10.1186/s12885-021-08645-3

Gene-associated methylation status of ST14 as a predictor of survival and hormone receptor positivity in breast Cancer
Cited by: 3
Author(s): Yang-Hong Dai, Ying-Fu Wang, Po-Chien Shen, Cheng‐Hsiang Lo, Juxiang Yang, Chun‐Shu Lin, Hsing‐Lung Chao, Weimin Huang
Software Mentions: 5
Published: almost 5 years ago

10.1371/journal.pgen.1007631

Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logic
Cited by: 16
Author(s): Peter A. Combs, Hunter B. Fraser
Software Mentions: 5
Published: over 7 years ago

10.1186/s12859-019-2947-6

Yanagi: Fast and interpretable segment-based alternative splicing and gene expression analysis
Cited by: 3
Author(s): Mohamed K. Gunady, Stephen M. Mount, Héctor Corrada Bravo
Software Mentions: 5
Published: almost 7 years ago

10.1371/journal.pone.0217121

Removal of an established invader can change gross primary production of native macroalgae and alter carbon flow in intertidal rock pools
Cited by: 1
Author(s): Francesca Rossi, Rosa M. Viejo, Linney Duarte, Fátima Vaz-Pinto, Ignácio Gestoso, Celia Olabarria
Software Mentions: 5
Published: over 6 years ago

10.1186/1471-2164-15-141

Transcriptome sequencing of Atlantic salmon (Salmo salar L.) notochord prior to development of the vertebrae provides clues to regulation of positional fate, chordoblast lineage and mineralisation
Cited by: 40
Author(s): Wang Shou, Tomasz Furmanek, Harald Kryvi, Christel Krossøy, Geir K. Totland, Sindre Grotmol, Anna Wargelius
Software Mentions: 5
Published: over 12 years ago

10.1038/s41598-019-48435-3

Reconstruction of the lncRNA-miRNA-mRNA network based on competitive endogenous RNA reveal functional lncRNAs in Cerebral Infarction
Cited by: 22
Author(s): Junbo Zou, Herzl Chai, Xiaofei Zhang, Deliang Guo, Jia Tai, Yu Wang, Yulin Liang, Fang Wang, Jiangxue Cheng, Jing Wang, Yajun Shi
Software Mentions: 5
Published: almost 7 years ago

10.1098/rsos.171087

A framework for estimating the determinants of spatial and temporal variation in vital rates and inferring the occurrence of unobserved extreme events
Cited by: 6
Author(s): Simone Vincenzi, Dušan Jeseňsek, Alain J. Crivellì
Software Mentions: 5
Published: over 8 years ago

10.1186/1471-2105-6-253

ProfNet, a method to derive profile-profile alignment scoring functions that improves the alignments of distantly related proteins
Cited by: 23
Author(s): Tomas Ohlson, Arne Elofsson
Software Mentions: 5
Published: almost 21 years ago

10.3389/fgene.2019.00855

Variance-Preserving Estimation of Intensity Values Obtained From Omics Experiments
Cited by: 0
Author(s): Adele Ribeiro, Júlia Maria Pavan Soler, Roberto Hirata
Software Mentions: 5
Published: almost 7 years ago

10.1186/1471-2105-15-280

HiChIP: a high-throughput pipeline for integrative analysis of ChIP-Seq data
Cited by: 49
Author(s): Huihuang Yan, Jared M. Evans, Mike Kalmbach, Raymond M. Moore, Sumit Middha, Stanislav Luban, Liguo Wang, Aditya Bhagwate, Ying Liu, Zhifu Sun, Xianfeng Chen, Jean-Pierre A. Kocher
Software Mentions: 5
Published: almost 12 years ago

10.1371/journal.pone.0240943

Three-gene prognostic biomarkers for seminoma identified by weighted gene co-expression network analysis
Cited by: 2
Author(s): Hualin Chen, Gang Chen, Yang Pan, Xiaoxiang Jin
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-018-34160-w

Transcriptomic and functional network features of lung squamous cell carcinoma through integrative analysis of GEO and TCGA data
Cited by: 72
Author(s): Yin Li, Jie Gu, Fan Xu, Qinqing Zhu, Di Ge
Software Mentions: 5
Published: over 7 years ago

10.1080/19336896.2019.1702446

Chronic wasting disease associated with prion protein gene (<i>PRNP</i>) variation in Norwegian wild reindeer (<i>Rangifer tarandus</i>)
Cited by: 25
Author(s): Mariella Evelyn Güere, Jørn Våge, Helene Tharaldsen, Sylvie L. Benestad, Turid Vikøren, Knut Madslien, Petter Hopp, Christer Moe Rolandsen, Knut Røed, Michael A. Tranulis
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-019-51142-8

