10.1371/journal.pgen.1008805

Genetic analysis of osteoblast activity identifies Zbtb40 as a regulator of osteoblast activity and bone mass
Cited by: 11
Author(s): Madison L. Doolittle, Gina M. Calabrese, Larry D. Mesner, Dana A. Godfrey, Robert Maynard, Cheryl Ackert‐Bicknell, Charles R. Farber
Software Mentions: 4
Published: about 6 years ago

10.3390/s21175804

Non-Destructive Identification of Naturally Aged Alfalfa Seeds via Multispectral Imaging Analysis
Cited by: 8
Author(s): Xuemeng Wang, Han Zhang, Rui Song, Xin He, Peisheng Mao, Shangang Jia
Software Mentions: 4
Published: almost 5 years ago

10.1186/1471-2164-15-763

Transcriptome of Saccharomyces cerevisiae during production of D-xylonate
Cited by: 5
Author(s): Dominik Mojžita, Merja Oja, Eija Rintala, Marilyn G. Wiebe, Merja Penttilä, Laura Ruohonen
Software Mentions: 4
Published: over 12 years ago

10.1371/journal.pone.0057886

Integrative Genome-Wide Gene Expression Profiling of Clear Cell Renal Cell Carcinoma in Czech Republic and in the United States
Cited by: 94
Author(s): Magdalena B. Wozniak, Florence Le Calvez-Kelm, Behnoush Abedi-Ardekani, Graham Byrnes, G. Durand, Christine Carreira, Jocelyne Michelon, Vladimí­r Janout, Ivana Holcátová, Lenka Foretová, A. Brisuda, Fabienne Lesueur, James McKay, Paul Brennan, Ghislaine Scélo
Software Mentions: 4
Published: over 13 years ago

10.1128/mBio.02901-19

Comparative Analyses of Vertebrate Gut Microbiomes Reveal Convergence between Birds and Bats
Cited by: 176
Author(s): Se Jin Song, Jon G. Sanders, Frédéric Delsuc, Jessica L. Metcalf, Katherine R. Amato, Michael W. Taylor, Florent Mazel, Holly L. Lutz, Kevin Winker, Gary R. Graves, Gregory Humphrey, Jack A. Gilbert, Shannon J. Hackett, Kevin P. White, Heather Skeen, Sarah M. Kurtis, Jack J. Withrow, Thomas Braile, Matthew J. Miller, Kevin G. McCracken, James M. Maley, Vanessa O. Ezenwa, Allison Williams, Jessica M. Blanton, Valerie J. McKenzie, Rob Knight
Software Mentions: 4
Published: over 6 years ago

10.7717/peerj.8850

Monitoring the influx of new species through citizen science: the first introduced ant in Denmark
Cited by: 11
Author(s): Julie Koch Sheard, Nathan J. Sanders, Carsten Gundlach, Sämi Schär, Rasmus Stenbak Larsen
Software Mentions: 4
Published: over 6 years ago

10.3390/s130810623

ESB-Based Sensor Web Integration for the Prediction of Electric Power Supply System Vulnerability
Cited by: 6
Author(s): Leonid Stoimenov, Miloš Bogdanović, Sanja Bogdanović-Dinić
Software Mentions: 4
Published: almost 13 years ago

10.1038/s41598-017-03871-x

Analysis of survival and hatching transcriptomes from potato cyst nematodes, Globodera rostochiensis and G. pallida
Cited by: 21
Author(s): Marc‐Olivier Duceppe, Joël Lafond-Lapalme, Juan E. Palomares-Rius, Michaël Sabeh, Vivian C. Blok, Peter Moffett, Benjamin Mimee
Software Mentions: 4
Published: about 9 years ago

10.1186/s12859-019-2800-y

Integrating data and knowledge to identify functional modules of genes: a multilayer approach
Cited by: 10
Author(s): Lifan Liang, Vicky Chen, Kunju Zhu, Xiao-Nan Fan, Xinghua Lu, Songjian Lu
Software Mentions: 4
Published: about 7 years ago

10.1186/s12864-017-3566-0

Exploratory bioinformatics investigation reveals importance of “junk” DNA in early embryo development
Cited by: 51
Author(s): Steven Ge
Software Mentions: 4
Published: over 9 years ago

10.1371/journal.pone.0187129

A cross-sectional study of the temporal evolution of electricity consumption of six commercial buildings
Cited by: 6
Author(s): Ethan Pickering, Mohammad A. Hossain, Jack P. Mousseau, Rachel A. Swanson, Roger H. French, Alexis R. Abramson
Software Mentions: 4
Published: over 8 years ago

10.1186/s12918-018-0582-x

A powerful nonparametric method for detecting differentially co-expressed genes: distance correlation screening and edge-count test
Cited by: 6
Author(s): Qingyang Zhang
Software Mentions: 4
Published: about 8 years ago

10.1093/bioinformatics/btu274

Methods for time series analysis of RNA-seq data with application to human Th17 cell differentiation
Cited by: 64
Author(s): Tarmo Äijö, Vincent Butty, Zhi Chen, Verna Salo, Subhash Tripathi, Christopher B. Burge, Riitta Lahesmaa, Harri Lähdesmäki
Software Mentions: 4
Published: about 12 years ago

