ISA

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An ISA transcription module


Large sets of data, like expression profile from many samples, require analytic tools to reduce their complexity. The Iterative Signature Algorithm (ISA) was designed to reduce the complexity of very large sets of data by decomposing it into so-called "modules". In the context of gene expression data these modules consist of subsets of genes that exhibit a coherent expression profile only over a subset of microarray experiments. Genes and arrays may be attributed to multiple modules and the level of required coherence can be varied resulting in different "resolutions" of the modular mapping. Since the ISA does not rely on the computation of correlation matrices (like many other tools), it is extremely fast even for very large datasets.

Software for Gene expression data

We developed the eisa GNU R package to facilitate the modular analysis of gene expression data. The package uses standard BioConductor data structures and includes various visualization tools as well.

Requirements, download and installation

To use eisa you will need a working GNU R installation.

As of the 23rd of April, 2010, the eisa package is an official BioConductor package.

eisa depends on a number of other R packages: isa2, Biobase, AnnotationDbi, Category, genefilter, DBI. The good news is that all these dependencies are installed automatically, and all you need to do is to start R and type in 

 source("http://bioconductor.org/biocLite.R")
 biocLite("eisa")

at your R prompt. See the eisa package page at the BioConductor website for details.

Alternatively, you can also download the package from here:

License

The eisa package is licensed under the GNU General Public License, version 2 or later. For details, see http://www.gnu.org/licenses/old-licenses/gpl-2.0.html.

Software for any tabular data

The ISA can be applied to identify coherent substructures (i.e. modules) from any rectangular matrix of data. You can use the isa2 R package for such an analysis.

Requirements

No additional R package is required to install and use isa2. But on Linux and Unix systems you will need a C compiler to install it. E.g. on Ubuntu Linux you will need to install the build-essential package.

Installation

The isa2 package is available from CRAN, the standard R package repository. You can install it on any platform that is supported by GNU R, e.g. Microsoft Windows, Mac OSX and Linux systems. To install it, start R and type in 

 install.packages("isa2")

at the prompt. On Linux and Unix-like systems, you will need a working C compiler for a successful installation.

License

The isa2 package is licensed under the Creative Commons Attribution-Noncommercial-Share Alike 3.0 License. To view a copy of this license, visit http://creativecommons.org/licenses/by-nc-sa/3.0/ or send a letter to Creative Commons, 171 Second Street, Suite 300, San Francisco, California, 94105, USA.

Tutorials

The Iterative Signature Algorithm for Gene Expression Data

Shows the typical steps of modular analysis, from loading you expression data to the visualization of transcription modules.
HTML PDF Rnw R code

ISA and the biclust package

The biclust package implements several biclustering algorithms. It is possible to convert the results of biclust to transcription modules and vice-versa.
HTML PDF Rnw R code

Tissue specific expression with the Iterative Signature Algorithm

HTML PDF Rnw R code

Hierarchical module trees

A module tree is the hierarchical modular organization of a data set.
HTML PDF Rnw R code

The Iterative Signature Algorithm

Tutorial for the analysis of tabular data with the isa2 R package.
HTML PDF Rnw R code

Running ISA in parallel

Shows how to run ISA on a computer cluster or multi-processor machine, using MPI and the Rmpi and snow R packages.
HTML PDF Rnw R code

ISA internals

HTML PDF Rnw R code

Matlab package

You can download it from here. It also includes the implementation of the Ping-pong algorithm Kutalik2008NB. The "testPP.m" file explains how the algorithm is applied to a pair of toy data sets. To test the ISA functionalities, the "testISA.m" needs to be launched.

Papers

Zhou W, Chen Q, Wang Y, Guo A, Wu A, Liu X, Dai J, Meng S, Situ C, Liu Y, Xu KF, Zhu W, Tian X
An electronic medical record retrieval system can be used to identify missed diagnosis in patients with primary ciliary dyskinesia.
J Intern Med: 2024 Nov 23;
[PubMed:39578984] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Huang Y, Li J, Wang D, Ye Z, Wang L, Liu M
Diets supplemented with different solvents extracts of Lepista nuda alters longevity and fecundity, and the expression of related genes in Drosophila melanogaster (Diptera: Drosophilidae).
J Econ Entomol: 2024 Nov 23;
[PubMed:39578891] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Liao C, Xiao H, Li Z, Todo Y
Beyond chronological age: exploring how different future time perspective influences the health tourism intention.
BMC Psychol: 2024 Nov 23, 12(1);689
[PubMed:39578874] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