Alterations to the Gastrointestinal Microbiome Associated with Methamphetamine Use among Young Men who have Sex with Men
Cited by: 35
Author(s): Ryan Cook, Jennifer A. Fulcher, Nicole H. Tobin, Fan Li, Dong Hoon Lee, Cora L. Woodward, Marjan Javanbakht, Ron Brookmeyer, Steven Shoptaw, Robert Bolan, Grace M. Aldrovandi, Pamina M. Gorbach
Software Mentions: 5
Published: over 6 years ago

10.1186/s13059-019-1856-3

NanoSatellite: accurate characterization of expanded tandem repeat length and sequence through whole genome long-read sequencing on PromethION
Cited by: 47
Author(s): Arne De Roeck, Wouter De Coster, Liene Bossaerts, Rita Cacace, Tim De Pooter, Jasper Van Dongen, Svenn D’Hert, Peter De Rijk, Mojca Stražišar, Christine Van Broeckhoven, Kristel Sleegers
Software Mentions: 5
Published: over 6 years ago

10.1038/s41597-020-0352-7

Transcriptome profiling of abiotic responses to heat, cold, salt, and osmotic stress of Capsicum annuum L.
Cited by: 69
Author(s): Won-Hee Kang, Young Mi Sim, Namjin Koo, Jae Do Nam, Junesung Lee, Nayoung Kim, Hakgi Jang, Yongmin Kim, Seon-In Yeom
Software Mentions: 5
Published: over 6 years ago

10.1186/s12957-021-02246-x

Human nuclear receptors (NRs) genes have prognostic significance in hepatocellular carcinoma patients
Cited by: 9
Author(s): Guangtao Sun, Kai Sun, Chao Shen
Software Mentions: 5
Published: about 5 years ago

10.3389/fcell.2021.727935

Uncovering the Association Between m5C Regulator-Mediated Methylation Modification Patterns and Tumour Microenvironment Infiltration Characteristics in Hepatocellular Carcinoma
Cited by: 13
Author(s): Xinyu Gu, Haibo Zhou, Qingfei Chu, Qiuxian Zheng, Jing Wang, Haihong Zhu
Software Mentions: 5
Published: almost 5 years ago

10.1093/molbev/msab122

Role of Sex-Concordant Gene Expression in the Coevolution of Exaggerated Male and Female Genitalia in a Beetle Group
Cited by: 4
Author(s): Shota Nomura, Tomochika Fujisawa, Teiji Sota
Software Mentions: 5
Published: about 5 years ago

10.1111/pbi.13446

Genomic analyses reveal the genetic basis of early maturity and identification of loci and candidate genes in upland cotton (<i>Gossypium hirsutum</i> L.)
Cited by: 35
Author(s): Libei Li, Chi Zhang, Jianqin Huang, Qibao Liu, Hengling Wei, Hantao Wang, Guoyuan Liu, Lijiao Gu, Shuang Yu
Software Mentions: 5
Published: almost 6 years ago

10.7717/peerj.9644

Microbiome dynamics in the tissue and mucus of acroporid corals differ in relation to host and environmental parameters
Cited by: 26
Author(s): Giulia M. Marchioro, Bettina Glasl, Aschwin H. Engelen, Ester Á. Serrão, David G. Bourne, Nicole S. Webster, Pedro R. Frade
Software Mentions: 5
Published: almost 6 years ago

10.1186/s40168-020-00841-w

Construction of habitat-specific training sets to achieve species-level assignment in 16S rRNA gene datasets
Cited by: 49
Author(s): Isabel F. Escapa, Yanmei Huang, Tsute Chen, Maoxuan Lin, Alexis Kokaras, Floyd E. Dewhirst, Katherine P. Lemon
Software Mentions: 5
Published: about 6 years ago

10.1155/2021/6641838

Analysis of Molecular Mechanism of Erxian Decoction in Treating Osteoporosis Based on Formula Optimization Model
Cited by: 22
Author(s): Lang Yang, Liuyi Fan, Kexin Wang, Yu-peng Chen, Liuqin Liang, Xuemei Qin, Aiping Lü, Peng Cao, Bin Yu, Daogang Guan, Junxiang Peng
Software Mentions: 5
Published: about 5 years ago

10.1186/s12870-021-03151-x

Derived woodiness and annual habit evolved in African umbellifers as alternative solutions for coping with drought
Cited by: 2
Author(s): Kamil E. Frankiewicz, Łukasz Banasiak, Alexei A. Oskolski, A.R. Magee, Mohammad Alsarraf, Paulina Trzeciak, Krzysztof Spalik
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41598-021-86926-4

Assessing the effectiveness of two intervention methods for stony coral tissue loss disease on Montastraea cavernosa
Cited by: 32
Author(s): Erin N. Shilling, Ian R. Combs, Joshua D. Voss
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pgen.1007828