10.1371/journal.pone.0164766

RNA-Seq Count Data Modelling by Grey Relational Analysis and Nonparametric Gaussian Process
Cited by: 1
Author(s): Thanh Nguyen, Asim Bhatti, Samuel Yang, Saeid Nahavandi
Software Mentions: 4
Published: almost 10 years ago

10.1186/s40537-021-00492-0

Text Data Augmentation for Deep Learning
Cited by: 667
Author(s): Connor Shorten, Taghi M. Khoshgoftaar, Borko Furht
Software Mentions: 4
Published: about 5 years ago

10.3389/fnins.2021.616760

Tracking Eye Movements During Sleep in Mice
Cited by: 11
Author(s): Qingshu Meng, Xinrong Tan, Chengyong Jiang, Yanyu Xiong, Biao Yan, Jiayi Zhang
Software Mentions: 4
Published: over 5 years ago

10.1186/1471-2164-14-S8-S1

Interdisciplinary dialogue for education, collaboration, and innovation: Intelligent Biology and Medicine in and beyond 2013
Cited by: 49
Author(s): Bing Zhang, Yufei Huang, Jason McDermott, Rebecca H Posey, Hua Xu, Zhongming Zhao
Software Mentions: 4
Published: over 13 years ago

10.1186/1471-2164-15-S6-S18

Comparative exomics of Phalariscultivars under salt stress
Cited by: 12
Author(s): Niina Haiminen, Manfred Klaas, Zeyu Zhou, Filippo Utro, Paul Cormican, Thomas Didion, Christian S. Jensen, Christopher E. Mason, Susanne Barth, Laxmi Parida
Software Mentions: 4
Published: almost 12 years ago

10.3389/fmicb.2021.605095

Improvement of Free Fatty Acid Secretory Productivity in Aspergillus oryzae by Comprehensive Analysis on Time-Series Gene Expression
Cited by: 4
Author(s): Pui Shan Wong, Koichi Tamano, Sachiyo Aburatani
Software Mentions: 4
Published: over 5 years ago

10.1186/1471-2121-14-43

In vitro three-dimensional modeling of fallopian tube secretory epithelial cells
Cited by: 39
Author(s): Kate Lawrenson, Maria Notaridou, Nathan Lee, E. Benjamin, Ian Jacobs, Christopher S. Jones, Simon A. Gayther
Software Mentions: 4
Published: almost 13 years ago

10.18632/oncotarget.9370

Practical aspects of NGS-based pathways analysis for personalized cancer science and medicine
Cited by: 13
Author(s): Ekaterina Kotelnikova, Mikhail A. Pyatnitskiy, A. G. Paleeva, O. S. Kremenetskaya, D. V. Vinogradov
Software Mentions: 4
Published: about 10 years ago

10.1038/s41398-020-00898-z

Multi-domain potential biomarkers for post-traumatic stress disorder (PTSD) severity in recent trauma survivors
Cited by: 29
Author(s): Ziv Ben‐Zion, Yoav Zeevi, Nimrod Jackob Keynan, Roee Admon, Tal Kozlovski, Haggai Sharon, Pinchas Halpern, Israel Liberzon, Arieh Y. Shalev, Yoav Benjamini, Talma Hendler
Software Mentions: 4
Published: about 6 years ago

10.1186/s12966-020-00992-x

Diurnal patterns of sedentary behavior and changes in physical function over time among older women: a prospective cohort study
Cited by: 8
Author(s): Chase Reuter, John Bellettiere, Sandy Liles, Chongzhi Di, Dorothy D. Sears, Michael J. LaMonte, Marcia L. Stefanick, Andrea Z. LaCroix, Loki Natarajan
Software Mentions: 4
Published: about 6 years ago

10.1186/s12864-019-6294-9

Refining modules to determine functionally significant clusters in molecular networks
Cited by: 2
Author(s): Rama Kaalia, Jagath C. Rajapakse
Software Mentions: 4
Published: over 6 years ago

10.3390/ijms20040962

Transcriptional Dynamics of Grain Development in Barley (Hordeum vulgare L.)
Cited by: 29
Author(s): Jianxin Bian, Pingchuan Deng, Haoshuang Zhan, Xiaotong Wu, Mutthanthirige Don Lalith Chandana Nishantha, Zhaogui Yan, Xianghong Du, Xiaojun Nie, Weining Song
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0074165

Spatiotemporal Dynamics and Epistatic Interaction Sites in Dengue Virus Type 1: A Comprehensive Sequence-Based Analysis
Cited by: 12
Author(s): Pei‐Yu Chu, Guan-Ming Ke, Po-Chih Chen, Li‐Teh Liu, Yen-Chun Tsai, Jih‐Jin Tsai
Software Mentions: 4
Published: almost 13 years ago

10.1186/s12986-017-0170-x

High-cholesterol diet does not alter gut microbiota composition in mice
Cited by: 31
Author(s): Lidiya G. Dimova, Nikola Zlatkov, Henkjan J. Verkade, Bernt Eric Uhlin, Uwe J. F. Tietge
Software Mentions: 4
Published: over 9 years ago

