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

Altinger G, Sharma S, Maher CG, Cullen L, McCaffery K, Linder JA, Buchbinder R, Harris IA, Coiera E, Li Q, Howard K, Coggins A, Middleton PM, Gunja N, Ferguson I, Chan T, Tambree K, Varshney A, Traeger AC, NUDG-ED Study Group
Behavioural 'nudging' interventions to reduce low-value care for low back pain in the emergency department (NUDG-ED): protocol for a 2×2 factorial, before-after, cluster randomised trial.
BMJ Open: 2024 Mar 28, 14(3);e079870
[PubMed:38548366] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Struys I, Velázquez C, Devriendt K, Godderis L, Segers H, Thienpont B, van Boxtel R, Van Calsteren K, Voet T, Wolters V, Lenaerts L, Amant F
Evaluating offspring Genomic and Epigenomic alterations after prenatal exposure to Cancer treatment In Pregnancy (GE-CIP): a multicentric observational study.
BMJ Open: 2024 Mar 28, 14(3);e081833
[PubMed:38548357] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Gupta C, Malhotra I
Encoding material female bodies through cosmetic surgeries: a study of cultural economy and the biometric dynamics of Indian Hindi film stars.
Med Humanit: 2024 Mar 28;
[PubMed:38548326] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Greenhalgh T
Dark days for the Royal College of Physicians of London.
BMJ: 2024 Mar 28, 384;q771
[PubMed:38548289] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Wonderling D, Mariani A, Samarasekera EJ, Wilkinson C, Patel RS, Mills J, Guideline Committee
Secondary prevention of cardiovascular disease, including cholesterol targets: summary of updated NICE guidance.
BMJ: 2024 Mar 28, 384;q637
[PubMed:38548279] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Ngo HV, Thanh Le TT, Vu HN, Hoang H, Ikenaga H, Sato-Matsubara M, Uchida-Kobayashi S, Urushima H, Nguyen KV, Nguyen HT, Shinkawa H, Kubo S, Ohtani N, Enomoto M, Tamori A, Kawada N
Poorly Differentiated Hepatocellular Carcinoma Cells Avoid Apoptosis by Interacting with T Cells via CD40-CD40L Linkage.
Am J Pathol: 2024 Mar 26;
[PubMed:38548267] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Sheikh MAA, Butt MQS, Afroz A, Rasul F, Irfan M, Khattak MS, Zeeshan N
Approach towards sustainable leather: Characterization and effective industrial application of proteases from Bacillus sps. for ecofriendly dehairing of leather hide.
Int J Biol Macromol: 2024 Mar 26;131154
[PubMed:38547938] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Sasi Rekha V, Sankar K, Rajaram S, Karuppiah P, Dawoud TMS, Syed A, Elgorban AM
Unveiling the impact of additives on structural integrity, thermal and color stability of C-phycocyanin - Agar hydrocolloid.
Food Chem: 2024 Mar 16, 448;139000
[PubMed:38547706] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Heck KL, Si L, Jung DJ, Calderón AI
Application of eco-friendly natural deep eutectic solvents (NADES) in HPLC for separation of complex natural products: Current limitations and future directions.
J Pharm Biomed Anal: 2024 Mar 19, 244;116102
[PubMed:38547649] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Vaseur RME, Te Braake E, Beinema T, d'Hollosy WON, Tabak M
Technology-supported shared decision-making in chronic conditions: A systematic review of randomized controlled trials.
Patient Educ Couns: 2024 Mar 21, 124;108267
[PubMed:38547638] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zhang X, Chen L, Liu Y, Li J, Wang M, Cui H, Chen Z, Veer Singh C, Liu K
Construction of heterogeneous interfaces for water activation and dissociation to synergistically boost overall water splitting.
J Colloid Interface Sci: 2024 Mar 24, 665;518-525
[PubMed:38547633] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Gaesser AM, Usimaki AIJ, Barot DA, Linardi RL, Molugu S, Musante L, Ortved KF
Equine mesenchymal stem cell-derived extracellular vesicle productivity but not overall yield is improved via 3-D culture with chemically defined media.