The Integrator complex regulates differential snRNA processing and fate of adult stem cells in the highly regenerative planarian Schmidtea mediterranea
Cited by: 13
Author(s): David Schmidt, Hanna Reuter, Katja Hüttner, Larissa Ruhe, Franziska Rabert, Florian Seebeck, Manuel Irimia, Jordi Solana, Kerstin Bartscherer
Software Mentions: 5
Published: over 7 years ago

10.1186/s12864-018-5271-z

Genomic insights into virulence mechanisms of Leishmania donovani: evidence from an atypical strain
Cited by: 23
Author(s): Sumudu R. Samarasinghe, Nilakshi Samaranayake, Udeshika Kariyawasam, Yamuna Deepani Siriwardana, Hideo Imamura, Nadira D. Karunaweera
Software Mentions: 5
Published: over 7 years ago

10.3389/fnins.2019.00002

A Microglial Signature Directing Human Aging and Neurodegeneration-Related Gene Networks
Cited by: 51
Author(s): Shradha Mukherjee, Christine Klaus, Mihaela Pricop-Jeckstadt, Jeremy A. Miller, Felix L Struebing
Software Mentions: 5
Published: over 7 years ago

10.1155/2021/9998697

Comprehensive Analysis of the Systemic Transcriptomic Alternations and Inflammatory Response during the Occurrence and Progress of COVID-19
Cited by: 12
Author(s): Shaocong Mo, Leijie Dai, Yulin Wang, Biao Song, Zongcheng Yang, Wenchao Gu
Software Mentions: 5
Published: almost 5 years ago

10.1186/s12864-019-5560-1

Transcriptomic analysis of different tissue layers in antler growth Center in Sika Deer (Cervus nippon)
Cited by: 26
Author(s): Hengxing Ba, Datao Wang, Tung On Yau, Ying Shang, Chunyi Li
Software Mentions: 5
Published: over 7 years ago

10.1186/s12864-017-3589-6

Mechanisms of Groucho-mediated repression revealed by genome-wide analysis of Groucho binding and activity
Cited by: 14
Author(s): Michael Chambers, Wiam Turki-Judeh, Min Woo Kim, Kenny Chen, Sean D. Gallaher, Albert J. Courey
Software Mentions: 5
Published: over 9 years ago

10.18632/oncotarget.23423

Signature of survival: a 18F-FDG PET based whole-liver radiomic analysis predicts survival after 90Y-TARE for hepatocellular carcinoma
Cited by: 39
Author(s): Paul Blanc-Durand, Axel Van Der Gucht, Mario Jreige, Marie Nicod Lalonde, Marina Silva-Monteiro, John O. Prior, Alban Denys, Adrien Depeursinge, Niklaus Schaefer
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pntd.0009504

Developmental changes and metabolic reprogramming during establishment of infection and progression of Trypanosoma brucei brucei through its insect host
Cited by: 16
Author(s): Arunasalam Naguleswaran, Paula Fernandes, Shubha Bevkal, Ruth Rehmann, Pamela Nicholson, Isabel Roditi
Software Mentions: 5
Published: almost 5 years ago

10.3389/fgene.2020.591667

Effects of RNA Binding Proteins on the Prognosis and Malignant Progression in Prostate Cancer
Cited by: 13
Author(s): Xiaoliang Hua, Shengdong Ge, Juan Chen, Li Zhang, Sheng Tai, Chaozhao Liang
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-020-00893-y

Antimicrobial drug use in the first decade of life influences saliva microbiota diversity and composition
Cited by: 16
Author(s): Sajan C. Raju, Heli Viljakainen, Rejane Augusta de Oliveira Figueiredo, Pertti J. Neuvonen, Johan G. Eriksson, Elisabete Weiderpass, Trine B. Rounge
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12859-020-3416-y

Pre- and post-sequencing recommendations for functional annotation of human fecal metagenomes
Cited by: 12
Author(s): Michelle L. Treiber, Diana H. Taft, Ian F Korf, David A. Mills, Danielle G. Lemay
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-019-44962-1

The human tubal lavage proteome reveals biological processes that may govern the pathology of hydrosalpinx
Cited by: 8
Author(s): Elizabeth Yohannes, Avedis Kazanjian, Morgan E. Lindsay, Dennis T. Fujii, Nicholas Ieronimakis, Gregory E. Chow, Ronald D. Beesley, Ryan J. Heitmann, Richard O. Burney
Software Mentions: 5
Published: about 7 years ago

10.1186/1471-2105-14-263

Ontology based molecular signatures for immune cell types via gene expression analysis
Cited by: 12
Author(s): Terrence F. Meehan, Nicole Vasilevsky, Christopher J. Mungall, David S. Dougall, Melissa A. Haendel, Judith A. Blake, Alexander D. Diehl
Software Mentions: 5
Published: almost 13 years ago