10.1155/2021/6057948

Identification and Verification of a 17 Immune-Related Gene Pair Prognostic Signature for Colon Cancer
Cited by: 3
Author(s): Qianshi Zhang, Zhen Feng, Yongnian Zhang, Shasha Shi, Yu Zhang, Shuo Ren
Software Mentions: 4
Published: about 5 years ago

10.1534/g3.119.400934

Sexual Selection Does Not Increase the Rate of Compensatory Adaptation to a Mutation Influencing a Secondary Sexual Trait in<i>Drosophila melanogaster</i>
Cited by: 1
Author(s): Christopher H. Chandler, Anna Mammel, Ian Dworkin
Software Mentions: 4
Published: about 6 years ago

10.1186/s13148-019-0791-1

DNA methylation instability by BRAF-mediated TET silencing and lifestyle-exposure divides colon cancer pathways
Cited by: 21
Author(s): Faiza Noreen, Taya Küng, Luigi Tornillo, Helen L. Parker, Miguel G. Silva, Stefan Weis, Giancarlo Marra, Roland Rad, Kaspar Truninger, Primo Schär
Software Mentions: 4
Published: over 6 years ago

10.3389/fimmu.2021.685992

The Immune Subtypes and Landscape of Gastric Cancer and to Predict Based on the Whole-Slide Images Using Deep Learning
Cited by: 28
Author(s): Yan Chen, Zhiwei Sun, Wanlan Chen, Changyan Liu, Ruoyang Chai, Jingjing Ding, Wen Liu, Xianzhen Feng, Jun Zhou, Xiaoyi Shen, Shan Huang, Zhongqing Xu
Software Mentions: 4
Published: about 5 years ago

10.1016/j.csbj.2017.08.002

Meta-analysis of Liver and Heart Transcriptomic Data for Functional Annotation Transfer in Mammalian Orthologs
Cited by: 4
Author(s): Pía Loren, Tom Michoel, Anagha Joshi, Guillaume Devailly
Software Mentions: 4
Published: over 9 years ago

10.3390/s18114029

Sensor Fusion for Recognition of Activities of Daily Living
Cited by: 51
Author(s): Jiaxuan Wu, Yunfei Feng, Peng Sun
Software Mentions: 4
Published: over 7 years ago

10.1128/mSphere.01044-20

Gut Bacteria Shared by Children and Their Mothers Associate with Developmental Level and Social Deficits in Autism Spectrum Disorder
Cited by: 5
Author(s): Yu Chen, Hui Fang, Chunyan Li, Guojun Wu, Ting Xu, Xin Yang, Liping Zhao, Xiaoyan Ke, Chenhong Zhang
Software Mentions: 4
Published: over 5 years ago

10.1186/s12942-015-0017-5

Diet-related chronic disease in the northeastern United States: a model-based clustering approach
Cited by: 22
Author(s): Abby Flynt, Madeleine I. G. Daepp
Software Mentions: 4
Published: almost 11 years ago

10.1371/journal.pone.0149220

The Effects of Sub-Regional Climate Velocity on the Distribution and Spatial Extent of Marine Species Assemblages
Cited by: 97
Author(s): Kristin M. Kleisner, Michael J. Fogarty, Sally McGee, Analie Barnett, Paula S. Fratantoni, Jennifer K. Greene, Jonathan A. Hare, Sean M. Lucey, Christopher McGuire, Jay Odell, Vincent S. Saba, Lesley Smith, Kristen R. Weaver, Malin L. Pinsky
Software Mentions: 4
Published: over 10 years ago

10.1186/s12859-016-1184-5

Stepwise iterative maximum likelihood clustering approach
Cited by: 12
Author(s): Alok Sharma, Daichi Shigemizu, Keith A. Boroevich, Yosvany López, Yoichiro Kamatani, Michiaki Kubo, Tatsuhiko Tsunoda
Software Mentions: 4
Published: almost 10 years ago

10.1186/1471-2164-9-110

Search for the genes involved in oocyte maturation and early embryo development in the hen
Cited by: 47
Author(s): Sébastien Elis, Florence Batellier, Isabelle Couty, Sandrine Balzergue, Marie‐Laure Martin‐Magniette, Philippe Monget, Élisabeth Blesbois, Marina Govoroun
Software Mentions: 4
Published: over 18 years ago

10.1093/bib/bbv037

Building a virtual ligand screening pipeline using free software: a survey
Cited by: 68
Author(s): Enrico Glaab
Software Mentions: 4
Published: about 11 years ago

10.1371/journal.pntd.0008764

Adults from Kisumu, Kenya have robust γδ T cell responses to Schistosoma mansoni, which are modulated by tuberculosis
Cited by: 0
Author(s): Taryn A. McLaughlin, Jeremiah Khayumbi, Joshua Ongalo, Daniel O. Matete, Joan Tonui, Benson Muchiri, Loren E. Sasser, Angela Campbell, Salim Allana, Samuel Gurrion Ouma, Felix Odhiambo Hayara, Neel R. Gandhi, Cheryl L. Day
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12859-016-1191-6