J Am Vet Med Assoc: 2024 Apr 1;1-12
[PubMed:38547591] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Koch DW, Froneberger A, Berglund A, Connard S, Souther A, Schnabel LV
IL-1β + TGF-β2 dual-licensed mesenchymal stem cells have reduced major histocompatibility class I expression and positively modulate tenocyte migration, metabolism, and gene expression.
J Am Vet Med Assoc: 2024 Apr 1;1-12
[PubMed:38547589] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Sardar G, Biswas A, Singh S, Kabra D
Study of Intrachain Charge Transfer in a Blue Emissive Polyfluorene Random Copolymer.
J Phys Chem B: 2024 Mar 28;
[PubMed:38547519] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Chen F, Zou G, Wu Y, Ou-Yang L
Clustering single-cell multi-omics data via graph regularized multi-view ensemble learning.
Bioinformatics: 2024 Mar 28;
[PubMed:38547401] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Udo S, Ogbu PS, Tsaku PA, Tukur A, NewMarch A
An evaluation of mental health integration in the neglected tropical diseases program in Zamfara, North-west Nigeria.
Int Health: 2024 Mar 28, 16(Supplement_1);i52-i59
[PubMed:38547351] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Jiao Y, Zhao H, Lu L, Zhao X, Wang Y, Zheng B
Transcriptome-wide analysis of the differences between MCF7 cells cultured in DMEM or αMEM.
PLoS One: 2024, 19(3);e0298262
[PubMed:38547234] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Boyd AT, Rocconi LM, Morrow JA
Construct validation and measurement invariance of the Parasocial Relationships in Social Media survey.
PLoS One: 2024, 19(3);e0300356
[PubMed:38547192] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Shi Y, Stanmore E, McGarrigle L, Todd C
Social-media based Health Education plus Exercise Programme (SHEEP) to improve muscle function among community-dwelling young-old adults with possible sarcopenia in China: A study protocol for intervention development.
PLoS One: 2024, 19(3);e0286490
[PubMed:38547178] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Yu Y, Lu G, Fung Sin K, Yu Z
Media representations of China's inclusive education: A corpus-assisted critical discourse analysis.
PLoS One: 2024, 19(3);e0300123
[PubMed:38547159] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Karadag AS, Kandi B, Sanlı B, Ulusal H, Basusta H, Sener S, Calıka S
Social Media Use in Dermatology in Turkey: Challenges and Tips for Patient Health.
JMIR Dermatol: 2024 Mar 28, 7;e51267
[PubMed:38546714] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Herrell C, Foster S
Can't stop won't stop: problematic phone use, sleep quality, and mental health in U.S. Graduate students.
J Am Coll Health: 2024 Mar 28;1-7
[PubMed:38546702] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Nable JV, Davis MJ, Davis JE
Utilization of the social media platform Snapchat in the care of an acutely suicidal individual.
J Am Coll Health: 2024 Mar 28;1-3
[PubMed:38546674] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Nastasi BK, Clinton A
Adopting global perspectives in school psychology.
Sch Psychol: 2024 Mar, 39(2);119-121
[PubMed:38546600] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Pontell ME, Taylor JA
Discussion: Parents' Perceptions of Social Media Use by Pediatric Plastic Surgeons.
Plast Reconstr Surg: 2024 Apr 1, 153(4);894-895
[PubMed:38546362] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Costa FG, Mills KB, Crosby HA, Horswill AR
The Staphylococcus aureus regulatory program in a human skin-like environment.
mBio: 2024 Mar 28;e0045324
[PubMed:38546267] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Chi L, Boucaut R, Li LSK, Fryer CE, Kumar S
Australian physiotherapists' knowledge and views on the relationship between climate change, health, and physiotherapy.
Physiother Res Int: 2024 Apr, 29(2);e2085
[PubMed:38546164] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Ting SH, Netto NM
Knowledge and Perceptions of the Public VIS-À-VIS Colorectal Cancer Information in Newspapers in Malaysia.
Asian Pac J Cancer Prev: 2024 Mar 1, 25(3);987-997
[PubMed:38546081] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Gawde NC, Quazi Syed Z
Determinants of Quit Attempts and Short-Term Abstinence among Smokeless Tobacco Users in India: Global Adult Tobacco Survey, 2016-17.