10.1038/s41598-018-30778-y

Predators Show Seasonal Predilections for Model Clay Spiders in an Urban Environment
Cited by: 9
Author(s): Leanda Denise Mason, Grant Wardell‐Johnson, Sarah Luxton, Philip W. Bateman
Software Mentions: 5
Published: almost 8 years ago

10.1186/s12864-021-07774-0

Chromatin accessibility profiling in Neurospora crassa reveals molecular features associated with accessible and inaccessible chromatin
Cited by: 10
Author(s): Aileen R Ferraro, Abigail J Ameri, Zefu Lu, Masayuki Kamei, Robert J. Schmitz, Zachary A. Lewis
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pone.0213820

Impacts of climate change on high priority fruit fly species in Australia
Cited by: 20
Author(s): Sabira Sultana, John B. Baumgartner, Bernard C. Dominiak, Jane E Royer, Linda J. Beaumont
Software Mentions: 5
Published: over 6 years ago

10.1038/s42003-020-01477-0

Differential longitudinal establishment of human fecal bacterial communities in germ-free porcine and murine models
Cited by: 9
Author(s): Nirosh D. Aluthge, Wesley A Tom, Alison Bartenslager, Thomas E. Burkey, Phillip S. Miller, Kelly D. Heath, Craig Kreikemeier-Bower, Hatem Kittana, Robert Schmaltz, Amanda E. Ramer‐Tait, Samodha C. Fernando
Software Mentions: 5
Published: over 5 years ago

10.3390/insects11100698

Ameliorative Effects of Phytochemical Ingestion on Viral Infection in Honey Bees
Cited by: 9
Author(s): Edward M. Hsieh, May R. Berenbaum, Adam Doležal
Software Mentions: 5
Published: almost 6 years ago

10.3390/ijms21041512

Dynamics of the Transcriptome Response to Heat in the Moss, Physcomitrella patens
Cited by: 11
Author(s): Osama Elzanati, Saïd Mouzeyar, Jane Roche
Software Mentions: 5
Published: over 6 years ago

10.1038/s41598-021-90145-2

An in-depth analysis of the mitochondrial phylogenetic landscape of Cambodia
Cited by: 5
Author(s): Anita Kloss‐Brandstätter, Monika Summerer, David Horst, Basil A. Horst, Gertraud Streiter, Julia Raschenberger, Florian Kronenberg, Torpong Sanguansermsri, Jürgen Horst, Hansi Weißensteiner
Software Mentions: 5
Published: about 5 years ago

10.1098/rspb.2021.0454

Long-term exposure to artificial light at night in the wild decreases survival and growth of a coral reef fish
Cited by: 13
Author(s): Jules Schligler, Daphne Cortese, Ricardo Beldade, Stephen E. Swearer, Suzanne C. Mills
Software Mentions: 5
Published: about 5 years ago

10.12688/f1000research.11830.2

CASAS: Cancer Survival Analysis Suite, a web based application
Cited by: 10
Author(s): Manali Rupji, Xinyan Zhang, Jeanne Kowalski
Software Mentions: 5
Published: almost 9 years ago

10.3389/fcell.2021.628699

A New Zebrafish Model for Pseudoxanthoma Elasticum
Cited by: 2
Author(s): Dávid Czimer, Klaudia Porok, Dániel Csete, Zsolt Gyüre, Viktória Lavró, Krisztina Fülöp, Zelin Chen, Hella Gyergyák, Gábor Tusnády, Shawn M. Burgess, Attila Mócsai, András Váradi, Máté Varga
Software Mentions: 5
Published: over 5 years ago

10.7717/peerj.1258

Humans differ in their personal microbial cloud
Cited by: 196
Author(s): James F. Meadow, Adam E. Altrichter, Ashley Bateman, Jason Stenson, Glen Brown, Jessica L. Green, Brendan J. M. Bohannan
Software Mentions: 5
Published: almost 11 years ago

10.1534/g3.120.401184

Mapping of Adaptive Traits Enabled by a High-Density Linkage Map for Lake Trout
Cited by: 7
Author(s): Seth Smith, Stephen J. Amish, Louis Bernatchez, Jérémy Le Luyer, Chris Wilson, Olivia Boeberitz, Gordon Luikart, Kim T. Scribner
Software Mentions: 5
Published: over 6 years ago

10.1186/s12885-019-6249-1

Comprehensive transcriptomic analyses of tissue, serum, and serum exosomes from hepatocellular carcinoma patients
Cited by: 38
Author(s): Robin Mjelle, Simona Dima, Nicolae Bacalbaşa, Konika Chawla, Andrei Sorop, Dana Cucu, Vlad Herlea, Pål Sætrom, Irinel Popescu
Software Mentions: 5
Published: over 6 years ago

10.1038/srep46332

Windscapes and olfactory foraging in a large carnivore
Cited by: 40
Author(s): Ron R. Togunov, Andrew E. Derocher, Nicholas J. Lunn
Software Mentions: 5
Published: over 9 years ago