McCaughey-Chapman A, Burgers AL, Combrinck C, Marriott L, Gordon D, Connor B
Reprogrammed human lateral ganglionic eminence precursors generate striatal neurons and restore motor function in a rat model of Huntington's disease.
Stem Cell Res Ther: 2024 Nov 22, 15(1);448
[PubMed:39578834] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Kyvelidou C, Haselrieder S, von Gierke M, Gostner JM, Biasio W, Wirleitner B, Heufler C, Toth B, Hofer-Tollinger S
Dendritic cells under the control of the preimplantation embryo secretome: an in vitro study.
Reprod Biol Endocrinol: 2024 Nov 23, 22(1);150
[PubMed:39578791] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Jiang B, Song L, Fei X, Zhu J, Zhu L, Li Q, Luo Y
The diagnositic value of dynamic contrast-enhanced ultrasound for evaluation of tissue oxygen status in rat hepatoma model.
BMC Gastroenterol: 2024 Nov 23, 24(1);424
[PubMed:39578733] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Kenntemich C, Büttner CM, Rudert SC
The Pursuit of Approval: Social Media Users' Decreased Posting Latency Following Online Exclusion as a Form of Acknowledgment-Seeking Behavior.
Pers Soc Psychol Bull: 2024 Nov 22;1461672241297824
[PubMed:39578675] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Lee ZJ, Ng SL, Soo E, Abdullah D, Yazid F, Abdul Rahman M, Teh LA
Modified Hank's Balanced Salt Solution as a Storage Medium for Avulsed Teeth: In Vitro Assessment of Periodontal Fibroblast Viability.
Dent Traumatol: 2024 Nov 22;
[PubMed:39578673] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Bell R, Buchner A
Question framing affects accurate-inaccurate discrimination in responses to sharing questions, but not in responses to accuracy questions.
Sci Rep: 2024 Nov 22, 14(1);29005
[PubMed:39578568] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Arno L, Kabus D, Dierckx H
Analysis of complex excitation patterns using Feynman-like diagrams.
Sci Rep: 2024 Nov 22, 14(1);28962
[PubMed:39578507] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Birhanu A, Amare A, Tigabie M, Bitew G, Cherkos T, Getaneh E, Moges F
Asymptomatic nasopharyngeal carriage of multidrug resistant bacteria among children at University of Gondar Hospital Northwest Ethiopia Revealing Hidden Health Risks.
Sci Rep: 2024 Nov 22, 14(1);28994
[PubMed:39578492] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Grant MD, Markowitz DM, Sherman DK, Flores A, Dickert S, Eom K, Jiga-Boy GM, Kogut T, Mayorga M, Oonk D, Pedersen EJ, Pereira B, Rubaltelli E, Slovic P, Västfjäll D, Van Boven L
Ideological diversity of media consumption predicts COVID-19 vaccination.
Sci Rep: 2024 Nov 22, 14(1);28948
[PubMed:39578487] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Han P, Wu L, Yue J, Zhang Y, Jin Y, Jia H, Luo W
An Interstitial Boron Inserted Metastable Hexagonal Rh Nanocrystal for Efficient Hydrogen Oxidation Electrocatalysis.
Angew Chem Int Ed Engl: 2024 Nov 22;e202419320
[PubMed:39578235] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Pitt H, Thomas S, McCarthy S, van Schalkwyk MCI, Petticrew M, Randle M, Daube M
Developing structures to support researchers studying health-harming industries.
Health Promot Int: 2024 Dec 1, 39(6);
[PubMed:39578223] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Takano M, Wada M, Nakajima S, Taniguchi K, Honda S, Mimura Y, Kitahata R, Zomorrodi R, Blumberger DM, Daskalakis ZJ, Uchida H, Mimura M, Noda Y
Optimizing the identification of long-interval intracortical inhibition from the dorsolateral prefrontal cortex.
Clin Neurophysiol: 2024 Nov 16;
[PubMed:39578189] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Holly L
Tackling digital harms: why simply banning children from social media won't protect them.
BMJ: 2024 Nov 22, 387;q2617
[PubMed:39578083] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Nazzal MK, Battina HL, Tewari NP, Mostardo SL, Nagaraj RU, Zhou D, Awosanya OD, Majety SK, Samson S, Blosser RJ, Dadwal UC, Mulcrone PL, Kacena MA
The effects of young and aged, male and female megakaryocyte conditioned media on angiogenic properties of endothelial cells.
Aging (Albany NY): 2024 Nov 22, 16;
[PubMed:39578050] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Sun L, Geng Q, Zheng G
Mediating role of gut microbiota on Baduanjin for cognitive function in community-dwelling older adults with mild cognitive impairment: a study protocol for a cluster randomised controlled trial.
BMJ Open: 2024 Nov 21, 14(11);e087684
[PubMed:39578030] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Aust ACCO, Pinto MEC, Karwowski MSM, Ferreira GA, Pflanzer SB Jr, Macedo REF
Using online projective techniques to understand the consumers' perception of dry-aged beef.
Food Res Int: 2024 Dec, 197(Pt 2);115298
[PubMed:39577946] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Chen Y, Huang M, Fu Y, Gao T, Gan Z, Meng F
Construction of polylactic acid plastisphere microbiota for enhancing nitrate reduction in denitrification biofilters.
Bioresour Technol: 2024 Nov 20;131853
[PubMed:39577778] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Uribe-Pacheco R, Sangrador-Deitos MV, Guinto-Nishimura GY, Villalonga J, Baldoncini M, Segura-Lozano MA, Campero A
Transposition of Megadolichoectatic Basilar Artery in Trigeminal Neuralgia: 3-Dimensional Operative Video.
World Neurosurg: 2024 Nov 20;
[PubMed:39577659] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Du T, Wang Y, Liu S, Ni B, Zhu H
Revision surgery of microvascular decompression for hemifacial spasm: 2-Dimensional operative video.
World Neurosurg: 2024 Nov 20;
[PubMed:39577646] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Garcia-Lopez R, Cervantes-Gonzalez JA, Hernandez-Chavez E, Arevalo-Torres MJ, Chavez-Herrera VR
Multiple Paraclinoid Aneurysms and Basilar Tip Clipped by the Same Orbito-Zygomatic Approach: 2-Dimensional Operative Video.
World Neurosurg: 2024 Nov 20;
[PubMed:39577638] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Atluri S, Zanaty M, Guidotti A, Cline E, Reilly E, Choutka O