Asian Pac J Cancer Prev: 2024 Mar 1, 25(3);875-883
[PubMed:38546070] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Nygaard M, Andersen TO, Rod NH
Can social connections become stressful? Exploring the link between social media use and perceived stress in cross-sectional and longitudinal analyses of 25,053 adults.
J Ment Health: 2024 Mar 28;1-9
[PubMed:38545943] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zhang X, Chen A, Jin J
Chinese scientists' mediated participation in public outreach: Multiple direct and personal norm-mediated predictors.
Public Underst Sci: 2024 Mar 28;9636625241237927
[PubMed:38545910] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Cho Y, Lee JG, Ryu GH, Song JJ, Im GJ, Chae SW
Changes in Otitis Media During COVID-19.
Ann Otol Rhinol Laryngol: 2024 Mar 28;34894241241889
[PubMed:38545884] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Sousa AR, Gonçalves DC, Neves BG, Santos-Coquillat A, Oliveira MB, Mano JF
Encapsulated Mesenchymal Stromal Cells as Cyclic Providers of Immunomodulatory Secretomes: a living on-Demand Delivery System.
Adv Healthc Mater: 2024 Mar 28;e2304012
[PubMed:38545848] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Kluger N, Taieb C, Bedran J, Payraud L, Beausillon C, Sammain A, Gallinger J, Comte C
Impact of acne on women's social media and dating apps photo activity.
J Eur Acad Dermatol Venereol: 2024 Mar 28;
[PubMed:38545831] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Laabidi S, Medhioub M, Khsiba A, Bach Ali A, Ben Mohamed A, Hamzaoui L
Impact of direct-acting antiviral on subclinical atherosclerosis in chronic hepatitis C infected patients.
Tunis Med: 2024 Mar 5, 102(3);170-175
[PubMed:38545713] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Fang TY, Lin TY, Shen CM, Hsu SY, Lin SH, Kuo YJ, Chen MH, Yin TK, Liu CH, Lo MT, Wang PC
Algorithm-Driven Tele-otoscope for Remote Care for Patients With Otitis Media.
Otolaryngol Head Neck Surg: 2024 Mar 28;
[PubMed:38545686] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Karunarathne S, Kannangara YY, Ratwani CR, Sandaruwan C, Wijesinghe WPSL, Kamali AR, Abdelkader AM
Stoichiometrically optimized e(g) orbital occupancy of Ni-Co oxide catalysts for Li-air batteries.
Nanoscale: 2024 Mar 28;
[PubMed:38545684] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Chowdhury S, Ahmed S, Alam S, Callaghan CT, Das P, Di Marco M, Di Minin E, Jarić I, Labi MM, Rokonuzzaman M, Roll U, Sbragaglia V, Siddika A, Bonn A
A protocol for harvesting biodiversity data from Facebook.
Conserv Biol: 2024 Mar 28;e14257
[PubMed:38545678] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Yamamoto R, Kitamura Y, Kon T
Chlamydomonas dynein-preassembly-deficient mutants exhibit characteristic ciliary responses to viscous media.
MicroPubl Biol: 2024, 2024;
[PubMed:38545438] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Duong TN, Le MH, Le TV, Ha TT, Roudbary M, Beardsley J
Exploring fungal diversity in Vietnam: A citizen science initiative.
One Health: 2024 Jun, 18;100711
[PubMed:38545429] [WorldCat.org: ISSN ESSN ] [DOI] ( )

AlAufi NS, Chan YM, Chin YS, Ahmad N, Mohd-Yusof BN, Waly MI, Al Busaidi N, Al-Shuriqi S, Al Amri K, Al Bulushi F, Al Bulushi S
Effectiveness of Mediterranean Diet on Daytime Sleepiness among Individuals with Type 2 Diabetes Mellitus in Oman.
Sleep Sci: 2024 Mar, 17(1);e45-e54
[PubMed:38545248] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Tanwar N, Mahto BK, Rookes JE, Cahill DM, Bansal KC, Lenka SK
Chloroplast transformation in new cultivars of tomato through particle bombardment.
