Projects: pypi: scikit-learn
https://packages.ecosyste.ms/registries/pypi.org/packages/scikit-learn
A set of python modules for machine learning and data mining
72 versions
Latest release: almost 3 years ago
5,918 dependent packages
43,777,417 downloads last month
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Educational Contributors:
a.joly@ulg.ac.be
vanderplas@astro.washington.edu
bh00038@cvplws63.eps.surrey.ac.uk
ha258@cornell.edu
satra@mit.edu
zl2480@columbia.edu
pinto@alum.mit.edu
jz4721@nyu.edu
matteo.visconti.gr@dartmouth.edu
vighneshbirodkar@nyu.edu
robert.l.marchman@dartmouth.edu
rs2715@stern.nyu.edu
claire.savard@colorado.edu
aaaagrawal@iitb.ac.in
ihaque@cs.stanford.edu
rspeer@mit.edu
mluessi@nmr.mgh.harvard.edu
amitibo@tx.technion.ac.il
ericchang2017@u.northwestern.edu
jkarno@seas.upenn.edu
minghui.liu@trincoll.edu
m.lyra@sussex.ac.uk
andrew.knyazev@ucdenver.edu
lamb@cs.stanford.edu
camilo@neurostat.mit.edu
martino.sorbaro@ed.ac.uk
t.sheerman-chase@surrey.ac.uk
cgohlke@uci.edu
batulaa@drexel.edu
kcarnold@alum.mit.edu
apw@seas.harvard.edu
abie@alum.mit.edu
rossbar@berkeley.edu
alceballosa@unal.edu.co
fhoang7@berkeley.edu
hechen@seas.upenn.edu
stefan@sun.ac.za
deepyaman.datta@utexas.edu
rebekah.kim@columbia.edu
shubham.bhardwaj2015@vit.ac.in
slama@berkeley.edu
nisingh@wharton.upenn.edu
kanikas3@vt.edu
jdlabal@stanford.edu
kjells@uw.edu
markus.loning.17@ucl.ac.uk
k_nzw@klis.tsukuba.ac.jp
dkirkby@uci.edu
balawson@bu.edu
c.brummitt@columbia.edu
choo8@illinois.edu
giorgio.patrini@anu.edu.au
shangwuy@andrew.cmu.edu
rafael.possas@sydney.edu.au
olsonran@msu.edu
brian.mcfee@nyu.edu
naj273@nyu.edu
dgrusak@trinity.edu
emd222@cornell.edu
voth0@sewanee.edu
trishnendu.dd2014@cs.iiests.ac.in
apeng@berkeley.edu
boucher@cs.umass.edu
lunt@ctbp.ucsd.edu
bakhbari@mgh.harvard.edu
piraka@brandeis.edu
neal.lathia@cl.cam.ac.uk
razhoshia@post.bgu.ac.il
michal.romaniuk06@ic.ac.uk
m.batchkarov@sussex.ac.uk
lemin@cs.colostate.edu
rudvlf0413@korea.ac.kr
vredev16@msu.edu
raschkas@msu.edu
ali.baharev@univie.ac.at
a.krasoulis@sms.ed.ac.uk
arokem@berkeley.edu
gabrielvr@al.insper.edu.br
eric.sanchez1234@email.bakersfieldcollege.edu
fcchou@stanford.edu
rofuyu@cs.utexas.edu
glemaitre@visor.udg.edu
naoyaiijima@hiroshima-u.ac.jp
ayushgup@iitk.ac.in
joel@vlan-2666-10-17-16-173.staff.wireless.sydney.edu.au
jam7w2@mail.missouri.edu
j.hale09@imperial.ac.uk
tw991@nyu.edu
patel_zeel@iitgn.ac.in
vincent.lostanlen@nyu.edu
stvjc@channing.harvard.edu
ritchieng@u.nus.edu
bansalsi@usc.edu
rbarnes@umn.edu
rrohan@cs.cmu.edu
liutong.zhou@columbia.edu
mdh386@nyu.edu
mlf419@nyu.edu
shreyave@usc.edu
jin.siy@northeastern.edu
samuel_ainsworth@brown.edu
cwijes1@lsu.edu
wadawson@ucdavis.edu
xinyuliu@umich.edu
rz258@cornell.edu
daniel.mallia21@myhunter.cuny.edu
argriffi@ncsu.edu
filipj@umich.edu
kms15@case.edu
sam.dixon@berkeley.edu
khong008@e.ntu.edu.sg
jnelso11@gmu.edu
jclawton@umich.edu
jaehyunahn@sogang.ac.kr
ijpulidos@unal.edu.co
gstupp@scripps.edu
justhube@umich.edu
noamkeidar@campus.technion.ac.il
nityamd@nyu.edu
css459@nyu.edu
alyee@ucsd.edu
andersk@mit.edu
dhanus@mit.edu
coreylevinson@uchicago.edu
cailean.carter@quadram.ac.uk
bral4884@colorado.edu
dschult@colgate.edu
dpwe@ee.columbia.edu
dylan.cashman@tufts.edu
pawelsendyk@berkeley.edu
qzhang90@gatech.edu
mhaberla@calpoly.edu
saketk@student.unimelb.edu.au
eunjikim@dm.snu.ac.kr
erinrhof@uw.edu
ksivaman@purdue.edu
garmstrong@ucsd.edu
konstantin.shmelkov@polytechnique.edu
e175774@ie.u-ryukyu.ac.jp
hermidal@cs.umd.edu
jbearer@hmc.edu
jmarin@csail.mit.edu
Repository Activity:
Repository Owner:
scikit-learn (organization)
Repositories related to the scikit-learn Python machine learning library. Academic
Repositories related to the scikit-learn Python machine learning library. Academic
README Analysis:
Science Score: 100/100
Starting Score: 100 points
Bonuses:
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+2840
Educational commit emails
142 contributors with educational email addresses -
+20
Academic repository owner
Repository owned by academic institution -
+15
Institutional repository owner
Repository owned by research institution -
+6
Science terms in README
3 scientific terms found in README
Penalties:
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PyPI ecosystem
General-purpose ecosystem
Very Likely Science (100)
Papers Mentioning scikit-learn 2,431
10.1016/j.cels.2021.05.005
A time-resolved proteomic and prognostic map of COVID-19Cited by: 106