Expanded Endoscopic Endonasal Clipping of a Giant Cavernous Carotid Aneurysm.
World Neurosurg: 2024 Nov 20;
[PubMed:39577625] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Kim JH, Dawod Q, Sampath K
Endoscopic 'Step-Up' Myotomy: A Salvage Technique for Full-Thickness Tunnel Entry in End-Stage Achalasia.
J Gastrointest Surg: 2024 Nov 20;101895
[PubMed:39577619] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Hamidi H, Senbabaoglu Y, Beig N, Roels J, Manuel C, Guan X, Koeppen H, Assaf ZJ, Nabet BY, Waddell A, Yuen K, Maund S, Sokol E, Giltnane JM, Schedlbauer A, Fuentes E, Cowan JD, Kadel EE 3rd, Degaonkar V, Andreev-Drakhlin A, Williams P, Carter C, Gupta S, Steinberg E, Loriot Y, Bellmunt J, Grivas P, Rosenberg J, van der Heijden MS, Galsky MD, Powles T, Mariathasan S, Banchereau R
Molecular heterogeneity in urothelial carcinoma and determinants of clinical benefit to PD-L1 blockade.
Cancer Cell: 2024 Nov 16;
[PubMed:39577421] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Abidli A, Ben Rejeb Z, Zaoui A, Naguib HE, Park CB
Comprehensive insights into the application of graphene-based aerogels for metals removal from aqueous media: Surface chemistry, mechanisms, and key features.
Adv Colloid Interface Sci: 2024 Nov 14, 335;103338
[PubMed:39577338] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Wu QL, Liao Y, Brannon GE
Two sides of trust: How cancer survivors' communication with healthcare providers and on social media predicted healthy behaviors during COVID-19.
Patient Educ Couns: 2024 Nov 17, 131;108553
[PubMed:39577306] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Misra S, Abdelgawad N, Wernstedt K, Saaty M, Patel J, Marion J, McCrickard S
Toward a management framework for smart and sustainable resource management: The case of the Appalachian Trail.
J Environ Manage: 2024 Nov 21, 372;123422
[PubMed:39577195] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zhao X, Hu X, Li L, Liu Y, Song B, Li Y, Cao Z, Zhou H, Peng C, Deng Y, Fang Y
Simultaneous visualization of lipid droplets and tracking of the endogenous hypochlorous acid in psoriatic mice models with a novel fluorescent probe in a wash-free fashion.
Bioorg Chem: 2024 Nov 16, 153;107967
[PubMed:39577152] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Tran LV, Bush J, Baig M, Schulz C, Kaur S, Ben Ishai M, Rajak S
MR dacryocystography - Optimising a dynamic imaging protocol for patients with epiphora.
Radiography (Lond): 2024 Nov 21, 31(1);159-165
[PubMed:39577054] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Dong Z, He M, Lin C, Ouyang W, Liu X
Uptake, accumulation and gene response of Sb(Ⅴ) in Arabidopsis thaliana.
Ecotoxicol Environ Saf: 2024 Nov 21, 288;117371
[PubMed:39577051] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Yip YY, Makmor-Bakry M, Chong WW
Elements Influencing User Engagement in Social Media Posts on Lifestyle Risk Factors: Systematic Review.
J Med Internet Res: 2024 Nov 22, 26;e59742
[PubMed:39576982] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Pfender EJ, Kuijpers KL, Wanzer CV, Bleakley A
Cycle Syncing and TikTok's Digital Landscape: A Reasoned Action Elicitation Through a Critical Feminist Lens.
Qual Health Res: 2024 Nov 22;10497323241297683
[PubMed:39576887] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Sun Q, Fu L, Chang X, Xu B
Bridging activity gaps between batch and flow reactor configurations in the electroreduction of carbon dioxide.
Sci Adv: 2024 Nov 22, 10(47);eadp5697
[PubMed:39576866] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Afolabi A, Cheung E, Lyu JC, Ling PM
Short-Form Video Informed Consent Compared With Written Consent for Adolescents and Young Adults: Randomized Experiment.
JMIR Form Res: 2024 Nov 22, 8;e57747
[PubMed:39576682] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Segura-Benítez M, Carbajo-García MC, Quiñonero A, De Los Santos MJ, Pellicer A, Cervelló I, Ferrero H
Endometrial extracellular vesicles regulate processes related to embryo development and implantation in human blastocysts.
Hum Reprod: 2024 Nov 22;
[PubMed:39576620] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Stavropoulos V, Prokofieva M, Zarate D, Colder Carras M, Ratan R, Kowert R, Schivinski B, Burleigh TL, Poulus D, Karimi L, Gorman-Alesi A, Brown T, Gomez R, Hein K, Arachchilage N, Griffiths MD
Machine Learning(s) in gaming disorder through the user-avatar bond: A step towards conceptual and methodological clarity.
J Behav Addict: 2024 Nov 22;
[PubMed:39576295] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Valeo M, Marie S, Rémy M, Menguy T, Le Coz C, Molinari M, Feuillie C, Granier F, Durrieu MC
Bioactive hydrogels based on lysine dendrigrafts as crosslinkers: tailoring elastic properties to influence hMSC osteogenic differentiation.
J Mater Chem B: 2024 Nov 22;
[PubMed:39576239] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zeyrek I, Tabara MF, Çakan M
Exploring the Relationship of Smartphone Addiction on Attention Deficit, Hyperactivity Symptoms, and Sleep Quality Among University Students: A Cross-Sectional Study.
Brain Behav: 2024 Nov, 14(11);e70137
[PubMed:39576227] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Ela A, Peers G, Pinder RJ, Majeed A, Budhathoki SS
Social media interventions for non-communicable diseases: a call for a holistic approach considering eating disorders, mental health and wellbeing.
J R Soc Med: 2024 Nov 22;1410768241290306
[PubMed:39576207] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Yuan J, Yang H, Huang W, Liu S, Zhang H, Zhang X, Peng X
Design strategies and applications of cyanine dyes in phototherapy.
Chem Soc Rev: 2024 Nov 22;
[PubMed:39576179] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Dam LAP, Møller JE, Lou S, Matthiesen SS, Thomsen LCI, Randsbæk F
Impact of short-term locum doctor employments on the transition from medical student to residency.
Dan Med J: 2024 Oct 8, 71(11);
[PubMed:39575941] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