Protein complex prediction for large protein protein interaction networks with the Core&amp;Peel method
Cited by: 35
Author(s): Marco Pellegrini, Miriam Baglioni, Filippo Geraci
Software Mentions: 4
Published: almost 10 years ago

10.1371/journal.pgen.1003075

A Unified Method for Detecting Secondary Trait Associations with Rare Variants: Application to Sequence Data
Cited by: 6
Author(s): Dajiang Liu, Suzanne M. Leal
Software Mentions: 4
Published: over 13 years ago

10.3390/ijms221910891

A Survey of Autoencoder Algorithms to Pave the Diagnosis of Rare Diseases
Cited by: 6
Author(s): David Pratella, Samira Ait-El-Mkadem Saadi, Sylvie Bannwarth, Véronique Paquis‐Fluckinger, Silvia Bottini
Software Mentions: 4
Published: almost 5 years ago

10.1186/s13059-016-1146-2

Chrom3D: three-dimensional genome modeling from Hi-C and nuclear lamin-genome contacts
Cited by: 148
Author(s): Jonas Paulsen, Monika Sekelja, Anja R. Oldenburg, Alice Barateau, Nolwenn Briand, Erwan Delbarre, Akshay Shah, Anita L. Sørensen, Corinne Vigouroux, Brigitte Buendia, Philippe Collas
Software Mentions: 4
Published: over 9 years ago

10.1002/ecy.3170

Effects of plant functional group removal on CO₂ fluxes and belowground C stocks across contrasting ecosystems
Cited by: 12
Author(s): Roger Grau‐Andrés, David A. Wardle, Michael J. Gundale, Claire Foster, Paul Kardol
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0148818

Meta-Analysis of Tumor Stem-Like Breast Cancer Cells Using Gene Set and Network Analysis
Cited by: 14
Author(s): Wonjun Lee, Sang Cheol Kim, Jong Ho Yoon, Sang Jun Yoon, Jong-Tae Lim, You Sun Kim, Sung Won Kwon, Jeong Hill Park
Software Mentions: 4
Published: over 10 years ago

10.1038/s41598-017-12401-8

Similarity-Based Segmentation of Multi-Dimensional Signals
Cited by: 14
Author(s): Rainer Machné, Douglas B. Murray, Peter F. Stadler
Software Mentions: 4
Published: almost 9 years ago

10.1038/srep11353

Reassortment and distinct evolutionary dynamics of Rift Valley Fever virus genomic segments
Cited by: 17
Author(s): Caio Castro Freire, Atila Iamarino, Peinda O. Ly Soumaré, Ousmane Faye, Amadou Alpha Sall, Paolo M. A. Zanotto
Software Mentions: 4
Published: about 11 years ago

10.1371/journal.pntd.0002636

Molecular Evolution of Zika Virus during Its Emergence in the 20th Century
Cited by: 642
Author(s): Oumar Faye, Caio Castro Freire, Atila Iamarino, Juliana Velasco Castro de Oliveira, Mawlouth Diallo, Paolo Marinho de Andrade Zanotto, Amadou Alpha Sall
Software Mentions: 4
Published: over 12 years ago

10.1371/journal.pone.0082890

SiBIC: A Web Server for Generating Gene Set Networks Based on Biclusters Obtained by Maximal Frequent Itemset Mining
Cited by: 1
Author(s): Keiichiro Takahashi, Ichigaku Takigawa, Hiroshi Mamitsuka
Software Mentions: 4
Published: over 12 years ago

10.1038/s41598-021-84308-4

Elucidating the genetics of grain yield and stress-resilience in bread wheat using a large-scale genome-wide association mapping study with 55,568 lines
Cited by: 11
Author(s): Philomin Juliana, Ravi P. Singh, Jesse Poland, Sandesh Shrestha, Julio Huerta‐Espino, Velu Govindan, Suchismita Mondal, Leonardo Crespo‐Herrera, Uttam Kumar, Arun Kumar Joshi, Thomas Payne, Pradeep Kumar Bhati, Vipin Tomar, Franjel Consolacion, Jaime Amador Campos Serna
Software Mentions: 4
Published: over 5 years ago

10.1111/acel.13366

Clonal hematopoiesis associated with epigenetic aging and clinical outcomes
Cited by: 57
Author(s): Daniel Nachun, Ake T. Lu, Alexander Bick, Pradeep Natarajan, Joshua Weinstock, Mindy D Szeto, Sekar Kathiresan, Gonçalo Abecasis, Kent D. Taylor, Xiuqing Guo, Russ Tracy, Peter Durda, Yongmei Liu, Craig W. Johnson, Stephen S. Rich, David Van Den Berg, Cecilia A. Laurie, Tom Blackwell, George Papanicolaou, Adolfo Correa, Laura M. Raffield, Andrew D. Johnson, Joanne M. Murabito, JoAnn E. Manson, Pinkal Desai, Charles Kooperberg, Themistocles L. Assimes, Daniel Levy, Jerome I. Rotter, Alex P. Reiner, Eric A. Whitsel, James G. Wilson, Steve Horvath, Siddhartha Jaiswal
Software Mentions: 4
Published: about 5 years ago