Author(s): Vadim Demichev, Pinkus Tober‐Lau, Oliver Lemke, Tatiana Nazarenko, Charlotte Thibeault, Harry J. Whitwell, Annika Röhl, Anja Freiwald, Łukasz Szyrwiel, Daniela Ludwig, Clara Correia‐Melo, Simran Kaur Aulakh, Elisa T Helbig, Paula Stubbemann, Lena J Lippert, Nana‐Maria Grüning, Oleg Blyuss, Spyros Vernardis, Matthew White, Christoph B. Messner, Michael Joannidis, Thomas Sonnweber, Sebastian Klein, Alex Pizzini, Yvonne Wohlfarter, Sabina Sahanic, Richard Hilbe, Benedikt Schaefer, Sonja Wagner, Mirja Mittermaier, Felix Machleidt, Carmen García, Christoph Ruwwe‐Glösenkamp, Tilman Lingscheid, Laure Bosquillon de Jarcy, Miriam Stegemann, Moritz Pfeiffer, Linda Jürgens, Sophy Denker, Daniel Zickler, Philipp Enghard, Aleksej Zelezniak, Archie Campbell, Caroline Hayward, David J. Porteous, Riccardo E. Marioni, Alexander Uhrig, Holger Müller-Redetzky, Heinz Zoller, Judith Löffler‐Ragg
Software Mentions: 5
Published: about 5 years ago
10.1371/journal.pcbi.1008856
Convolutional neural networks improve species distribution modelling by capturing the spatial structure of the environmentCited by: 26
Author(s): Benjamin Deneu, Maximilien Servajean, Pierre Bonnet, Christophe Botella, François Munoz, Alexis Joly
Software Mentions: 5
Published: over 5 years ago
10.2196/15293
Detection of Suicidality Among Opioid Users on Reddit: Machine Learning–Based ApproachCited by: 24
Author(s): Hannah Yao, Sina Rashidian, Xinyu Dong, Hongyi Duanmu, Richard N. Rosenthal, Fusheng Wang
Software Mentions: 5
Published: almost 6 years ago
10.1186/s12911-020-01154-6
A predictive analytics model for differentiating between transient ischemic attacks (TIA) and its mimicsCited by: 9
Author(s): Alia Stanciu, Mihai Banciu, Alireza Sadighi, Kyle Marshall, Neil R. Holland, Vida Abedi, Ramin Zand
Software Mentions: 5
Published: over 6 years ago
10.1186/s12974-019-1500-x
Contribution of LTi and TH17 cells to B cell aggregate formation in the central nervous system in a mouse model of multiple sclerosisCited by: 18
Author(s): Verena Schropp, Jörn Rohde, Damiano M. Rovituso, Samir Jabari, Richa Bharti, Stefanie Küerten
Software Mentions: 5
Published: over 7 years ago
10.1371/journal.pcbi.1009345
Learning, visualizing and exploring 16S rRNA structure using an attention-based deep neural networkCited by: 11
Author(s): Zhengqiao Zhao, Stephen Woloszynek, Felix Agbavor, Joshua Chang Mell, Bahrad A. Sokhansanj, Gail Rosen
Software Mentions: 5
Published: about 5 years ago
10.1186/s12859-019-2969-0
Exploring the druggable space around the Fanconi anemia pathway using machine learning and mechanistic modelsCited by: 24
Author(s): Marina Esteban-Medina, María Peña‐Chilet, Carlos Loucera, Joaquı́n Dopazo
Software Mentions: 5
Published: over 7 years ago
10.3390/cancers13184671
Identifying New Potential Biomarkers in Adrenocortical Tumors Based on mRNA Expression Data Using Machine LearningCited by: 9
Author(s): André Marquardt, Laura‐Sophie Landwehr, Cristina L. Ronchi, Guido Di Dalmazi, Anna Riester, Philip Kollmannsberger, Barbara Altieri, Martin Fassnacht, Silviu Sbiera
Software Mentions: 5
Published: about 5 years ago
10.1371/journal.pcbi.1009274
Validation and tuning of in situ transcriptomics image processing workflows with crowdsourced annotationsCited by: 0
Author(s): Jenny M. Vo-Phamhi, Kevin A. Yamauchi, Rafael Gómez-Sjöberg
Software Mentions: 5
Published: about 5 years ago
10.3390/ijms21197281
SPOTONE: Hot Spots on Protein Complexes with Extremely Randomized Trees via Sequence-Only FeaturesCited by: 10
Author(s): António Preto, Irina S. Moreira
Software Mentions: 5
Published: about 6 years ago
10.1371/journal.pcbi.1007794
Scedar: A scalable Python package for single-cell RNA-seq exploratory data analysisCited by: 10
Author(s): Yuanchao Zhang, Man S. Kim, Erin R. Reichenberger, Benjamin Stear, Deanne Taylor
Software Mentions: 5
Published: over 6 years ago
10.7554/eLife.63450
Temporal evolution of single-cell transcriptomes of Drosophila olfactory projection neuronsCited by: 28
Author(s): Qijing Xie, Maria Brbić, Felix Horns, Sai Saroja Kolluru, Robert C. Jones, Jiefu Li, Anay R Reddy, Anthony Xie, Sayeh Kohani, Zhuoran Li, Colleen N. McLaughlin, Tongchao Li, Chuanyun Xu, David Vacek, David J. Luginbuhl, Jure Leskovec, Stephen R. Quake, Liqun Luo, Hongjie Li
Software Mentions: 5
Published: over 5 years ago
10.7554/eLife.63856
Single-cell transcriptomes of developing and adult olfactory receptor neurons in DrosophilaCited by: 60