D'Onofrio A, Freytes VM
CO(2) Microbubbles in Silicone Oil (Part II: Henry's Constant and Anomalous Diffusion).
Langmuir: 2024 Nov 22;
[PubMed:39575866] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Wu T, Wang T, Hu Y, Chen J, Su J
Construction of middle-phase microemulsion system and its micro-mechanism on displacing residual oil in low-permeability porous media.
Front Chem: 2024, 12;1465706
[PubMed:39575396] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Hubina A, Darabut AM, Lobko Y, Hnat J, Merna J, Bouzek K
Synthesis and characterization of soluble pyridinium-containing copolyimides.
RSC Adv: 2024 Nov 19, 14(50);37278-37285
[PubMed:39575372] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Diez-Canseco F, Carbonel A, Bernabe-Ortiz A, Olivar N, Gómez-Restrepo C, Toyama M, Uribe-Restrepo JM, Brusco LI, Hidalgo-Padilla L, Ramirez-Meneses D, Carbonetti FL, Ariza-Salazar K, Sureshkumar DS, Fung C, Priebe S
Association between stressful life events and depression, anxiety, and quality of life among urban adolescents and young adults in Latin America.
Front Psychol: 2024, 15;1466378
[PubMed:39575343] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Shammas NW, Shammas WJ, Shammas GA, Jones-Miller S
Intravascular Ultrasound Assessment of Arterial Dissections Following Rotarex Atherectomy: Results of the iDissection Rotarex Study.
J Soc Cardiovasc Angiogr Interv: 2024 Sep, 3(9);102155
[PubMed:39575214] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Elison D, Danek BA, Johnson BV, Chung CJ, Oyetunji S, Mackensen GB, Aldea G, McCabe JM
A Novel Protocol for Contrast-Free Transcatheter Aortic Valve Replacement Evaluation and Implantation.
J Soc Cardiovasc Angiogr Interv: 2024 Sep, 3(9);102237
[PubMed:39575213] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Kresovich A, Norris AH, Carter CC, Kim Y, Kostygina G, Emery SL
Deciphering Influence on Social Media: A Comparative Analysis of Influential Account Detection Metrics in the Context of Tobacco Promotion.
Soc Media Soc: 2024 Jan, 10(1);
[PubMed:39575100] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Pandya D, Banerjee A, Maitra A, Puttanavar R, Datta P, Mukherji I
Prevalence of Oral Potentially Malignant Disorders Among Tobacco Users in Kolkata: A Hospital-Based Study.
Cureus: 2024 Oct, 16(10);e72084
[PubMed:39575055] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Janssen A, Goldwater MB, Hilton CB, Bonner C, Shaw T
The Role of Information Visualisation and Anecdotal Evidence in Medical Students' Clinical Reasoning Process: A Cross-Sectional Survey Study.
J Med Educ Curric Dev: 2024 Jan-Dec, 11;23821205241293491
[PubMed:39574935] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Salih AM, Shwaish TZT, Saleh EM, Alkawaz WHA
Cross-sectional study of predictors of infant nutrition knowledge among new mothers in Iraq.
East Mediterr Health J: 2024 Oct 1, 30(9);641-649
[PubMed:39574382] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Henning MK, Aaløkken TM, Martinsen AC, Pripp AH, Johansen S
Impact of individually tailored contrast medium on vascular attenuation in chest CT: a randomized controlled trial.
Acta Radiol: 2024 Nov 22;2841851241297531
[PubMed:39574330] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Yu J, Xiao J, Guo L, Xie Z, Wang K, Wang Y, Hao F, Ma Y, Zhou J, Lu P, Wang G, Meng X, Zhu Z, Li Q, Ling C, Sun J, Wang Y, Song S, Fan Z
In Situ Phase Transformation-Enabled Metal-Organic Frameworks for Efficient CO(2) Electroreduction to Multicarbon Products in Strong Acidic Media.
ACS Nano: 2024 Nov 22;
[PubMed:39574319] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Han Y, Xu Z
Fostering college students' mental well-being: the impact of social networking site utilization on emotion management and regulation.
BMC Psychol: 2024 Nov 21, 12(1);681
[PubMed:39574196] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Latt PM, Soe NN, King AJ, Lee D, Phillips TR, Xu X, Chow EPF, Fairley CK, Zhang L, Ong JJ
Preferences for attributes of an artificial intelligence-based risk assessment tool for HIV and sexually transmitted infections: a discrete choice experiment.
BMC Public Health: 2024 Nov 21, 24(1);3236
[PubMed:39574048] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Xie P, Zhang Y, Chen R, Lin Z, Lu N
Social media's impact on environmental awareness: a marginal treatment effect analysis of WeChat usage in China.
BMC Public Health: 2024 Nov 21, 24(1);3237
[PubMed:39574041] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Ma X, Sun Y, Guo X, Lai KH, Wang X
Learning First Aid Knowledge Not Only for the Self But Also for Others: Toward a Collective Protection Motivation Theory.
Health Commun: 2024 Nov 21;1-14
[PubMed:39573978] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Pitt H, McCarthy S, Hume E, Arnot G, Thomas S
Australian parents' perceptions of the risks posed by harmful products to the health of children.
Health Promot Int: 2024 Dec 1, 39(6);
[PubMed:39573946] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Pellizzari RA, Wei J, Saba E, Shah S, Greene L, Tran QL, Debbaneh P, Rivero A
The Hidden "Ear-Way": A Cohort Analysis of Otologic Manifestations in Aspirin Exacerbated Respiratory Disease.
Ann Otol Rhinol Laryngol: 2024 Nov 21;34894241297943
[PubMed:39573932] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Christofi E, O'Hanlon M, Curtis R, Barman A, Keen J, Nagy T, Barran P
Hybrid Mass Spectrometry Applied across the Production of Antibody Biotherapeutics.
J Am Soc Mass Spectrom: 2024 Nov 21;
[PubMed:39573914] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Yum S
Online Social Interaction for COVID-19 in Asia.
Disaster Med Public Health Prep: 2024 Nov 22, 18;e286
[PubMed:39573911] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Domínguez-Maqueda M, Pérez-Gómez O, García-Márquez J, Espinosa-Ruíz C, Cuesta A, Esteban MÁ, Alarcón-López FJ, Cárdenas C, Tapia-Paniagua ST, Balebona MC, Moriñigo MÁ
Microalgae and cyanobacteria as microbial substrate and their influence on the potential postbiotic capability of a bacterial probiotic.
Microb Biotechnol: 2024 Nov, 17(11);e70046
[PubMed:39573896] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Shi L, Ming X, Yu H, Ma K, Sun Q, Wang L, Zhao W, Zhang W
Turnkey generation of MIR soliton and NIR second-harmonic microcombs.
Opt Express: 2024 Oct 21, 32(22);39860-39872
[PubMed:39573794] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Tan C, Lei T, Zou M, Liang Y, Liu M
Generation and control of circular Airy solitons in fractional nonlinear optical systems under different modes.
Opt Express: 2024 Oct 21, 32(22);38312-38326