3 Biotech: 2024 Apr, 14(4);120
[PubMed:38545123] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Huang C, Luo J, Shan Z, Zhen T, Li J, Ma Q, Wei L, Liang J, Xie X, Zheng Y
The value of the improved percutaneous and intravenous contrast-enhanced ultrasound diagnostic classification in sentinel lymph nodes of breast cancer.
Quant Imaging Med Surg: 2024 Mar 15, 14(3);2391-2404
[PubMed:38545047] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Ahmed S, Ibbotson D, Somodi C, Shamberger PJ
Zinc Nitrate Hexahydrate Pseudobinary Eutectics for Near-Room-Temperature Thermal Energy Storage.
ACS Appl Eng Mater: 2024 Mar 22, 2(3);530-541
[PubMed:38544948] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Helal G, Xu Z, Zuo W, Yu Y, Liu J, Su H, Xu J, Li H, Cheng G, Zhao P
Boosting oxygen evolution reaction rates with mesoporous Fe-doped MoCo-phosphide nanosheets.
RSC Adv: 2024 Mar 26, 14(15);10182-10190
[PubMed:38544941] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Wan M, Liu X, Zhang M, Cui Z, Zhao W, Li J, Lin S
Stigmatized Stroke? A Qualitative Study of Perception of Stroke Among Community Residents With Hypertension.
Int J Public Health: 2024, 69;1606781
[PubMed:38544924] [WorldCat.org: ISSN ESSN ] [DOI] ( )

De Sousa I, Dizonno V, LeComte K, Carr A, El Kalza Y, Shymka M, Payette RH, Kuzmuk L, Lyall EME, Grewal J, Smith JMC, Field TS
"We have dealt with so much. There's more coming?": Improving Knowledge About Brain Health in Adults Living With Congenital Heart Disease.
CJC Pediatr Congenit Heart Dis: 2024 Feb, 3(1);1-10
[PubMed:38544881] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Rémillard-Labrosse G, Cohen S, Boucher É, Gagnon K, Vasilev F, Mihajlović AI, FitzHarris G
Oocyte and embryo culture under oil profoundly alters effective concentrations of small molecule inhibitors.
Front Cell Dev Biol: 2024, 12;1337937
[PubMed:38544820] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Tabassum N, Khan F, Jeong GJ, Jo DM, Kim YM
Silver nanoparticles synthesized from Pseudomonas aeruginosa pyoverdine: Antibiofilm and antivirulence agents.
Biofilm: 2024 Jun, 7;100192
[PubMed:38544742] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Smith N, Donaldson M, Mitton C, Lee E
Communication in disasters to support families with children with medical complexity and special healthcare needs: a rapid scoping review.
Front Public Health: 2024, 12;1229738
[PubMed:38544735] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Bevilacqua R, Stara V, Amabili G, Margaritini A, Benadduci M, Barbarossa F, Maranesi E, Rigaud AS, Dacunha S, Palmier C, Moller J, Browne R, Ogawa T, Wieching R
e-VITA study protocol: EU-Japan virtual coach for smart aging.
Front Public Health: 2024, 12;1256734
[PubMed:38544729] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Demirel Topel S
Exploring the photocatalytic and photodynamic effects of BODIPY-linked titanium dioxide nanoparticles.
Turk J Chem: 2023, 47(6);1407-1419
[PubMed:38544719] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Eren Belgin E, Delibalta CG
Quaternized chitosan/PVA/natural bioactive agent electrospun wound scaffolds: production, characterization, and investigation of release kinetics.
Turk J Chem: 2023, 47(6);1529-1539
[PubMed:38544716] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Civan Çavuşoğlu F, Özçelik G, Bayazit ŞS
Removal of toxic Cr(VI) from aqueous medium with effective magnetic carbon-based nanocomposites.
Turk J Chem: 2023, 47(6);1479-1496
[PubMed:38544715] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Aghajanpour F, Soltani R, Afshar A, Abbaszadeh HA, Fadaei Fathabadi F, Moeinian N, Aliaghaei A, Dehghani Nejad A, Mastery Farahani R, Norouzian M, Abdollahifar MA
Sertoli cell-conditioned medium can improve blood-testis-barrier function and spermatogenesis in azoospermia mice induced by scrotal hyperthermia: An experimental study.