Author(s): Colleen N. McLaughlin, Maria Brbić, Qijing Xie, Tongchao Li, Felix Horns, Sai Saroja Kolluru, Justus M. Kebschull, David Vacek, Anthony Xie, Jiefu Li, Robert C. Jones, Jure Leskovec, Stephen R. Quake, Liqun Luo, Hongjie Li
Software Mentions: 5
Published: over 5 years ago
10.7554/eLife.66018
Information flow, cell types and stereotypy in a full olfactory connectomeCited by: 82
Author(s): Philipp Schlegel, Alexander Shakeel Bates, Tomke Stürner, Sridhar R. Jagannathan, Nikolas Drummond, Joseph Hsu, Laia Serratosa Capdevila, Alexandre Javier, Elizabeth C. Marin, Asa Barth-Maron, Imaan F M Tamimi, Feng Li, Gerald M. Rubin, Stephen M. Plaza, Marta Costa, Gregory Jefferis
Software Mentions: 5
Published: over 5 years ago
10.1186/s12920-019-0519-2
A systematic analysis of genomics-based modeling approaches for prediction of drug response to cytotoxic chemotherapiesCited by: 7
Author(s): Joshua Mannheimer, Dawn L. Duval, Ashok Prasad, Daniel L. Gustafson
Software Mentions: 5
Published: over 7 years ago
10.1186/s12916-021-01953-2
Deep learning-based six-type classifier for lung cancer and mimics from histopathological whole slide images: a retrospective studyCited by: 50
Author(s): Huan Yang, Lili Chen, Zhiqiang Cheng, Mo Yang, Jianbo Wang, Cheng-Hao Lin, Yuefeng Wang, Leilei Huang, Yangshan Chen, Sui Peng, Zunfu Ke, Weizhong Li
Software Mentions: 5
Published: over 5 years ago
10.1371/journal.pcbi.1009021
MiMeNet: Exploring microbiome-metabolome relationships using neural networksCited by: 33
Author(s): Derek Reiman, Brian T. Layden, Yang Dai
Software Mentions: 5
Published: over 5 years ago
10.7554/eLife.69068
Reconciling functional differences in populations of neurons recorded with two-photon imaging and electrophysiologyCited by: 26
Author(s): Joshua H. Siegle, Peter Ledochowitsch, Xiaoxuan Jia, Daniel Millman, Gabriel Koch Ocker, Shiella Caldejon, Linzy Casal, Andy Cho, Daniel J. Denman, Séverine Durand, Peter A. Groblewski, Gregg Heller, India Kato, Sara Kivikas, Jérôme Lecoq, Chelsea Nayan, Kiet Ngo, Philip R. Nicovich, Kat North, Tamina K Ramirez, Jackie Swapp, Xana Waughman, Ali Williford, Shawn R. Olsen, Christof Koch, Michael A. Buice, Saskia E. J. de Vries
Software Mentions: 5
Published: about 5 years ago
10.1371/journal.pone.0181173
Predicting all-cause risk of 30-day hospital readmission using artificial neural networksCited by: 104
Author(s): Mehdi Jamei, Aleksandr Nisnevich, Everett Wetchler, Sylvia Sudat, Eric Liu
Software Mentions: 5
Published: about 9 years ago
10.1371/journal.pone.0237747
Weighted-persistent-homology-based machine learning for RNA flexibility analysisCited by: 4
Author(s): Chi Seng Pun, Brandon Yung Sin Yong, Kelin Xia
Software Mentions: 5
Published: about 6 years ago
10.1371/journal.pone.0204920
Predicting acute kidney injury at hospital re-entry using high-dimensional electronic health record dataCited by: 8
Author(s): Samuel J. Weisenthal, Caroline M. Quill, Samir A. Farooq, Henry Kautz, Martin S. Zand
Software Mentions: 5
Published: almost 8 years ago
10.1098/rstb.2020.0241
Phylogenetic signal in the vocalizations of vocal learning and vocal non-learning birdsCited by: 10
Author(s): József Arató, W. Tecumseh Fitch
Software Mentions: 5
Published: about 5 years ago
10.3390/ijerph18189912
Assessing Patient-Perceived Hospital Service Quality and Sentiment in Malaysian Public Hospitals Using Machine Learning and Facebook ReviewsCited by: 12
Author(s): Afiq Izzudin A. Rahim, Mohd Ismail Ibrahim, Kamarul Imran Musa, Sook-Ling Chua, Najib Majdi Yaacob
Software Mentions: 5
Published: about 5 years ago
10.2196/24073
A Natural Language Processing–Based Virtual Patient Simulator and Intelligent Tutoring System for the Clinical Diagnostic Process: Simulator Development and Case StudyCited by: 14
Author(s): Raffaello Furlan, Mauro Gatti, Roberto Menè, Dana Shiffer, Chiara Marchiori, Alessandro Giaj Levra, Vincenzo Saturnino, Enrico Brunetta, Franca Dipaola
Software Mentions: 5
Published: over 5 years ago
10.3390/s19030521
A Comparison of Machine Learning and Deep Learning Techniques for Activity Recognition using Mobile DevicesCited by: 37
Author(s): Alejandro Baldominos, Alejandro Cervantes, Yago Sáez, Pedro Isasi
Software Mentions: 5
Published: over 7 years ago
10.7717/peerj.9654
Identification of DNA methylation patterns and biomarkers for clear-cell renal cell carcinoma by multi-omics data analysisCited by: 5
Author(s): Pengfei Liu, Weidong Tian
Software Mentions: 5
