhang, Tong Qian, Xianxiang Song, Baoshan Huang
Software Mentions: 3
Published: almost 12 years ago

10.1186/s12881-017-0393-8

Exome sequencing identified rare variants in genes HSPG2 and ATP2B4 in a family segregating developmental dysplasia of the hip
Cited by: 30
Author(s): Sulman Basit, Alia M. Albalawi, Essa Alharby, Khalid I. Khoshhal
Software Mentions: 3
Published: over 9 years ago

10.1016/j.csbj.2020.04.011

Multi-omics systems toxicology study of mouse lung assessing the effects of aerosols from two heat-not-burn tobacco products and cigarette smoke
Cited by: 21
Author(s): Bjoern Titz, Justyna Szostak, Alain Sewer, Blaine Phillips, Catherine Nury, Thomas Schneider, Sophie Dijon, Oksana Lavrynenko, Ashraf Elamin, Emmanuel Guedj, Ee Tsin Wong, Stefan Lebrun, Grégory Vuillaume, Athanasios Kondylis, Sylvain Gubian, Stéphane Cano, Patrice Leroy, Brian Keppler, Nikolai V. Ivanov, Patrick Vanscheeuwijck, Florian Martin, Manuel C. Peitsch, Julia Hoeng
Software Mentions: 3
Published: over 6 years ago

10.1016/j.csbj.2021.05.055

Genetic mapping of developmental trajectories for complex traits and diseases
Cited by: 1
Author(s): Eldad D. Shulman, Ran Elkon
Software Mentions: 3
Published: over 5 years ago

10.1186/1471-2105-14-212

Linear combination test for gene set analysis of a continuous phenotype
Cited by: 8
Author(s): Irina Dinu, Xiaoming Wang, Linda E. Kelemen, Shabnam Vatanpour, Saumyadipta Pyne
Software Mentions: 3
Published: about 13 years ago

10.1186/s12883-020-01709-0

The prevalence of Restless Legs Syndrome/Willis-ekbom disease (RLS/WED) in the third trimester of pregnancy: a systematic review
Cited by: 18
Author(s): Niloofar Darvishi, Alireza Daneshkhah, Behnam Khaledi-Paveh, Asad Vaisi-Raygani, Masoud Mohammadi, Nader Salari, Fateme Darvishi, Alireza Abdi, Rostam Jalali
Software Mentions: 3
Published: over 6 years ago

10.1186/s12916-015-0282-y

Multi-omic signature of body weight change: results from a population-based cohort study
Cited by: 58
Author(s): Simone Wahl, Susanne Vogt, Ferdinand Stückler, Jan Krumsiek, Jörg Bartel, Tim Kacprowski, Katharina Schramm, Maren Carstensen, Wolfgang Rathmann, Michael Roden, Carolin Jourdan, Antti J. Kangas, Pasi Soininen, Mika Ala‐Korpela, Ute Nöthlings, Heiner Boeing, Fabian J. Theis, Christa Meisinger, Mélanie Waldenberger, Karsten Suhre, Georg Homuth, Christian Gieger, Gabi Kastenmüller, Thomas Illig, Jakob Linseisen, Annette Peters, Holger Prokisch, Christian Herder, Barbara Thorand, Harald Grallert
Software Mentions: 3
Published: over 11 years ago

10.1186/s40164-020-00164-4

Frequent upregulation of G9a promotes RelB-dependent proliferation and survival in multiple myeloma
Cited by: 8
Author(s): Xi Yun Zhang, Deepa Rajagopalan, Tae-Hoon Chung, Lissa Hooi, Tan Boon Toh, Johann Shane Tian, Masturah Bte Mohd Abdul Rashid, Noor Rashidha Bte Meera Sahib, Meijia Gu, Jackwee Lim, Wilson Wang, Wee Joo Chng, Sudhakar Jha, Edward Kai‐Hua Chow
Software Mentions: 3
Published: about 6 years ago

10.3390/foods8100461

Liking Product Landscape: Going Deeper into Understanding Consumers’ Hedonic Evaluations
Cited by: 4
Author(s): Claudia N. Sánchez, Julieta Domínguez-Soberanes, Héctor B. Escalona‐Buendía, Mario Graff, Sebastián Gutiérrez, Gabriela Sánchez
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12915-020-00943-9