Int J Reprod Biomed: 2024 Jan, 22(1);17-30
[PubMed:38544670] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Kayo T, Uneda K, Suzuki M
Acupuncture Topics on Twitter (Currently X) in English and Japanese: Co-occurrence Network Analysis.
Cureus: 2024 Feb, 16(2);e54928
[PubMed:38544657] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Ahmed S, Jaidka K, Chen VHH, Cai M, Chen A, Emes CS, Yu V, Chib A
Social media and anti-immigrant prejudice: a multi-method analysis of the role of social media use, threat perceptions, and cognitive ability.
Front Psychol: 2024, 15;1280366
[PubMed:38544515] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Ezerskyte E, Morkvenas A, Venius J, Sakirzanovas S, Karabanovas V, Katelnikovas A, Klimkevicius V
Biocompatible Upconverting Nanoprobes for Dual-Modal Imaging and Temperature Sensing.
ACS Appl Nano Mater: 2024 Mar 22, 7(6);6185-6195
[PubMed:38544503] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Encarnacion Ramirez MJ, Mukengeshay JN, Chumtin G, Nurmukhametov R, Baldoncini M, Lafuente J, Rosario AR, Kannan S, Haidara A, Ramirez I, Bozkurt I, Esene I, Kaprovoy S, Konovalov N, Kalangu KK, Musa G, Lawton MT, Chavda VK, Suero Molina E, Montemurro N
The importance of social networks in neurosurgery training in low/middle income countries.
Front Surg: 2024, 11;1341148
[PubMed:38544491] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Liu Y, Xu B, Li Y, Quek SY, Huang K
Eco-Friendly and Self-Sanitizing Microporous Cellulose Sponge (MCS)-Based Cooling Media for Mitigating Microbial Cross-Contamination in the Food Cold Chain.
Adv Sci (Weinh): 2024 Mar 28;e2309753
[PubMed:38544489] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zhao J, Zhang G, Wu K, Qin F, Fei L, Derome D, Carmeliet J
Dynamic Pore Network Modeling of Imbibition in Real Porous Media with Corner Film Flow.
Langmuir: 2024 Mar 27;
[PubMed:38544367] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Martini F, Pigati M, Mattiauda M, Ponzano M, Piol N, Pigozzi S, Spina B, Cittadini G, Giasotto V, Zawaideh JP
Extra-prostatic extension (EPE) grading system: Correlation with MRI features and integration of capsular enhancement sign (CES) for "enhanced" detection of T3a lesions.
Br J Radiol: 2024 Mar 27;
[PubMed:38544291] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Han Y, Shen H, Yuan F, Ma T, Dai P, Sun Y, Chu H
A Single-Shot Scattering Medium Imaging Method via Bispectrum Truncation.
Sensors (Basel): 2024 Mar 21, 24(6);
[PubMed:38544264] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Zhao X, Zhang Y, Niu Q, Wang L, Xing C, Wang Q, Bao H
Research on the Flow Characteristics and Reaction Mechanisms of Lateral Flow Immunoassay under Non-Uniform Flow.
Sensors (Basel): 2024 Mar 20, 24(6);
[PubMed:38544252] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Wang W, Jing M, Fan Y, Weng W
PixRevive: Latent Feature Diffusion Model for Compressed Video Quality Enhancement.
Sensors (Basel): 2024 Mar 16, 24(6);
[PubMed:38544170] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Son Y, Park JW
Detecting Forged Audio Files Using "Mixed Paste" Command: A Deep Learning Approach Based on Korean Phonemic Features.
Sensors (Basel): 2024 Mar 14, 24(6);
[PubMed:38544136] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Kopciuch D, Hoffmann K, Kus K, Koligat-Seitz A, Ratajczak P, Nowakowska E, Paczkowska A
Analysis of Attitudes and Practices towards the Influenza Vaccine in High-Risk Adults in Poland.
Vaccines (Basel): 2024 Mar 21, 12(3);
[PubMed:38543975] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Kim D, Park SY, Lee G, Kim ES, Jin JS, Kim JY, Lee S, Park JH, Ko YJ
Calcium Chloride Treatment Enhances Antigen Production in Foot-and-Mouth Disease Vaccines for Serotypes SAT1 and SAT3.