10.1371/journal.pbio.3001017

Single-cell RNA-seq analysis of mouse preimplantation embryos by third-generation sequencing
Cited by: 38
Author(s): Xiaoying Fan, Dong Tang, Yuhan Liao, Pidong Li, Yu Zhang, Minxia Wang, Fan Liang, Xiao Wang, Yun Gao, Lu Wen, Depeng Wang, Yan Wang, Fuchou Tang
Software Mentions: 5
Published: over 5 years ago

10.1167/iovs.18-24101

Ascorbate Suppresses VEGF Expression in Retinal Pigment Epithelial Cells
Cited by: 20
Author(s): David W. Sant, Vladimir Camarena, Sushmita Mustafi, Yiwen Li, Zachary Wilkes, Derek Van Booven, Rong Wen, Gaofeng Wang
Software Mentions: 5
Published: almost 8 years ago

10.7717/peerj.3817

Benchmarking viromics: an <i>in silico</i> evaluation of metagenome-enabled estimates of viral community composition and diversity
Cited by: 208
Author(s): Simon Roux, Joanne B. Emerson, Emiley A. Eloe‐Fadrosh, Matthew B. Sullivan
Software Mentions: 5
Published: almost 9 years ago

10.1186/s12885-019-6462-y

Systematical identifications of prognostic meaningful lung adenocarcinoma subtypes and the underlying mutational and expressional characters
Cited by: 6
Author(s): Zhenyang Lv, Ting Lei
Software Mentions: 5
Published: over 6 years ago

10.3389/fmicb.2017.02667

Low Light Availability Alters Root Exudation and Reduces Putative Beneficial Microorganisms in Seagrass Roots
Cited by: 55
Author(s): Belinda C. Martin, Deirdre Gleeson, John Statton, Andre R. Siebers, Pauline F. Grierson, Megan H. Ryan, Gary A. Kendrick
Software Mentions: 5
Published: over 8 years ago

10.3389/fpsyg.2020.00308

A Comparison of IRT Observed Score Kernel Equating and Several Equating Methods
Cited by: 5
Author(s): Shaojie Wang, Minqiang Zhang, Sen You
Software Mentions: 5
Published: over 6 years ago

10.1371/journal.pgen.1007114

ciRS-7 exonic sequence is embedded in a long non-coding RNA locus
Cited by: 62
Author(s): Steven P. Barrett, Kevin R. Parker, Caroline Horn, Miguel A. Mata, Julia Salzman
Software Mentions: 5
Published: over 8 years ago

10.7554/eLife.57683

EHMT2 epigenetically suppresses Wnt signaling and is a potential target in embryonal rhabdomyosarcoma
Cited by: 14
Author(s): Ananya Pal, Jia Yu Leung, Gareth Chin Khye Ang, Vinay Kumar Rao, Luca Pignata, Huey Jin Lim, Maxime Hebrard, Kenneth Tou En Chang, Victor Kwan Min Lee, Ernesto Guccione, Reshma Taneja
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2019.00993

The Water Microbiome Through a Pilot Scale Advanced Treatment Facility for Direct Potable Reuse
Cited by: 33
Author(s): Rose Kantor, Scott Miller, Kara L. Nelson
Software Mentions: 5
Published: about 7 years ago

10.1371/journal.pone.0199999

Detecting cerebrovascular changes in the brain caused by hypertension in atrial fibrillation group using acoustocerebrography
Cited by: 1
Author(s): Wioletta Dobkowska-Chudoń, Mirosław Wrobel, P. Karłowicz, A Dąbrowski, Andrzej Krupienicz, Tomasz Targowski, Andrzej Nowicki, Robert Olszewski
Software Mentions: 5
Published: about 8 years ago

10.1371/journal.pcbi.1008473

A joint modeling approach for longitudinal microbiome data improves ability to detect microbiome associations with disease
Cited by: 7
Author(s): Pamela N. Luna, Jonathan M. Mansbach, Chad A. Shaw
Software Mentions: 5
Published: over 5 years ago

10.1186/s12889-021-10989-1

Health indicators on adolescents reveal disparity and inequality on regional and national levels
Cited by: 3
Author(s): Mengqiao Wang
Software Mentions: 5
Published: about 5 years ago

10.3389/fgene.2021.706854

Crosslink: An R Package for Network Visualization of Grouped Nodes
Cited by: 1
Author(s): Di Liu, Zhijie Bai, Bing Liu, Zongcheng Li
Software Mentions: 5
Published: about 5 years ago

10.1186/s12864-018-4541-0

Genetic mapping and comparative genomics to inform restoration enhancement and culture of southern flounder, Paralichthys lethostigma
Cited by: 8
Author(s): Shannon J. O’Leary, Christopher M. Hollenbeck, Robert R. Vega, John R. Gold, David S. Portnoy
Software Mentions: 5
Published: over 8 years ago