The hard clam genome reveals massive expansion and diversification of inhibitors of apoptosis in Bivalvia
Cited by: 45
Author(s): Hao Song, Ximing Guo, Lina Sun, Qianghui Wang, Fengming Han, Haiyan Wang, Gregory A. Wray, Phillip L. Davidson, Qing Wang, Zhi Hu, Cong Zhou, Zhi Yu, Mei‐Jie Yang, Jie Feng, Shi Pu, Yi Zhou, Libin Zhang, Tao Zhang
Software Mentions: 3
Published: over 5 years ago

10.1186/s12935-020-01587-z

Identified IGSF9 association with prognosis and hypoxia in nasopharyngeal carcinoma by bioinformatics analysis
Cited by: 6
Author(s): Danxia Huang, Qianqian Liu, Weijun Zhang, Chunyue Huang, Ronghui Zheng, Gaoqiang Xie, Hongmei Wang, Baochang Jia, Jianjun Shi, Yawei Yuan, Min Deng
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12885-017-3237-1

Comparison of triple-negative breast cancer molecular subtyping using RNA from matched fresh-frozen versus formalin-fixed paraffin-embedded tissue
Cited by: 26
Author(s): Bojana Jovanović, Quanhu Sheng, Robert S. Seitz, Kasey Lawrence, Stephan W. Morris, Lance R. Thomas, David R. Hout, Brock L. Schweitzer, Yan Guo, Jennifer A. Pietenpol, Brian D. Lehmann
Software Mentions: 3
Published: over 9 years ago

10.1155/2021/9971353

P3H4 Overexpression Serves as a Prognostic Factor in Lung Adenocarcinoma
Cited by: 5
Author(s): Xiangfeng Jin, Haiqing Zhou, Jianfang Song, Hong Cui, Yiren Luo, Haiping Jiang
Software Mentions: 3
Published: about 5 years ago

10.1111/evo.12476

THE CHANGING PACE OF INSULAR LIFE: 5000 YEARS OF MICROEVOLUTION IN THE ORKNEY VOLE(MICROTUS ARVALIS ORCADENSIS)
Cited by: 50
Author(s): Thomas Cucchi, Ross Barnett, Natalia Martínková, Sabrina Renaud, Élodie Renvoisé, Allowen Evin, Alison Sheridan, Ingrid Mainland, Caroline Wickham-Jones, Christelle Tougard, Jean‐Pierre Quéré, Michel Pascal, M. Pascal, Gerald Heckel, Paul O’Higgins, Jeremy B. Searle, Keith Dobney
Software Mentions: 3
Published: about 12 years ago

10.1002/ctm2.138

Cell cycle progression score as a predictive biomarker for overall survival in patients with adrenocortical carcinoma
Cited by: 0
Author(s): Jing Sun, Run Shi, Felix Beuschlein, C. Belka, Minglun Li
Software Mentions: 3
Published: about 6 years ago

10.1038/s42003-021-01946-0

Diapause vs. reproductive programs: transcriptional phenotypes in a keystone copepod
Cited by: 14
Author(s): Petra H. Lenz, Vittoria Roncalli, Matthew Cieslak, Ann M. Tarrant, Ann M. Castelfranco, Daniel K. Hartline
Software Mentions: 3
Published: over 5 years ago

10.1099/mgen.0.000184

SuperDCA for genome-wide epistasis analysis
Cited by: 21
Author(s): Santeri Puranen, Maiju Pesonen, Johan Pensar, Ying Xu, John A. Lees, Stephen D. Bentley, Nicholas J. Croucher, Jukka Corander
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0164353

Induced Human Decidual NK-Like Cells Improve Utero-Placental Perfusion in Mice
Cited by: 20
Author(s): Ricardo de Carvalho Cavalli, Ana Sofia Cerdeira, Elizabeth Pernicone, Henri Augusto Korkes, Suzanne D. Burke, Augustine Rajakumar, Ravi Thadhani, Drucilla J. Roberts, Manoj Bhasin, S. Ananth Karumanchi, Hernan D. Kopcow
Software Mentions: 3
Published: almost 10 years ago

10.1002/psp4.12091

Model-Based Network Meta-Analysis: A Framework for Evidence Synthesis of Clinical Trial Data
Cited by: 48
Author(s): David Mawdsley, Meg Bennetts, Sofia Dias, Martin Boucher, Nicky J Welton
Software Mentions: 3
Published: about 10 years ago

10.1111/cns.13254

High expression of COPB2 predicts adverse outcomes: A potential therapeutic target for glioma
Cited by: 13
Author(s): Yan Zhou, Xuan Wang, Xing Huang, Xu‐Dong Li, Kai Chen, Hao Yu, Yujie Zhou, Ping Lv, Xiao Jiang
Software Mentions: 3
Published: almost 7 years ago