[PubMed:39573677] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Ulsig EZ, Madsen ML, Stanton EJ, Reddy DV, Leger AZ, Sørensen SR, Godoy PH, Degli-Eredi I, Stevens MJ, Hamel DR, Shalm LK, Mirin RP, Volet N
Efficient and widely tunable mid-infrared sources using GaAs and AlGaAs integrated platforms for second-order frequency conversion.
Opt Express: 2024 Oct 7, 32(21);36986-37000
[PubMed:39573574] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Sheppard SJ, Brown PT, Shepherd DP
Model based optimization for refractive index mismatched light sheet imaging.
Opt Express: 2024 Oct 7, 32(21);36563-36576
[PubMed:39573544] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Zeng J, Li W, Zhou Y, Xu F
Single-photon 3D imaging of room-scale scenes through scattering media.
Opt Express: 2024 Nov 4, 32(23);40706-40718
[PubMed:39573404] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Ge Y, Gong D, Xiao W, Chen H
Bilateral Symmetric non-Euclidean multi-frequency invisibility.
Opt Express: 2024 Aug 12, 32(17);30531-30540
[PubMed:39573211] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Li H, Zheng Y, Liu Q, Sun B
Spectral prediction method based on the transformer neural network for high-fidelity color reproduction.
Opt Express: 2024 Aug 12, 32(17);30481-30499
[PubMed:39573208] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Zhang H, Wang L, Xiao Q, Ma J, Zhao Y, Gong M
Wide-field imaging and recognition through cascaded complex scattering media.
Opt Express: 2024 Aug 12, 32(17);29693-29709
[PubMed:39573154] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Alyshev S, Vakhrushev A, Umnikov A, Velmiskin V, Oleinik D, Melkumov M, Semjonov S, Riumkin K, Khegai A, Firstova E, Iskhakova L, Firstov S
Supermode lasing and light amplification in multicore bismuth-doped fiber.
Opt Express: 2024 Aug 12, 32(17);29214-29226
[PubMed:39573117] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Wang M, Zhang D, Liang W, Guo W
Deep learning-based general beam synthesis for atmospheric propagation.
Opt Express: 2024 Aug 12, 32(17);29159-29173
[PubMed:39573113] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Matlis NH, Olgun HT, Rentschler C, Ravi K, Taira T, Ishizuki H, Kärtner FX
Scaling narrowband THz generation to large apertures in LiNbO(3) and KTP.
Opt Express: 2024 Sep 9, 32(19);33875-33893
[PubMed:39573077] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Tan J, Zhang Z, Guo B, Huo Y, Zhao L, Lu H, Li J, Wang S, Ning T, Cao W
Boosting third-order optical nonlinearity in ITO/Au multilayer films via interfacial effects.
Opt Express: 2024 Sep 9, 32(19);33576-33586
[PubMed:39573056] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Cai M, Wu Z, Yan W, Lei J, Xia Y, Tang R
Design terahertz polarizers and vector polarized vortex terahertz wave generators based on the effective dielectric constant of metal gratings.
Opt Express: 2024 Sep 9, 32(19);33357-33368
[PubMed:39573039] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Yuan XQ, Dou K, Li YY
The Longitudinal Association Between Negative Life Events and Problematic Social Media Use Among Chinese College Students: The Mediating Role of FoMO and the Moderating Role of Positive Parenting.
Stress Health: 2024 Nov 21;e3505
[PubMed:39572931] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Mallapaty S
'A place of joy': why scientists are joining the rush to Bluesky.
Nature: 2024 Nov 21;
[PubMed:39572670] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Wei J, Xiao Y, Feng Q, Liu H, Zou K, Li L
The association between fruit and vegetable intake and gastrointestinal cancers risk from Mendelian randomization analysis.
Sci Rep: 2024 Nov 21, 14(1);28860
[PubMed:39572657] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Zhang RJ, Zhao L, Yu LX, Tan FB
Influence of thermal-cycling or staining medium on the surface properties and color stability of conventional, milled, and 3D-printed base materials.
Sci Rep: 2024 Nov 22, 14(1);28928
[PubMed:39572646] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Moatimid GM, Mohamed YM
Novel analytical perspectives on nonlinear instabilities of viscoelastic Bingham fluids in MHD flow fields.
Sci Rep: 2024 Nov 21, 14(1);28843
[PubMed:39572603] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Sennary HA, Abozaid G, Hemeida A, Mikhaylov A, Broderick T
Detection of hate: speech tweets based convolutional neural network and machine learning algorithms.
Sci Rep: 2024 Nov 21, 14(1);28870
[PubMed:39572576] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Nagasawa S, Nishimura T, Yamada A, Kamimura S, Ishimura M, Moritake H
CFAP43 variant in persistent respiratory symptoms after hematopoietic cell transplantation.
Hum Genome Var: 2024 Nov 22, 11(1);41
[PubMed:39572557] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Wang AA, Zhao Z, Ma Y, Cai Y, Zhang R, Shang X, Zhang Y, Qin J, Pong ZK, Marozsák T, Chen B, He H, Luo L, Booth MJ, Elston SJ, Morris SM, He C
Topological protection of optical skyrmions through complex media.
Light Sci Appl: 2024 Nov 22, 13(1);314
[PubMed:39572554] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Tao HY, Morgenstern J, Müller C, Lasurashvili N, Zahnert T, Beleites T, Neudert M
Prospective study of the application of a 3D exoscope system (VITOM 3D) in ear surgery compared to conventional surgical microscopes: part I - analysis of objective parameters.
Eur Arch Otorhinolaryngol: 2024 Nov 22;
[PubMed:39572414] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Arashiro T, Kramer R, Jin J, Kano M, Wang F, Miyairi I
Inpatient Burden of Respiratory Syncytial Virus Infection and Influenza in Children Younger Than 5 Years in Japan, 2011-2022: A Database Study.
Influenza Other Respir Viruses: 2024 Nov, 18(11);e70045
[PubMed:39572401] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Wolfschmidt A, Ott S, Richter S, Schmidt J, Uter W, Drexler H, Finkenzeller T
[Long-/Post-COVID symptoms in a hotspot collective of the first wave of the SARS-CoV-2 pandemic in Germany].
Z Evid Fortbild Qual Gesundhwes: 2024 Nov 20;
[PubMed:39572348] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Jo Y, Puri S, Haaland B, Coletta AM, Chipman JJ, Embrey K, Kerrigan KC, Patel SB, Moynahan K, Gumbleton M, Akerley WL
Augmenting Prognostication: Utilizing Activity Trackers to Enhance Survival Prediction in Metastatic Non-Small Cell Lung Cancer.
Clin Lung Cancer: 2024 Oct 9;
[PubMed:39572323] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zimmerman RM, Obermeyer J, Schlesinger J, Silkes JP
Using and Modifying Standardized Restorative Treatments in Aphasia: Clinician Perspectives.
Am J Speech Lang Pathol: 2024 Nov 21;1-16
[PubMed:39572263] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