10.1371/journal.pbio.3000877

High-throughput mapping of the phage resistance landscape in E. coli
Cited by: 82
Author(s): Vivek K. Mutalik, Benjamin A. Adler, Harneet S. Rishi, Denish Piya, Crystal Zhong, Britt Koskella, Elizabeth Kutter, Richard Calendar, Pavel S. Novichkov, Morgan N. Price, Adam M. Deutschbauer, Adam P. Arkin
Software Mentions: 5
Published: almost 6 years ago

10.1186/s12885-020-06740-5

In silico analysis of the immune microenvironment in bladder cancer
Cited by: 16
Author(s): Ye Zhang, Dehua Ou, Dong-wu Zhuang, Zefeng Zheng, Mingen Lin
Software Mentions: 5
Published: over 6 years ago

10.1186/s12974-019-1418-3

Correlation of alteration of HLA-F expression and clinical characterization in 593 brain glioma samples
Cited by: 36
Author(s): Enshan Feng, Tingyu Liang, Xiaoyong Wang, Juan Du, Kai Tang, Xiaoxuan Wang, Fang Wang, Guoxiang You
Software Mentions: 5
Published: over 7 years ago

10.3390/nu11112556

Intake of Processed Meat and Association with Sociodemographic and Lifestyle Factors in a Representative Sample of the Swiss Population
Cited by: 6
Author(s): Janice Marie Sych, Ivo Kaelin, Fabienne Gerlach, Anna Wróbel, Thu Le, Rex FitzGerald, Giulia Pestoni, David Faeh, Jean‐Philippe Krieger, Sabine Rohrmann
Software Mentions: 5
Published: over 6 years ago

10.3389/fmolb.2021.716544

GeneTrail: A Framework for the Analysis of High-Throughput Profiles
Cited by: 1
Author(s): Nico Gerstner, Tim Kehl, Kerstin Lenhof, Lea Eckhart, Lara Schneider, Daniel Stöckel, Christina Backes, Eckart Meese, Andreas Keller, Hans‐Peter Lenhof
Software Mentions: 5
Published: almost 5 years ago

10.3389/fmicb.2021.616828

Soil Texture, Sampling Depth and Root Hairs Shape the Structure of ACC Deaminase Bacterial Community Composition in Maize Rhizosphere
Cited by: 19
Author(s): Lucie Gebauer, Marie-Lara Bouffaud, Minh Ganther, Bunlong Yim, Doris Vetterlein, Kornelia Smalla, François Buscot, Anna Heintz‐Buschart, Mika Tarkka
Software Mentions: 5
Published: over 5 years ago

10.1016/j.prevetmed.2021.105395

Multiple model triangulation to identify factors associated with lameness in British sheep flocks
Cited by: 5
Author(s): Kate Lewis, Michael J. Green, Jessica D. Witt, Laura Green
Software Mentions: 5
Published: almost 5 years ago

10.1007/s10126-021-10033-8

Genomic Characterization of the Barnacle Balanus improvisus Reveals Extreme Nucleotide Diversity in Coding Regions
Cited by: 5
Author(s): Magnus Alm Rosenblad, Anna Abramova, Ulrika Lind, Pall I. Olason, Stefania Giacomello, Björn Nystedt, Anders Blomberg
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pbio.3000396

Inverted translational control of eukaryotic gene expression by ribosome collisions
Cited by: 39
Author(s): Heungwon Park, Arvind R. Subramaniam
Software Mentions: 5
Published: almost 7 years ago

10.1186/s12864-020-07027-6

Reconstruction of ancient homeobox gene linkages inferred from a new high-quality assembly of the Hong Kong oyster (Magallana hongkongensis) genome
Cited by: 21
Author(s): Yiqian Li, Wenyan Nong, Tobias Baril, Ho Yin Yip, Thomas Swale, Alexander Hayward, David Ferrier, Jerome H. L. Hui
Software Mentions: 5
Published: almost 6 years ago

10.3389/frai.2020.559617

An Interpretable Predictive Model of Vaccine Utilization for Tanzania
Cited by: 1
Author(s): R. Hariharan, Johnna Sundberg, Giacomo Gallino, Ashley Schmidt, Drew Arenth, Suvrit Sra, Benjamin Fels
Software Mentions: 5
Published: over 5 years ago

10.1042/BSR20194324

Identification of metastasis and prognosis-associated genes for serous ovarian cancer
Cited by: 12
Author(s): Yijun Yang, Suwan Qi, Chun Shi, Xiao Han, Juanpeng Yu, Lei Zhang, Shanshan Qin, Yingming Gao
Software Mentions: 5
Published: about 6 years ago