10.1186/s12915-016-0337-3

Frequency of influenza H3N2 intra-subtype reassortment: attributes and implications of reassortant spread
Cited by: 32
Author(s): Irina Maljkovic Berry, Melanie C. Melendrez, Tao Li, Anthony W. Hawksworth, Gary T. Brice, Patrick J. Blair, Eric S. Halsey, M. C. Williams, Stefan Fernandez, In-Kyu Yoon, Leslie Edwards, Robert A. Kuschner, Xiangui Lin, Stephen J. Thomas, Richard G. Jarman
Software Mentions: 4
Published: over 9 years ago

10.3390/v12040478

Characterization of Potato Virus Y Isolates and Assessment of Nanopore Sequencing to Detect and Genotype Potato Viruses
Cited by: 42
Author(s): Michele Della Bartola, Stephen Byrne, Ewen Mullins
Software Mentions: 4
Published: over 6 years ago

10.1038/s41598-020-69157-x

Improving prediction of rare species’ distribution from community data
Cited by: 13
Author(s): Chongliang Zhang, Yong Chen, Binduo Xu, Ying Xue, Yiping Ren
Software Mentions: 4
Published: about 6 years ago

10.1038/srep18232

Heterogeneity in the spread and control of infectious disease: consequences for the elimination of canine rabies
Cited by: 46
Author(s): Elaine A. Ferguson, Katie Hampson, Sarah Cleaveland, Ramona Consunji, Raffy Deray, John Friar, Daniel T. Haydon, Joji Jimenez, Marlon Pancipane, Sunny E. Townsend
Software Mentions: 4
Published: over 10 years ago

10.1016/j.immuni.2020.06.013

An Integrated Multi-omic Single-Cell Atlas of Human B Cell Identity
Cited by: 129
Author(s): David R. Glass, Albert Tsai, John Paul Oliveria, Felix J. Hartmann, Samuel C. Kimmey, Ariel A. Calderon, Luciene Borges, Marla C. Glass, Lisa E. Wagar, Mark M. Davis, Sean C. Bendall
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.ppat.1009785

Abrupt and altered cell-type specific DNA methylation profiles in blood during acute HIV infection persists despite prompt initiation of ART
Cited by: 9
Author(s): Michael J. Corley, Carlo Sacdalan, Alina P.S. Pang, Nitiya Chomchey, Nisakorn Ratnaratorn, Victor Valcour, Eugène Kroon, Kyu S. Cho, Andrew C. Belden, Donn Colby, Merlin L. Robb, Denise C. Hsu, Serena Spudich, Robert Paul, Sandhya Vasan, Lishomwa C. Ndhlovu, Rv study groups
Software Mentions: 4
Published: almost 5 years ago

10.3389/fmicb.2013.00279

Functional genes to assess nitrogen cycling and aromatic hydrocarbon degradation: primers and processing matter
Cited by: 59
Author(s): C. Ryan Penton, Timothy A. Johnson, John F. Quensen, Shoko Iwai, James R. Cole, James M. Tiedje
Software Mentions: 4
Published: over 13 years ago

10.3390/e22050545

Weighted Quantile Regression Forests for Bimodal Distribution Modeling: A Loss Given Default Case
Cited by: 3
Author(s): Michał Gostkowski, Krzysztof Gajowniczek
Software Mentions: 4
Published: about 6 years ago

10.1186/s13054-017-1729-7

Protein S100 as outcome predictor after out-of-hospital cardiac arrest and targeted temperature management at 33 °C and 36 °C
Cited by: 61
Author(s): Pascal Stammet, Josef Dankiewicz, Niklas Nielsen, François Faÿs, Olivier Collignon, Christian Hassager, Michael Wanscher, Johan Undén, Jørn Wetterslev, Tommaso Pellis, Anders Åneman, Jan Hovdenes, Matt P. Wise, Georges Gilson, David Erlinge, Janneke Horn, Tobias Cronberg, Michael Kuiper, Jesper Kjærgaard, Yvan Gasche, Yvan Devaux, Hans Friberg
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pntd.0007103

Reprogramming of Trypanosoma cruzi metabolism triggered by parasite interaction with the host cell extracellular matrix
Cited by: 23
Author(s): Eliciane Cevolani Mattos, Gisele André Baptista Canuto, Nubia Carolina Manchola, Rubens Daniel Miserani Magalhães, Thomas W. M. Crozier, Douglas J. Lamont, Marina Franco Maggi Tavares, Walter Colli, Michael A. J. Ferguson, Maria Júlia M. Alves
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-020-68693-w

Inhibition of indole production increases the activity of quinolone antibiotics against E. coli persisters
Cited by: 13
Author(s): Ashraf Zarkan, Marta Matuszewska, Stephen Trigg, Meng Zhang, Daaniyah Belgami, Cameron Croft, Junyan Liu, Sawssen El-Ouisi, Jack Greenhalgh, James S. Duboff, Taufiq Rahman, David Summers
Software Mentions: 4
Published: about 6 years ago