De Rubeis G, Alessiani M, Fabiano S, Bertaccini L, Wlderk A, Pezzella FR, Anticoli S, Barber PA, Saba L, Pampana E
Impact on mortality at 90 days of acute kidney injuries in endovascularly treated stroke: A systematic review, meta-analysis, and meta-regression.
Neuroradiol J: 2024 Nov 21;19714009241303134
[PubMed:39572204] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Deninotti J, Le Vigouroux S, Charbonnier E
Illness representations of infertility: a cross-sectional study of women with fertility challenges.
Psychol Health Med: 2024 Nov 21;1-13
[PubMed:39572024] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Çelik P, Yılmaz D, Yüksel F, Akpınar F, Karabağ K, Uzun AK, Mısırlıoğlu ED
Behavioral feeding problems and parenting stress in toddlers with food protein-induced allergic proctocolitis.
Ann Allergy Asthma Immunol: 2024 Nov 19;
[PubMed:39571970] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Li X, Zhang L, Zhang X, Liu J, Shao B
Organophosphorus flame retardants in infant's diets from Beijing, China: Detection and risk assessment.
Chemosphere: 2024 Nov 19;143784
[PubMed:39571944] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

D B, I A, I B, A B, Ja B, A B, B B, Lp B, C P, Gw C, Chong-Neto H, L D, El-Owaidy R, M F, M F, Gonzalez-Barcala FJ, Fogelbach G G, Jc I, E J, K K, F L, B M, S M, M M, D N, P N, S N, C N, Fr R, P S, N S, P S, Cepuc A T, A T, Jc V, R Y, S Z, F B
Triple inhaled therapy in asthma: beliefs, behaviours and doubts.
Pulm Pharmacol Ther: 2024 Nov 19;102333
[PubMed:39571784] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