Published: about 6 years ago
10.1038/s41598-021-95748-3
Comparison of machine and deep learning for the classification of cervical cancer based on cervicography imagesCited by: 31
Author(s): Ye Rang Park, Young Jae Kim, Woong Ju, Kae Hyun Nam, Soonyung Kim, Kwang Gi Kim
Software Mentions: 5
Published: about 5 years ago
10.1371/journal.pone.0201263
The mRNA cap methyltransferase gene TbCMT1 is not essential in vitro but is a virulence factor in vivo for bloodstream form Trypanosoma bruceiCited by: 2
Author(s): Anna Kelner, Michele Tinti, Maria Lucia S. Güther, Bernardo J. Foth, Lia Chappell, Matthew Berriman, Victoria H. Cowling, Michael A. J. Ferguson
Software Mentions: 5
Published: about 8 years ago
10.7717/peerj.6559
Estimating probabilistic context-free grammars for proteins using contact map constraintsCited by: 7
Author(s): Witold Dyrka, Mateusz Pyzik, F Coste, Hugo Talibart
Software Mentions: 5
Published: over 7 years ago
10.1186/s12885-021-08645-3
Gene-associated methylation status of ST14 as a predictor of survival and hormone receptor positivity in breast CancerCited 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: about 5 years ago
10.7717/peerj.3035
BinSanity: unsupervised clustering of environmental microbial assemblies using coverage and affinity propagationCited by: 132
Author(s): Elaina D. Graham, John F. Heidelberg, Benjamin J. Tully
Software Mentions: 5
Published: over 9 years ago
10.7717/peerj.8871
Data-driven classification of the certainty of scholarly assertionsCited by: 4
Author(s): Mario Prieto, Helena F. Deus, Anita de Waard, Erik Schultes, Beatriz García-Jiménez, Mark D. Wilkinson
Software Mentions: 5
Published: over 6 years ago
10.1371/journal.pone.0144820
CloudForest: A Scalable and Efficient Random Forest Implementation for Biological DataCited by: 2
Author(s): Ryan Bressler, Richard Kreisberg, Brady Bernard, John E. Niederhuber, Joseph G. Vockley, Ilya Shmulevich, Theo Knijnenburg
Software Mentions: 5
Published: almost 11 years ago
10.2196/13822
Detecting Developmental Delay and Autism Through Machine Learning Models Using Home Videos of Bangladeshi Children: Development and Validation StudyCited by: 76
Author(s): Qandeel Tariq, Scott L. Fleming, Jessey Schwartz, Kaitlyn Dunlap, Conor K. Corbin, Peter Washington, Haik Kalantarian, Naila Zaman Khan, Gary L. Darmstadt, Dennis P. Wall
Software Mentions: 5
Published: over 7 years ago
10.2196/15371
Transfer Learning for Risk Classification of Social Media Posts: Model Evaluation StudyCited by: 21
Author(s): Derek Howard, Marta M. Maslej, Justin Lee, Jacob Ritchie, Geoffrey Woollard, Leon French
Software Mentions: 5
Published: over 6 years ago
10.1186/s12911-017-0556-8
Medical subdomain classification of clinical notes using a machine learning-based natural language processing approachCited by: 111
Author(s): Wei-Hung Weng, Kavishwar B. Wagholikar, Alexa T. McCray, Peter Szolovits, Henry C. Chueh
Software Mentions: 5
Published: almost 9 years ago
10.3389/fnut.2020.577923
A Machine Learning Based Dose Prediction of Lutein Supplements for Individuals With Eye FatigueCited by: 4
Author(s): Juntao Kan, Ao Li, Hong Zou, Liang Chen, Jun Du
Software Mentions: 5
Published: almost 6 years ago
10.1371/journal.pone.0246396
High SARS-CoV-2 load in the nasopharynx of patients with a mild form of COVID-19 is associated with clinical deterioration regardless of the hydroxychloroquine administrationCited by: 4
Author(s): Alexey A. Komissarov, Ivan Molodtsov, O. Ivanova, Elena Maryukhnich, Svetlana S. Kudryavtseva, А. И. Мазус, E. L. Nikonov, Elena Vasilieva
Software Mentions: 5
Published: over 5 years ago
10.1186/s12859-020-3425-x
OffsampleAI: artificial intelligence approach to recognize off-sample mass spectrometry imagesCited by: 26
Author(s): Katja Ovchinnikova, Vitaly Kovalev, Lachlan Stuart, Theodore Alexandrov
Software Mentions: 5
Published: over 6 years ago
10.7717/peerj-cs.533
AndroAnalyzer: android malicious software detection based on deep learningCited by: 13
Author(s): Recep Sinan Arslan
Software Mentions: 5
Published: over 5 years ago
10.1371/journal.pone.0215137
Quanfima: An open source Python package for automated fiber analysis of biomaterialsCited by: 14
Author(s): Roman Shkarin, Andrei Shkarin, Svetlana Shkarina, A. Cecilia, Roman A. Surmenev, Venera Weinhardt, Tilo Baumbach, Ralf Mikut
Software Mentions: 5
Published: over 7 years ago
10.3389/fonc.2021.604584