Vaccines (Basel): 2024 Feb 23, 12(3);
[PubMed:38543864] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Shang B, Li X, Zhang X, Zhang M, Kong J, Wang J, Tan A, Zhao F, Zhang D
A Novel Transposon Tn7709 Harbors Multidrug Resistance Genes in a Pathogenic Aeromonas media Strain QST31.
Microorganisms: 2024 Mar 13, 12(3);
[PubMed:38543623] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Ratcliffe NA, Mello CB, Castro HC, Dyson P, Figueiredo M
Immune Reactions of Vector Insects to Parasites and Pathogens.
Microorganisms: 2024 Mar 12, 12(3);
[PubMed:38543619] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Calisto N, Navarro L, Iribarren C, Orellana P, Gómez C, Salazar L, Gutiérrez A, Aranda C, González AR, Tello M, Cortés-Cortés P, Gidekel M, Corsini G
Characterization of Antibiotic-Resistance Antarctic Pseudomonas That Produce Bacteriocin-like Compounds.
Microorganisms: 2024 Mar 6, 12(3);
[PubMed:38543581] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Yousfi C, Oueslati S, Daaboul D, Girlich D, Proust A, Bentchouala C, Naas T
Antibiotic Susceptibility Profiles of Bacterial Isolates Recovered from Abscesses in Cattle and Sheep at a Slaughterhouse in Algeria.
Microorganisms: 2024 Mar 5, 12(3);
[PubMed:38543576] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Hurt A, Bibik JD, Martinez-Gomez NC, Hamberger B
Engineering Terpene Production Pathways in Methylobacterium extorquens AM1.
Microorganisms: 2024 Feb 29, 12(3);
[PubMed:38543551] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Boumba VA, Velivasi G, Kourkoumelis N
Ethanol and Higher Alcohols' Production in Fungal and Bacterial Laboratory Cultures and Significance for Forensic Samples.
Microorganisms: 2024 Feb 24, 12(3);
[PubMed:38543513] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Arambula-Maldonado R, Mequanint K
Sol-Gel Derived Gelatin-Bioactive Glass Nanocomposite Biomaterials Incorporating Calcium Chloride and Calcium Ethoxide.
Polymers (Basel): 2024 Mar 8, 16(6);
[PubMed:38543353] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Heidari H, Muanpaopong N, Guner G, Yao HF, Clancy DJ, Bilgili E
A Novel PBM for Nanomilling of Drugs in a Recirculating Wet Stirred Media Mill: Impacts of Batch Size, Flow Rate, and Back-Mixing.
Pharmaceutics: 2024 Mar 2, 16(3);
[PubMed:38543247] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Bitterlich A, Mihorko A, Juhnke M
Design Space and Control Strategy for the Manufacturing of Wet Media Milled Drug Nanocrystal Suspensions by Adopting Mechanistic Process Modeling.
Pharmaceutics: 2024 Feb 26, 16(3);
[PubMed:38543222] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Fan J, Huang X, Dou M, Tang S, Wang G, Fan Y, Luo A, Wang G, Wang Y
Structural Characterization and Immunoenhancing Properties of Polysaccharide CPTM-P1 from Taxus media.
Molecules: 2024 Mar 19, 29(6);
[PubMed:38543007] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Khomenko M, Sokolov A, Tverjanovich A, Bokova M, Kassem M, Usuki T, Bychkov E
Gallium Trichloride Fluid: Dimer Dissociation Mechanism, Local Structure, and Atomic Dynamics.
Molecules: 2024 Mar 19, 29(6);
[PubMed:38542994] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Alguacil FJ
Utilizing Deep Eutectic Solvents in the Recycle, Recovery, Purification and Miscellaneous Uses of Rare Earth Elements.
Molecules: 2024 Mar 19, 29(6);
[PubMed:38542991] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Barany G, Hansen PR
Reflections on a Copenhagen-Minneapolis Axis in Bioorganic Chemistry.