10.1186/s13073-016-0348-2

Epigenomic and metabolic responses of hypothalamic POMC neurons to gestational nicotine exposure in adult offspring
Cited by: 9
Author(s): José P. Silva, Guerline Lambert, Derek Van Booven, Claes Wahlestedt
Software Mentions: 5
Published: almost 10 years ago

10.1016/j.isci.2021.103021

Salmonella enterica from a soldier from the 1652 siege of Barcelona (Spain) supports historical transatlantic epidemic contacts
Cited by: 2
Author(s): Toni de-Dios, Pablo Carrión, Ïñigo Olalde, Laia Llovera Nadal, Esther Lizano, Dídac Pàmies, Tomàs Marqués-Bonet, François Balloux, Lucy van Dorp, Carles Lalueza‐Fox
Software Mentions: 5
Published: almost 5 years ago

10.1186/s13059-021-02283-5

Megabase-scale methylation phasing using nanopore long reads and NanoMethPhase
Cited by: 24
Author(s): Vahid Akbari, Jean-Michel Garant, Kieran O’Neill, Pawan Pandoh, Richard A. Moore, Marco A. Marra, Martin Hirst, Steven J.M. Jones
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2020.00749

Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact
Cited by: 16
Author(s): Jean de Dieu Habiyaremye, Kezia Goldmann, Thomas Reitz, Sylvie Herrmann, François Buscot
Software Mentions: 5
Published: about 6 years ago

10.1038/s41598-017-14945-1

iDNAProt-ES: Identification of DNA-binding Proteins Using Evolutionary and Structural Features
Cited by: 66
Author(s): Shahana Yasmin Chowdhury, Swakkhar Shatabda, Abdollah Dehzangi
Software Mentions: 5
Published: over 8 years ago

10.1186/s12885-020-07473-1

A gene-based survival score for lung adenocarcinoma by multiple transcriptional datasets analysis
Cited by: 4
Author(s): Yanlu Xiong, Jie Lei, Jinbo Zhao, Qiang Lü, Yangbo Feng, Tianyun Qiao, Shaowei Xin, Han Ye, Tao Jiang
Software Mentions: 5
Published: over 5 years ago

10.1038/s41598-020-80557-x

Gut microbiome is affected by inter-sexual and inter-seasonal variation in diet for thick-billed murres (Uria lomvia)
Cited by: 33
Author(s): Esteban Góngora, Kyle H. Elliott, Lyle G. Whyte
Software Mentions: 5
Published: over 5 years ago

10.1007/s00180-016-0690-2

On the impact of model selection on predictor identification and parameter inference
Cited by: 6
Author(s): Ruth M. Pfeiffer, Andrew Redd, Raymond J. Carroll
Software Mentions: 5
Published: over 9 years ago

10.3389/fcvm.2021.631650

Integrated DNA Methylation and Gene Expression Analysis Identified S100A8 and S100A9 in the Pathogenesis of Obesity
Cited by: 7
Author(s): Ningyuan Chen, Miao Liu, Wei Lin, Donghua Zou, Ling Huang, Jian Huang, Wei Shi, Li-Lin Li, Yu-Xing Luo, Hao Liang, Shang‐Ling Pan, Junhua Peng
Software Mentions: 5
Published: about 5 years ago

10.18632/oncotarget.25350

High expression of nucleoporin 133 mRNA in bone marrow CD138+ cells is a poor prognostic factor in multiple myeloma
Cited by: 4
Author(s): Soushi Ibata, Masayoshi Kobune, Shohei Kikuchi, Masahiro Yoshida, Satoshi Miura, Hyogo Horiguchi, Kazuyuki Murase, Satoshi Iyama, Kohichi Takada, Koji Miyanishi, Junji Kato
Software Mentions: 5
Published: about 8 years ago

10.1177/0748730418813785

LimoRhyde: A Flexible Approach for Differential Analysis of Rhythmic Transcriptome Data
Cited by: 47
Author(s): Jordan M. Singer, Jacob J. Hughey
Software Mentions: 5
Published: over 7 years ago

10.1093/gigascience/giy149

PhenoMeNal: processing and analysis of metabolomics data in the cloud
Cited by: 58
Author(s): Kristian Peters, J. H. Bradbury, Sven Bergmann, Marco Capuccini, Marta Cascante, Pedro de Atauri, Timothy M. D. Ebbels, Carles Foguet, Robert C. Glen, Alejandra González-Beltrán, Ulrich L. Günther, Evangelos Handakas, Thomas Hankemeier, Kenneth Haug, Stephanie Herman, Petr Holub, Massimiliano Izzo, Daniel Jacob, David Johnson, Fabien Jourdan, Namrata Kale, Íbrahím Karaman, Bita Khalili, Payam Emami Khonsari, Kim Kultima, Samuel Lampa, Anders Larsson, Christian Ludwig, Pablo Moreno-Ger, Steffen Neumann, Jon Ander Novella, Claire O’Donovan, Jake T M Pearce, Alina Peluso, Marco Piras, Luca Pireddu, Michelle A.C. Reed, Philippe Rocca-Serra, Pierrick Roger, Antonio Rosato, Rico Rueedi, Christoph Ruttkies, Noureddin Sadawi, Reza M. Salek, Susanna-Assunta Sansone, Vitaly A. Selivanov, Ola Spjuth, Daniel Schober, Etienne Thévenot, Mattia Tomasoni, Merlijn van Rijswijk, Michael Van Vliet, Mark R. Viant, Ralf Weber, Gianluigi Zanetti, Christoph Steinbeck
Software Mentions: 5
Published: over 7 years ago