Analysis of Gut Microbiome Using Explainable Machine Learning Predicts Risk of Diarrhea Associated With Tyrosine Kinase Inhibitor Neratinib: A Pilot StudyCited by: 13
Author(s): Chi Wah Wong, Susan E. Yost, Jin Sung Lee, John D. Gillece, Megan Folkerts, Lauren Reining, Sarah K. Highlander, Zahra Eftekhari, Joanne Mortimer, Yuan Yuan
Software Mentions: 5
Published: over 5 years ago
10.3389/fninf.2018.00089
BindsNET: A Machine Learning-Oriented Spiking Neural Networks Library in PythonCited by: 159
Author(s): Hananel Hazan, Daniel J. Saunders, Hassaan F. Khan, Devdhar Patel, Darpan T. Sanghavi, Hava T. Siegelmann, Róbert Kozma
Software Mentions: 5
Published: almost 8 years ago
10.7717/peerj.9235
Bacterial communities associated with cell phones and shoesCited by: 5
Author(s): David A. Coil, Russell Y. Neches, Jenna M. Lang, Guillaume Jospin, Wendy E. Brown, Darlene Cavalier, Jarrad Hampton-Marcell, Jack A. Gilbert, Jonathan A. Eisen
Software Mentions: 5
Published: over 6 years ago
10.1186/1471-2164-15-76
Combinatorial epigenetic patterns as quantitative predictors of chromatin biologyCited by: 16
Author(s): Marcin Cieślik, Stefan Bekiranov
Software Mentions: 5
Published: almost 13 years ago
10.3389/fninf.2017.00025
Pypes: Workflows for Processing Multimodal Neuroimaging DataCited by: 10
Author(s): Alexandre Savio, Michael Schütte, Manuel Graña, Igor Yakushev
Software Mentions: 5
Published: over 9 years ago
10.1186/s12864-020-6661-6
Analysis of heterogeneous genomic samples using image normalization and machine learningCited by: 3
Author(s): Sunitha Basodi, Pelin Icer Baykal, Alexander Zelikovsky, Pavel Skums, Yi Pan
Software Mentions: 5
Published: almost 6 years ago
10.3389/fonc.2020.531476
Application of MRI Radiomics-Based Machine Learning Model to Improve Contralateral BI-RADS 4 Lesion AssessmentCited by: 11
Author(s): Hao Wen, Jing Gong, Shengping Wang, Hui Zhu, Bin Zhao, Weijun Peng
Software Mentions: 5
Published: almost 6 years ago
10.1371/journal.pntd.0004549
Transforming Clinical Data into Actionable Prognosis Models: Machine-Learning Framework and Field-Deployable App to Predict Outcome of Ebola PatientsCited by: 52
Author(s): Andrés Colubri, Thomas Silver, Terrence Fradet, Kalliroi Retzepi, Benjamin N. Fry, Pardis C. Sabeti
Software Mentions: 5
Published: over 10 years ago
10.3389/fninf.2019.00053
A Comparison of Shallow and Deep Learning Methods for Predicting Cognitive Performance of Stroke Patients From MRI Lesion ImagesCited by: 52
Author(s): Sucheta Chauhan, Lovekesh Vig, Michele De Filippo De Grazia, Maurizio Corbetta, Shandar Ahmad, Marco Zorzi
Software Mentions: 5
Published: about 7 years ago
10.3389/fimmu.2018.02059
A Distinct Esophageal mRNA Pattern Identifies Eosinophilic Esophagitis Patients With Food ImpactionsCited by: 8
Author(s): Benjamin F. Sallis, Utkucan Acar, Kelsey Hawthorne, Stephen Babcock, Cynthia Kanagaratham, Jeffrey D. Goldsmith, Rachel Rosen, Jon A. Vanderhoof, Samuel Nurko, Edda Fiebiger
Software Mentions: 5
Published: almost 8 years ago
10.1093/bioinformatics/btv593
Automatic generation of bioinformatics tools for predicting protein–ligand binding sitesCited by: 12
Author(s): Yusuke Komiyama, Masaki Banno, Kokoro Ueki, Gul Saad, Kentaro Shimizu
Software Mentions: 5
Published: almost 11 years ago
10.1371/journal.pcbi.1009316
A probabilistic model for the ultradian timing of REM sleep in miceCited by: 6
Author(s): Sung-Ho Park, Justin Baik, June Seok Hong, Hanna Antila, Benjamin Kurland, Shinjae Chung, Franz Weber
Software Mentions: 5
Published: about 5 years ago
10.3389/fimmu.2019.01716
Enhanced Immunomodulation in Inflammatory Environments Favors Human Cardiac Mesenchymal Stromal-Like Cells for Allogeneic Cell TherapiesCited by: 3
Author(s): Falk Diedrichs, Meaghan Stolk, Karsten Jürchott, Marion Haag, Michael Sittinger, Martina Seifert
Software Mentions: 5
Published: about 7 years ago
10.1371/journal.pone.0235758
Development and validation of risk prediction models for multiple cardiovascular diseases and Type 2 diabetesCited by: 16
Author(s): Mehrdad Rezaee, Igor Putrenko, Arsia Takeh, Andrea Ganna, Erik Ingelsson
Software Mentions: 5
Published: about 6 years ago
10.1186/s40168-021-01056-3
Anna Karenina and the subgingival microbiome associated with periodontitisCited by: 15
Author(s): Khaled Altabtbaei, Pooja Maney, Sukirth M. Ganesan, Shareef M Dabdoub, Haikady N. Nagaraja, Purnima Kumar
Software Mentions: 5
Published: over 5 years ago
10.1186/s12918-018-0547-0