G C, D Z, F P, L L, S DM, V M, R M
Conditioned media from Dental Pulp Stem Cells to counteract Age-Related Macular Degeneration.
Exp Eye Res: 2024 Nov 19;110167
[PubMed:39571776] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Kavoni H, Savizi ISP, Lewis NE, Shojaosadati SA
Recent advances in culture medium design for enhanced production of monoclonal antibodies in CHO cells: A comparative study of machine learning and systems biology approaches.
Biotechnol Adv: 2024 Nov 19;108480
[PubMed:39571767] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

De Rosa O, Baker FC, Barresi G, Conte F, Ficca G, de Zambotti M
Response to "Exploring the intersection of video gaming, sleep, and mental health in modern adults" by Guilherme Nobre Nogueira.
Sleep Med: 2024 Nov 9, 124;763-764
[PubMed:39571510] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Amiri E
Optimizing Premedication Strategies for Iodinated Contrast Media in CT scans: A Literature Review.
J Med Imaging Radiat Sci: 2024 Nov 20, 56(1);101782
[PubMed:39571411] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zhan W, Liu G, Hu E, Zhang J, Huo L, Zhong H
Cotransport of fullerene nanoparticles and clay colloids in porous media: The relation between aggregation and transport.
J Hazard Mater: 2024 Nov 16, 481;136535
[PubMed:39571360] [WorldCat.org: ISSN ESSN ] [DOI] ( a) 