10.1016/j.cmet.2018.07.005

A Role for p53 in the Adaptation to Glutamine Starvation through the Expression of SLC1A3
Cited by: 144
Author(s): Mylène Tajan, A. Höck, Julianna Blagih, Neil Robertson, Christiaan F. Labuschagne, Flore Kruiswijk, Timothy J. Humpton, Peter D. Adams, Karen H. Vousden
Software Mentions: 5
Published: over 7 years ago

10.1534/g3.120.401622

Alternative Splicing During the <i>Chlamydomonas</i> <i>reinhardtii</i> Cell Cycle
Cited by: 10
Author(s): Manishi Pandey, Gary D. Stormo, Susan K. Dutcher
Software Mentions: 5
Published: almost 6 years ago

10.3390/diagnostics11071299

Predicting Hemodynamic Failure Development in PICU Using Machine Learning Techniques
Cited by: 4
Author(s): Rosanna Irene Comoretto, Danila Azzolina, Angela Amigoni, Giorgia Stoppa, Federica Todino, Andrea Wolfler, Darío Gregori
Software Mentions: 5
Published: almost 5 years ago

10.1186/s12885-020-06922-1

Gene networks and expression quantitative trait loci associated with adjuvant chemotherapy response in high-grade serous ovarian cancer
Cited by: 5
Author(s): Jihoon Choi, Danai G. Topouza, Anastasiya Tarnouskaya, Sean Nesdoly, Madhuri Koti, Qing Duan
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0198452

Large-scale patterns of benthic marine communities in the Brazilian Province
Cited by: 76
Author(s): Anaide W. Aued, Franz Smith, Juan P. Quimbayo, Davi V. Cândido, Guilherme O. Longo, Carlos E. L. Ferreira, Jon D. Witman, Sergio R. Floeter, Bárbara Segal
Software Mentions: 5
Published: about 8 years ago

10.3389/fcell.2021.736540

Characterization of Molecular Heterogeneity Associated With Tumor Microenvironment in Clear Cell Renal Cell Carcinoma to Aid Immunotherapy
Cited by: 9
Author(s): Weimin Zhong, Yinan Li, Yazhou Yuan, Hongbin Zhong, Chaoqun Huang, Jiwei Huang, Yao Lin, Jian Huang
Software Mentions: 5
Published: almost 5 years ago

10.3389/fimmu.2021.639965

Inflammatory Determinants of Differential Tuberculosis Risk in Pre-Adolescent Children and Young Adults
Cited by: 7
Author(s): Richard Baguma, Stanley Kimbung Mbandi, Miguel Rodo, Mzwandile Erasmus, Jonathan Day, Lebohang Makhethe, Marwou de Kock, Michele van Rooyen, Lynnett Stone, Nicole Bilek, Marcia Steyn, Hadn Africa, Fatoumatta Darboe, Novel N. Chegou, Gerard Tromp, Gerhard Walzl, Mark Hatherill, Adam Penn-Nicholson, Thomas J. Scriba
Software Mentions: 5
Published: over 5 years ago

10.3389/fonc.2021.700062

Identification of a Hypoxia-Related Molecular Classification and Hypoxic Tumor Microenvironment Signature for Predicting the Prognosis of Patients with Triple-Negative Breast Cancer
Cited by: 16
Author(s): Xiaoli Sun, Huan Luo, Chen Han, Yu Zhang, Cunli Yan
Software Mentions: 5
Published: almost 5 years ago

10.3389/fmed.2021.674338

Role of Immune Cell-Specific Hypermethylation Signatures in Classification and Risk Stratification of Breast Cancer
Cited by: 0
Author(s): Yong Chen, Fada Xia, Bo Jiang, Wenlong Wang, Xinying Li
Software Mentions: 5
Published: almost 5 years ago

10.3389/fgene.2021.695124

Folate Deficiency Triggers the Abnormal Segregation of a Region With Large Cluster of CG-Rich Trinucleotide Repeats on Human Chromosome 2
Cited by: 1
Author(s): Lorenza Garribba, Ivan Vogel, Mads Lerdrup, Marisa M Gonçalves Dinis, Liqun Ren, Ying Liu
Software Mentions: 5
Published: about 5 years ago