10.1016/j.celrep.2019.06.049

Comprehensive Immune Monitoring of Clinical Trials to Advance Human Immunotherapy
Cited by: 81
Author(s): Felix J. Hartmann, Joël Babdor, Pier Federico Gherardini, El-ad David Amir, Kyle Jones, Bita Sahaf, Diana M. Márquez, Peter O. Krutzik, Erika O’Donnell, Natalia Sigal, Holden T. Maecker, Everett Meyer, Matthew H. Spitzer, Sean C. Bendall
Software Mentions: 4
Published: about 7 years ago

10.18632/oncotarget.15068

Genome-scale analysis identifies GJB2 and ERO1LB as prognosis markers in patients with pancreatic cancer
Cited by: 39
Author(s): Tao Zhu, Yuanfeng Gao, Yixin Chen, Zhibin Wang, Ji‐Ye Yin, Xiao‐Yuan Mao, Xi Li, Wei Zhang, Hong‐Hao Zhou, Zhao‐Qian Liu
Software Mentions: 4
Published: over 9 years ago

10.7554/eLife.04235

Polycomb- and REST-associated histone deacetylases are independent pathways toward a mature neuronal phenotype
Cited by: 43
Author(s): James C. McGann, Jon A. Oyer, Saurabh Garg, Huilan Yao, Jun Li, Xin Feng, Lujian Liao, John R. Yates, Gail Mandel
Software Mentions: 4
Published: almost 12 years ago

10.1111/ejh.13647

Impact of age on the cumulative risk of transformation in patients with chronic myelomonocytic leukaemia
Cited by: 8
Author(s): Sigrid Machherndl‐Spandl, Eva Jäger, Agnes Barna, Michael Gurbisz, Renate Marschon, Temeida Graf, Elmir Graf, Christoph Geissler, Gregor Hoermann, Thomas Nösslinger, Michael Pfeilstöcker, Peter Bettelheim, Otto Zach, Ansgar Weltermann, Sonja Heibl, Josef Thaler, Armin Zebisch, Heinz Sill, Reinhard Stauder, Gerald Webersinke, Rajko Kušec, Ernst Ulsperger, Bruno Schneeweiß, Leopold Öhler, Ulrich Germing, Peter Valent, Heinz Tüchler, Klaus Geißler
Software Mentions: 4
Published: about 5 years ago

10.1038/s41598-018-24271-9

Recurrent Neural Networks for Multivariate Time Series with Missing Values
Cited by: 1,110
Author(s): Zhengping Che, Sanjay Purushotham, Kyunghyun Cho, David Sontag, Yanping Liu
Software Mentions: 4
Published: over 8 years ago

10.1080/20002297.2021.1946316

Microbial characteristics across different tongue coating types in a healthy population
Cited by: 5
Author(s): Hairong Chen, Qingwei Li, Min Li, Sheng Liu, Chensi Yao, Zixiong Wang, Zhixin Zhao, Ping Liu, Fan Yang, Xinjian Li, Jun Wang, Yi-Xin Zeng, Xiaolin Tong
Software Mentions: 4
Published: over 5 years ago

10.7554/eLife.29156

Major transcriptional changes observed in the Fulani, an ethnic group less susceptible to malaria
Cited by: 33
Author(s): Jaclyn Quin, Ioana Bujila, Mariama Chérif, Guillaume S. Sanou, Ying Qu, Manijeh Vafa Homann, Anna Rolicka, Sodiomon B. Sirima, Mary A. O’Connell, Andreas Lennartsson, Marita Troye‐Blomberg, Issa Nébié, Ann‐Kristin Östlund Farrants
Software Mentions: 4
Published: almost 9 years ago

10.1371/journal.pone.0103370

Prediction of Treatment Week Eight Response & Sustained Virologic Response in Patients Treated with Boceprevir Plus Peginterferon Alfa and Ribavirin
Cited by: 4
Author(s): Alex Thompson, Scott Devine, Michael W. Kattan, Andrew J. Muir
Software Mentions: 4
Published: almost 12 years ago

10.3389/fonc.2021.732088

Development of a Nomogram for Predicting the Cumulative Incidence of Disease Recurrence of AML After Allo-HSCT
Cited by: 1
Author(s): Tongtong Zhang, Xiebing Bao, Huiying Qiu, Xiaowen Tang, Yue Han, Chengcheng Fu, Aining Sun, Changgeng Ruan, Depei Wu, Suning Chen, Xu Yang
Software Mentions: 4
Published: almost 5 years ago

10.1001/jamanetworkopen.2021.9225

Accounting for the Competing Risk of Death to Predict Kidney Failure in Adults With Stage 4 Chronic Kidney Disease
Cited by: 11
Author(s): Huda Al-Wahsh, Navdeep Tangri, Rob Quinn, Ping Liu, Thomas Ferguson, Marta Fiocco, Ngan N. Lam, Marcello Tonelli, Pietro Ravani
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pone.0209524