BTNET : boosted tree based gene regulatory network inference algorithm using time-course measurement dataCited by: 30
Author(s): Sungjoon Park, Jung Min Kim, Weon Ho Shin, Sung Won Han, Minji Jeon, Hyun Jin Jang, Ik Soon Jang, Jaewoo Kang
Software Mentions: 5
Published: over 8 years ago
10.1099/mgen.0.000500
Identifying novel β-lactamase substrate activity through in silico prediction of antimicrobial resistanceCited by: 7
Author(s): Kara K. Tsang, Finlay Maguire, Haley L. Zubyk, Sommer Chou, Arman Edalatmand, Gerard D. Wright, Robert G. Beiko, Andrew G. McArthur
Software Mentions: 5
Published: almost 6 years ago
10.1371/journal.pcbi.1005541
High-order epistasis shapes evolutionary trajectoriesCited by: 88
Author(s): Zachary Sailer, Michael J. Harms
Software Mentions: 5
Published: over 9 years ago
10.3389/fgene.2019.01387
Analysis of Single-Cell Gene Pair Coexpression Landscapes by Stochastic Kinetic Modeling Reveals Gene-Pair Interactions in DevelopmentCited by: 7
Author(s): Cameron P. Gallivan, Honglei Ren, Elizabeth L. Read
Software Mentions: 5
Published: over 6 years ago
10.1371/journal.pone.0236827
Extraction of radiographic findings from unstructured thoracoabdominal computed tomography reports using convolutional neural network based natural language processingCited by: 12
Author(s): Mohit Pandey, Zhuoran Xu, Evan Sholle, Gabriel Maliakal, Gurpreet Singh, Zahra Fatima, Daria Larine, Benjamin C. Lee, Jing Wang, Alexander R. van Rosendael, Leslee J. Shaw, James K. Min, Subhi J. Al’Aref
Software Mentions: 5
Published: about 6 years ago
10.1016/j.mex.2020.101208
Optimization methods for the imputation of missing values in Educational Institutions DataCited by: 0
Author(s): Davide Aureli, Renato Bruni, Cinzia Daraio
Software Mentions: 4
Published: almost 6 years ago
10.1371/journal.pcbi.1006520
Molecular characterization of breast and lung tumors by integration of multiple data types with functional sparse-factor analysisCited by: 13
Author(s): Tycho Bismeijer, Sander Canisius, Lodewyk Wessels
Software Mentions: 4
Published: almost 8 years ago
10.3389/fbioe.2020.00959
What Has Been Trending in the Research of Polyhydroxyalkanoates? A Systematic ReviewCited by: 25
Author(s): Maciej Guzik, Tomasz Witko, Alexander Steinbüchel, Magdalena Wojnarowska, Mariusz Sołtysik, Sławomir Wawak
Software Mentions: 4
Published: about 6 years ago
10.1186/s12866-018-1341-2
The murine vaginal microbiota and its perturbation by the human pathogen group B StreptococcusCited by: 46
Author(s): Alison Vrbanac, Angelica M. Riestra, Alison Coady, Rob Knight, Victor Nizet, Kathryn A. Patras
Software Mentions: 4
Published: almost 8 years ago
10.1371/journal.pcbi.1008347
Integrating across neuroimaging modalities boosts prediction accuracy of cognitive abilityCited by: 30
Author(s): Javier Rasero, A. Sentis, Fang‐Cheng Yeh, Timothy Verstynen
Software Mentions: 4
Published: over 5 years ago
10.1186/s12874-020-01046-3
Don’t dismiss logistic regression: the case for sensible extraction of interactions in the era of machine learningCited by: 33
Author(s): Joshua Levy, A. James O’Malley
Software Mentions: 4
Published: over 6 years ago
10.1186/s12859-020-3427-8
Standard machine learning approaches outperform deep representation learning on phenotype prediction from transcriptomics dataCited by: 33
Author(s): Aaron Smith, Jonathan R. Walsh, John M. Long, Craig B. Davis, Peter V. Henstock, Martin R. Hodge, Mateusz Maciejewski, Xinmeng Jasmine Mu, Stephen Ra, Shanrong Zhao, Daniel Ziemek, Charles K. Fisher
Software Mentions: 4
Published: over 6 years ago
10.1523/ENEURO.0378-20.2021
Time Course of Alterations in Adult Spinal Motoneuron Properties in the SOD1(G93A) Mouse Model of ALSCited by: 11
Author(s): Seoan Huh, C. J. Heckman, Marin Manuel
Software Mentions: 4
Published: over 5 years ago
10.1186/s12911-020-01331-7
An interpretable risk prediction model for healthcare with pattern attentionCited by: 6
Author(s): Sundreen Asad Kamal, Changchang Yin, Buyue Qian, Ping Zhang
Software Mentions: 4
Published: almost 6 years ago
10.1186/s12967-020-02319-7
A LASSO-derived risk model for long-term mortality in Chinese patients with acute coronary syndromeCited by: 18
Author(s): Yiming Li, Zhuo-lun Li, Fei Chen, Qi Liu, Yong Peng, Mao Chen
Software Mentions: 4
Published: over 6 years ago
10.1371/journal.pcbi.1008001
Longitudinal wastewater sampling in buildings reveals temporal dynamics of metabolitesCited by: 2
Author(s): Ethan D. Evans, Dai Cl, Siavash Isazadeh, Shinkyu Park, Carlo Ratti, Eric J. Alm