10.1111/cns.13380

Molecular and clinical characterization of PARP9 in gliomas: A potential immunotherapeutic target
Cited by: 13
Author(s): Hao Xu, Songshan Chai, Yihao Wang, Jiajing Wang, Dongdong Xiao, Junjun Li, Nanxiang Xiong
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0022295

Randomizing Genome-Scale Metabolic Networks
Cited by: 16
Author(s): Areejit Samal, O. C. Martin
Software Mentions: 3
Published: about 15 years ago

10.3390/genes11070760

Protein Coding and Long Noncoding RNA (lncRNA) Transcriptional Landscape in SARS-CoV-2 Infected Bronchial Epithelial Cells Highlight a Role for Interferon and Inflammatory Response
Cited by: 90
Author(s): Radhakrishnan Vishnubalaji, Hibah Shaath, Nehad M. Alajez
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0219486

Caenorhabditis elegans hub genes that respond to amyloid beta are homologs of genes involved in human Alzheimer’s disease
Cited by: 14
Author(s): Rasoul Godini, Roger Pocock, Hossein Fallahi
Software Mentions: 3
Published: about 7 years ago

10.1186/s12864-020-07156-y

Whole genome analysis of the koa wilt pathogen (Fusarium oxysporum f. sp. koae) and the development of molecular tools for early detection and monitoring
Cited by: 9
Author(s): Joe Dobbs, Mee‐Sook Kim, Nicklos S. Dudley, Ned B. Klopfenstein, Aileen Yeh, Robert D. Hauff, Tyler Jones, R. Kasten Dumroese, Philip Cannon, Jane E. Stewart
Software Mentions: 3
Published: almost 6 years ago

10.18632/aging.202493

Identification of hub genes associated with adult acute myeloid leukemia progression through weighted gene co-expression network analysis
Cited by: 4
Author(s): Ruiqi Zhu, Wenyi Lin, Liang Tang, Yu Hu
Software Mentions: 3
Published: over 5 years ago

10.3390/genes10070536

Genome-Wide Identification and Characterization of Long Non-Coding RNAs in Peanut
Cited by: 16
Author(s): Xiaobo Zhao, Li‐Ming Gan, Yan Cheng, Chunjuan Li, Quanxi Sun, Juan Wang, Cuiling Yuan, Hao Zhang, Shiguang Shan, Jian Ning Liu
Software Mentions: 3
Published: about 7 years ago

10.1186/s12934-021-01509-2

Engineering Escherichia coli for the utilization of ethylene glycol
Cited by: 11
Author(s): Aditya Vikram Pandit, Emma Harrison, Radhakrishnan Mahadevan
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-019-6055-9

Dynamics of transcriptome changes during subcutaneous preadipocyte differentiation in ducks
Cited by: 9
Author(s): Zheng Wang, Zhong-Tao Yin, Fan Zhang, Xiao-qin Li, Si-Rui Chen, Ning Yang, Tom E. Porter, Zhuocheng Hou
Software Mentions: 3
Published: almost 7 years ago

10.1590/1414-431X20198333

Screening potential prognostic biomarkers of long non-coding RNAs for predicting the risk of chronic kidney disease
Cited by: 11
Author(s): Na Li, Yan Cui, Min Yin, Feng Liu
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0138204

A Systematic Review and Meta-Analysis of the Efficacy of Anti-Toxoplasma gondii Medicines in Humans
Cited by: 90
Author(s): Haixia Wei, Shanshan Wei, David S. Lindsay, Hong‐Juan Peng
Software Mentions: 3
Published: almost 11 years ago

10.1186/1471-2105-12-315

Link-based quantitative methods to identify differentially coexpressed genes and gene Pairs
Cited by: 83
Author(s): Hui Yu, Baohong Liu, Zhiqiang Ye, Chun Liang, Yixue Li, Yuanyuan Li
Software Mentions: 3
Published: about 15 years ago

10.1186/s12919-021-00223-6

Proceedings of ‘FETP-ICON 2020’ Conference
Cited by: 0
Author(s):
Software Mentions: 3
Published: about 5 years ago

10.1186/1476-4598-9-74

Gene expression in nontumoral liver tissue and recurrence-free survival in hepatitis C virus-positive hepatocellular carcinoma
Cited by: 69
Author(s): Mai Tsuchiya, Joel S. Parker, Hiroshi Kono, Masanori Matsuda, Hideki Fujii, Ivan Rusyn
Software Mentions: 3
Published: over 16 years ago

Projects: pypi: analysis

Science Score: 90/100

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Papers Mentioning analysis 2,036