Italian norms and naming latencies for 357 high quality color images
Cited by: 10
Author(s): Eduardo Navarrete, Giorgio Arcara, Sara Mondini, Barbara Penolazzi
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pntd.0007766

Enduring extreme climate: Effects of severe drought on Triatoma brasiliensis populations in wild and man-made habitats of the Caatinga
Cited by: 6
Author(s): Antonia C. Ribeiro, Otília Sarquis, Marli Maria Lima, Fernando Abad‐Franch
Software Mentions: 4
Published: almost 7 years ago

10.5812/ircmj.1915

Twenty Years of Experience on Stem Cell Transplantation in Iran
Cited by: 24
Author(s): Ardeshir Ghavamzadeh, Kamran Alimoghaddam, Fatemeh Ghaffari, Roshanak Derakhshandeh, Arash Jalali, M. Jahani
Software Mentions: 4
Published: over 13 years ago

10.1186/s40462-020-00221-x

Foraging movements of breeding Kelp Gulls in South Africa
Cited by: 4
Author(s): Katharina Reusch, Nicolás M. Suárez, Peter G. Ryan, Lorien Pichegru
Software Mentions: 4
Published: almost 6 years ago

10.1093/molbev/msab147

Analysis of Genomic DNA from Medieval Plague Victims Suggests Long-Term Effect of <i>Yersinia pestis</i> on Human Immunity Genes
Cited by: 23
Author(s): Alexander Immel, Felix M. Key, András Szolek, Rodrigo Barquera, Madeline K. Robinson, Genelle F Harrison, William H. Palmer, Maria A. Spyrou, Julian Susat, Ben Krause‐Kyora, Kirsten I. Bos, Stephen Forrest, Diana Iraíz Hernández-Zaragoza, Jürgen Sauter, Ute V. Solloch, Alexander H. Schmidt, Verena J. Schuenemann, Ella Reiter, Madita S. Kairies, R. Weiss, Susanne M. Arnold, Joachim Wahl, Jill A. Hollenbach, Oliver Kohlbacher, Alexander Herbig, Paul J. Norman, Johannes Krause
Software Mentions: 4
Published: about 5 years ago

10.1128/MRA.01195-19

GenePiper, a Graphical User Interface Tool for Microbiome Sequence Data Mining
Cited by: 7
Author(s): W. M. Tong, Yuen-Yan Chan
Software Mentions: 4
Published: over 6 years ago

10.2196/14861

An Internet-Based Psychological Intervention With a Serious Game to Improve Vitality, Psychological and Physical Condition, and Immune Function in Healthy Male Adults: Randomized Controlled Trial
Cited by: 3
Author(s): Lemmy Schakel, Dieuwke S. Veldhuijzen, Henriët van Middendorp, Corine Prins, Anne M H F Drittij, Frank Vrieling, Leo G. Visser, Tom H. M. Ottenhoff, Simone A. Joosten, Andrea Evers
Software Mentions: 4
Published: about 6 years ago

10.7554/eLife.64204

Single-PanIN-seq unveils that ARID1A deficiency promotes pancreatic tumorigenesis by attenuating KRAS-induced senescence
Cited by: 5
Author(s): Shou Liu, Wenjian Cao, Yichi Niu, Jiayi Luo, Yanhua Zhao, Zheng Hu, Chenghang Zong
Software Mentions: 4
Published: about 5 years ago

10.1371/journal.pgen.1009477

Drivers of linkage disequilibrium across a species’ geographic range
Cited by: 10
Author(s): Kay Lucek, Yvonne Willi
Software Mentions: 4
Published: over 5 years ago

10.1186/s12915-020-00775-7

Parkinson’s disease-associated alterations of the gut microbiome predict disease-relevant changes in metabolic functions
Cited by: 114
Author(s): Federico Baldini, Johannes Hertel, Estelle Sandt, Cyrille C. Thinnes, Lorieza Neuberger-Castillo, Lukas Pavelka, Fay Betsou, Rejko Krüger, Ines Thiele
Software Mentions: 4
Published: about 6 years ago

10.1186/s12859-018-2472-z

Automated generation of genome-scale metabolic draft reconstructions based on KEGG
Cited by: 55
Author(s): Emil Karlsen, Christian Schulz, Eivind Almaas
Software Mentions: 4
Published: over 7 years ago

10.3390/ijms22157834

Individual DNA Methylation Pattern Shifts in Nanoparticles-Exposed Workers Analyzed in Four Consecutive Years
Cited by: 6
Author(s): Andrea Rössnerová, K. Hoňková, Irena Chvojková, Daniela Pelclová, Vladimı́r Ždı́mal, Jaroslav A. Hubacek, Lucie Lischková, Štěpánka Vlčková, Jakub Ondráček, Štěpánka Dvořáčková, Jan Topinka, Pavel Rössner
Software Mentions: 4
Published: about 5 years ago

10.1186/s13104-020-05371-0

FINET: Fast Inferring NETwork
Cited by: 9
Author(s): Anyou Wang, Rong Hai
Software Mentions: 4
Published: over 5 years ago