Software Mentions: 4
Published: over 6 years ago
10.1186/s12859-019-3076-y
DeepEP: a deep learning framework for identifying essential proteinsCited by: 36
Author(s): Min Zeng, Min Li, Fang‐Xiang Wu, Yaohang Li, Yi Pan
Software Mentions: 4
Published: almost 7 years ago
10.1186/s12967-020-02400-1
Collapsing the list of myocardial infarction-related differentially expressed genes into a diagnostic signatureCited by: 11
Author(s): German Osmak, Natalia Baulina, Philipp Koshkin, О. О. Фаворова
Software Mentions: 4
Published: over 6 years ago
10.1186/s12859-021-04147-y
Systematic interrogation of mutation groupings reveals divergent downstream expression programs within key cancer genesCited by: 1
Author(s): Michal R. Grzadkowski, Hannah D. Holly, Julia Somers, Emek Demir
Software Mentions: 4
Published: over 5 years ago
10.1186/s40360-018-0282-6
eToxPred: a machine learning-based approach to estimate the toxicity of drug candidatesCited by: 77
Author(s): Limeng Pu, Misagh Naderi, Tairan Liu, Hsiao-Chun Wu, Supratik Mukhopadhyay, Michał Bryliński
Software Mentions: 4
Published: over 7 years ago
10.1186/s12911-018-0679-6
A decision support system to follow up and diagnose primary headache patients using semantically enriched dataCited by: 20
Author(s): Gilles Vandewiele, Femke De Backere, Kiani Lannoye, Maarten Vanden Berghe, Olivier Janssens, Sofie Van Hoecke, Vincent Keereman, Koen Paemeleire, Femke Ongenae, Filip De Turck
Software Mentions: 4
Published: almost 8 years ago
10.18632/oncotarget.27632
Validated limited gene predictor for cervical cancer lymph node metastasesCited by: 1
Author(s): Joshua Bloomstein, Rie von Eyben, Avis Chan, Erinn B. Rankin, Daniel R. Fregoso, Jing Wang-Chiang, Lisa Lee, Li Xie, Shannon MacLaughlan David, Henning Stehr, Mohammad Shahrokh Esfahani, Amato J. Giaccia, Elizabeth A. Kidd
Software Mentions: 4
Published: over 6 years ago
10.1186/s12911-016-0306-3
Temporal bone radiology report classification using open source machine learning and natural langue processing librariesCited by: 15
Author(s): Aaron J. Masino, Robert W. Grundmeier, Jeffrey W. Pennington, John A. Germiller, E. Bryan Crenshaw
Software Mentions: 4
Published: over 10 years ago
10.1186/s12911-019-0805-0
Identifying clinically important COPD sub-types using data-driven approaches in primary care population based electronic health recordsCited by: 54
Author(s): Maria Pikoula, Jennifer K Quint, Francis Nissen, Harry Hemingway, Liam Smeeth, Spiros Denaxas
Software Mentions: 4
Published: over 7 years ago
10.1038/s42003-020-01233-4
A gene prioritization method based on a swine multi-omics knowledgebase and a deep learning modelCited by: 28
Author(s): Yuhua Fu, Jingya Xu, Zhenshuang Tang, Lu Wang, Yin Ding, Yu Fan, Dongdong Zhang, Fei Deng, Yanping Zhang, Haohao Zhang, Haiyan Wang, Wenhui Xing, Lilin Yin, Shilin Zhu, Mengjin Zhu, Mei Yu, Xinyun Li, Xiaolei Liu, Xiaohui Yuan, Zhao Song
Software Mentions: 4
Published: about 6 years ago
10.3389/fcimb.2021.663068
Taxonomic and Functional Dysregulation in Salivary Microbiomes During Oral CarcinogenesisCited by: 7
Author(s): Jiung Wen Chen, Jer Horng Wu, Wei Fan Chiang, Yuh Ling Chen, Wei Wu, Li-Wha Wu
Software Mentions: 4
Published: about 5 years ago
10.1371/journal.pcbi.1007348
Learning unsupervised feature representations for single cell microscopy images with paired cell inpaintingCited by: 64
Author(s): Alex X. Lu, Oren Kraus, Sam Cooper, Alan M. Moses
Software Mentions: 4
Published: about 7 years ago
10.1186/s12859-020-03682-4
NEDD: a network embedding based method for predicting drug-disease associationsCited by: 22
Author(s): Renyi Zhou, Zhangli Lu, Huimin Luo, Xu Ju, Min Zeng, Min Li
Software Mentions: 4
Published: about 6 years ago
10.1371/journal.pcbi.1008219
A simple, scalable approach to building a cross-platform transcriptome atlasCited by: 12
Author(s): Paul W. Angel, Nadia Rajab, Yidi Deng, Chris M. Pacheco, Tyrone Chen, Kim‐Anh Lê Cao, Jarny Choi, Christine A. Wells
Software Mentions: 4
Published: about 6 years ago
10.3390/jpm11080686
JDSNMF: Joint Deep Semi-Non-Negative Matrix Factorization for Learning Integrative Representation of Molecular Signals in Alzheimer’s DiseaseCited by: 5
Author(s): Sehwan Moon, Hyunju Lee
Software Mentions: 4
Published: about 5 years ago
10.1016/j.celrep.2015.12.082
Single-Cell RNA-Sequencing Reveals a Continuous Spectrum of Differentiation in Hematopoietic CellsCited by: 157