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Ihmels JH, Bergmann S
Challenges and prospects in the analysis of large-scale gene expression data.
Brief Bioinform: 2004 Dec, 5(4);313-27
[PubMed:15606968] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Ihmels J, Bergmann S, Barkai N
Defining transcription modules using large-scale gene expression data.
Bioinformatics: 2004 Sep 1, 20(13);1993-2003
[PubMed:15044247] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Bergmann S, Ihmels J, Barkai N
Similarities and differences in genome-wide expression data of six organisms.
PLoS Biol: 2004 Jan, 2(1);E9
[PubMed:14737187] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Bergmann S, Ihmels J, Barkai N
Iterative signature algorithm for the analysis of large-scale gene expression data.
Phys Rev E Stat Nonlin Soft Matter Phys: 2003 Mar, 67(3 Pt 1);031902
[PubMed:12689096] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Ihmels J, Friedlander G, Bergmann S, Sarig O, Ziv Y, Barkai N
Revealing modular organization in the yeast transcriptional network.
Nat Genet: 2002 Aug, 31(4);370-7
[PubMed:12134151] [WorldCat.org: ISSN ESSN ] [DOI] ( o)


<biblio>

  1. Kutalik2008NB pmid=18464786 // PDF
  2. Ihmels2004 pmid=15606968 // PDF
  3. Ihmels2004a pmid=15044247 // PDF
  4. Bergmann2004 pmid=14737187 // PDF
  5. Bergmann2003 pmid=12689096 //PDF
  6. Ihmels2002 pmid=12134151 // PDF

</biblio>

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