10.3390/ijms22041912

Sensitivity to Cisplatin in Head and Neck Cancer Cells Is Significantly Affected by Patient-Derived Cancer-Associated Fibroblasts
Cited by: 13
Author(s): Barbora Peltanová, Marketa Liskova, Jaromír Gumulec, Martina Raudenská, Hana Polanská, Tomáš Vaculovič, David Kalfeřt, Marek Grega, Jan Plzák, Jan Betka, Michal Masařík
Software Mentions: 4
Published: over 5 years ago

10.3390/ijms21062249

AHR Signaling Dampens Inflammatory Signature in Neonatal Skin γδ T Cells
Cited by: 11
Author(s): Katja Merches, Alfonso Schiavi, Heike Weighardt, Swantje Steinwachs, Nadine Teichweyde, Irmgard Förster, K Hochrath, Beatrix Schumak, Natascia Ventura, Patrick Petzsch, Karl Köhrer, Charlotte Esser
Software Mentions: 4
Published: over 6 years ago

10.1093/hmg/ddab140

Human photoreceptor cells from different macular subregions have distinct transcriptional profiles
Cited by: 15
Author(s): Andrew P. Voigt, Nathaniel K. Mullin, S. Scott Whitmore, Adam P. DeLuca, Erin R Burnight, Xiuying Liu, Budd A. Tucker, Todd E. Scheetz, Edwin M Stone, Robert F. Mullins
Software Mentions: 4
Published: about 5 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

10.1038/s41598-021-81689-4

Polycomb represses a gene network controlling puberty via modulation of histone demethylase Kdm6b expression
Cited by: 19
Author(s): Hollis Wright, Carlos F. Aylwin, Carlos A. Toro, Sergio R. Ojeda, Alejandro Lomniczi
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-020-78364-5

Hdac3 deletion in myeloid progenitor cells enhances bone healing in females and limits osteoclast fusion via Pmepa1
Cited by: 7
Author(s): David H. H. Molstad, Elizabeth L. Zars, Andrew Norton, Kim C. Mansky, Jennifer J. Westendorf, Elizabeth W. Bradley
Software Mentions: 4
Published: over 5 years ago

10.1186/s13040-014-0028-y

Synthetic learning machines
Cited by: 22
Author(s): Hemant Ishwaran, James D. Malley
Software Mentions: 4
Published: over 11 years ago

10.1038/s41598-020-72291-1

SMRT- and Illumina-based RNA-seq analyses unveil the ginsinoside biosynthesis and transcriptomic complexity in Panax notoginseng
Cited by: 9
Author(s): Dan Zhang, Wei Li, Zhongjian Chen, Fang Wei, Yunlong Liu, Li‐Zhi Gao
Software Mentions: 4
Published: almost 6 years ago

10.1038/s41598-020-67432-5

Differential expression of polyamine biosynthetic pathways in skin lesions and in plasma reveals distinct profiles in diffuse cutaneous leishmaniasis
Cited by: 7
Author(s): Hayna Malta‐Santos, Jaqueline França‐Costa, Amanda Ferreira Macedo, Artur T. L. Queiroz, Kiyoshi F. Fukutani, Sandra Márcia Muxel, Ricardo Khouri, Johan Van Weyenbergh, Viviane Boaventura, Aldina Barral, Jackson Maurício Lopes Costa, Eny Iochevet Segal Floh, Bruno B. Andrade, Lucile Maria Floeter‐Winter, Valéria M. Borges
Software Mentions: 4
Published: about 6 years ago

10.3390/ijerph17197277

How the Lagged and Accumulated Effects of Stress, Coping, and Tasks Affect Mood and Fatigue during Nurses’ Shifts
Cited by: 4
Author(s): Fermín Martínez-Zaragoza, Jordi Fernández Castro, Gemma Benavides-Gil, Rosa García-Sierra
Software Mentions: 4
Published: almost 6 years ago

10.7150/ijms.49053

Comprehensive analysis of TPX2-related ceRNA network as prognostic biomarkers in lung adenocarcinoma
Cited by: 6
Author(s): Huo Chen, Meng-Yu Zhang, Rui Li, Xi-Jia Zhou, Liu T, Jianping Li, Xiao Liu, Yi-Qing Qu
Software Mentions: 4
Published: over 6 years ago

10.1186/s12919-016-0057-2

Association of rare haplotypes on ULK4 and MAP4 genes with hypertension
Cited by: 11
Author(s): Ananda S. Datta, Yuan Zhang, Lei Zhang, Swati Biswas
Software Mentions: 4
Published: almost 10 years ago

10.1038/s41598-020-61633-8

MicroRNA hsa-mir-3923 serves as a diagnostic and prognostic biomarker for gastric carcinoma
Cited by: 11
Author(s): Xiaohui Yang, Ze Zhang, Lichao Zhang, Li Zhou
Software Mentions: 4
Published: over 6 years ago

10.1155/2015/573165

Automated Classification of Circulating Tumor Cells and the Impact of Interobsever Variability on Classifier Training and Performance
Cited by: 32
Author(s): Carl-Magnus Svensson, Ron Hübler, Marc Thilo Figge
Software Mentions: 4
Published: over 11 years ago