Author(s): Iain C. Macaulay, Valentine Svensson, Charlotte Labalette, Lauren Ferreira, Fiona Hamey, Thierry Voet, Sarah A. Teichmann, Ana Cvejic
Software Mentions: 4
Published: over 10 years ago
10.1016/j.cels.2019.11.006
Guiding the Refinement of Biochemical Knowledgebases with Ensembles of Metabolic Networks and Machine LearningCited by: 44
Author(s): Gregory L. Medlock, Jason A. Papin
Software Mentions: 4
Published: almost 7 years ago
10.1186/s12859-018-2029-1
Deep learning of mutation-gene-drug relations from the literatureCited by: 36
Author(s): Kyubum Lee, Byounggun Kim, Yong-Hwa Choi, Sunkyu Kim, Weon Ho Shin, Sunwon Lee, Sungjoon Park, Seongsoon Kim, Aik Choon Tan, Jaewoo Kang
Software Mentions: 4
Published: over 8 years ago
10.1016/j.chom.2018.06.005
Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut MicrobiomeCited by: 714
Author(s): Pamela Ferretti, Edoardo Pasolli, Adrian Tett, Francesco Asnicar, Valentina Gorfer, Sabina Fedi, Federica Armanini, Duy Tin Truong, Serena Manara, Moreno Zolfo, Francesco Beghini, Roberto Bertorelli, Veronica De Sanctis, Ilaria Bariletti, Rosarita Canto, Rosanna Clementi, Marina Cologna, Tiziana Crifò, Giuseppina Cusumano, Stefania Gottardi, Claudia Innamorati, Caterina Masè, Daniela Postai, Daniela Savoi, Sabrina Duranti, Gabriele Andrea Lugli, Leonardo Mancabelli, Francesca Turroni, Chiara Ferrario, Christian Milani, Marta Mangifesta, Rosaria Anzalone, Alice Viappiani, Moran Yassour, Hera Vlamakis, Ramnik J. Xavier, María Carmen Collado, Omry Koren, Saverio Tateo, Massimo Soffiati, Anna Pedrotti, Marco Ventura, Curtis Huttenhower, Peer Bork, Nicola Segata
Software Mentions: 4
Published: over 8 years ago
10.1016/j.celrep.2019.08.077
Modeling Cell-Cell Interactions from Spatial Molecular Data with Spatial Variance Component AnalysisCited by: 129
Author(s): Damien Arnol, Denis Schapiro, Bernd Bodenmiller, Julio Sáez-Rodríguez, Oliver Stegle
Software Mentions: 4
Published: about 7 years ago
10.3390/cancers13163965
Multicenter DSC–MRI-Based Radiomics Predict IDH Mutation in GliomasCited by: 21
Author(s): Georgios C. Manikis, Georgios Ioannidis, Loizos Siakallis, Katerina Nikiforaki, Cassia Michael, Diana Vozlic, Katarina Surlan-Popović, Max Wintermark, Sotirios Bisdas, Kostas Marias
Software Mentions: 4
Published: about 5 years ago
10.3390/cells10092300
Quasar: Easy Machine Learning for BiospectroscopyCited by: 39
Author(s): Marko Toplak, Stuart Read, Christophe Sandt, Ferenc Borondics
Software Mentions: 4
Published: about 5 years ago
10.1371/journal.pcbi.1008377
Active probing to highlight approaching transitions to ictal states in coupled neural mass modelsCited by: 2
Author(s): Vinícius Rezende Carvalho, Márcio Flávio Dutra Moraes, Sydney S. Cash, Eduardo M. A. M. Mendes
Software Mentions: 4
Published: over 5 years ago
10.3390/ijms21239070
A Computational Framework Based on Ensemble Deep Neural Networks for Essential Genes IdentificationCited by: 45
Author(s): Nguyen Quoc Khanh Le, Duyen Thi, Truong Nguyen Khanh Hung, Luu Ho Thanh Lam, Chih-Min Lin, Ngan Thi Kim Nguyen
Software Mentions: 4
Published: almost 6 years ago
10.3390/ijms22063079
A Novel Position-Specific Encoding Algorithm (SeqPose) of Nucleotide Sequences and Its Application for Detecting EnhancersCited by: 7
Author(s): Xuechen Mu, Yueying Wang, Meiyu Duan, Shuai Liu, Fēi Li, Xiuli Wang, Kai Zhang, Lan Huang, Fengfeng Zhou
Software Mentions: 4
Published: over 5 years ago
10.1371/journal.pcbi.1006498
Full-Length Envelope Analyzer (FLEA): A tool for longitudinal analysis of viral ampliconsCited by: 5
Author(s): Kemal Eren, Steven Weaver, Robert Ketteringham, Morné Valentyn, Melissa Smith, Venkatesh Kumar, Sanjay Mohan, Sergei L. Kosakovsky Pond, Ben Murrell
Software Mentions: 4
Published: almost 8 years ago
10.1371/journal.pcbi.1008390
Ten simple rules for writing a paper about scientific softwareCited by: 1
Author(s): Joseph D. Romano, Jason H. Moore
Software Mentions: 4
Published: almost 6 years ago
10.1371/journal.pcbi.1008244
Alcoholic liver disease: A registry view on comorbidities and disease predictionCited by: 10
Author(s): Dhouha Grissa, Ditlev Nytoft Rasmussen, Aleksander Krag, Søren Brunak, Lars Juhl Jensen
Software Mentions: 4
Published: about 6 years ago
10.1186/s12859-017-1751-4
Quantiprot - a Python package for quantitative analysis of protein sequencesCited by: 8
Author(s): Bogumił M. Konopka, Marta Anna Marciniak, Witold Dyrka
Software Mentions: 4
Published: about 9 years ago