Molecules: 2024 Mar 15, 29(6);
[PubMed:38542953] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Imura T, Yanagisawa S, Ikeda Y, Moriyama R, Sakai K, Sakai H, Taira T
Solubilization of Phospholipid by Surfactin Leading to Lipid Nanodisc and Fibrous Architecture Formation.
Molecules: 2024 Mar 14, 29(6);
[PubMed:38542936] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Jeliński T, Przybyłek M, Mianowana M, Misiak K, Cysewski P
Deep Eutectic Solvents as Agents for Improving the Solubility of Edaravone: Experimental and Theoretical Considerations.
Molecules: 2024 Mar 12, 29(6);
[PubMed:38542898] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

An W, Wang Q, Chen H, Liu Y, Hu X, Di J
Efficient Recovery of Phosphate from Water Media by Iron-Magnesium Functionalized Lignite: Adsorption Evaluation, Mechanism Revelation and Potential Application Exploration.
Molecules: 2024 Mar 12, 29(6);
[PubMed:38542888] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Rickerby A, Green R
Barriers to Adopting a Plant-Based Diet in High-Income Countries: A Systematic Review.
Nutrients: 2024 Mar 14, 16(6);
[PubMed:38542734] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Gonçalves M, Aiello A, Rodríguez-Pérez M, Accardi G, Burgos-Ramos E, Silva P
Olive Oil Components as Novel Antioxidants in Neuroblastoma Treatment: Exploring the Therapeutic Potential of Oleuropein and Hydroxytyrosol.
Nutrients: 2024 Mar 13, 16(6);
[PubMed:38542729] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Enatsu N, Seino J, Tsuji T, Ogata M
Effectiveness of Sports Nutrition Education Based on Self-Determination Theory for Male University Rowing Athletes: A Randomized Controlled Trial.
Nutrients: 2024 Mar 11, 16(6);
[PubMed:38542710] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Malloy JA, Kemper JA, Partridge SR, Roy R
Empowering Young Women: A Qualitative Co-Design Study of a Social Media Health Promotion Programme.
Nutrients: 2024 Mar 9, 16(6);
[PubMed:38542691] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Silva HJB, Pereira CF, Pereira G, Pereira GAL
Development of Fluorescent Sensors for Biorelevant Anions in Aqueous Media Using Positively Charged Quantum Dots.
Micromachines (Basel): 2024 Mar 9, 15(3);
[PubMed:38542620] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Jiang H, Li Y, Du F, Nie Z, Wei G, Wang Y, Liu X
Numerical Simulations of Combined Dielectrophoresis and Alternating Current Electrothermal Flow for High-Efficient Separation of (Bio)Microparticles.
Micromachines (Basel): 2024 Feb 29, 15(3);
[PubMed:38542592] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Yan S, Rajestari Z, Morse TC, Li H, Kulinsky L
Electrokinetic Manipulation of Biological Cells towards Biotechnology Applications.
Micromachines (Basel): 2024 Feb 29, 15(3);
[PubMed:38542588] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

González-Nicolás MÁ, González-Guerrero C, Goicoechea M, Boscá L, Valiño-Rivas L, Lázaro A
Biomarkers in Contrast-Induced Acute Kidney Injury: Towards A New Perspective.
Int J Mol Sci: 2024 Mar 19, 25(6);
[PubMed:38542410] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Simon D, Kacsándi D, Pusztai A, Soós B, Végh E, Kerekes G, Bodoki M, Szamosi S, Szűcs G, Prohászka Z, Németh P, Berki T, Szekanecz Z
Natural Autoantibodies in Biologic-Treated Rheumatoid Arthritis and Ankylosing Spondylitis Patients: Associations with Vascular Pathophysiology.
Int J Mol Sci: 2024 Mar 18, 25(6);
[PubMed:38542402] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Andreoli V, Berni P, Conti V, Ramoni R, Basini G, Grolli S
Mesenchymal Stromal Cells Derived from Canine Adipose Tissue: Evaluation of the Effect of Different Shipping Vehicles Used for Clinical Administration.
Int J Mol Sci: 2024 Mar 18, 25(6);
[PubMed:38542399] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Lenart-Boroń A, Stankiewicz K, Czernecka N, Ratajewicz A, Bulanda K, Heliasz M, Sosińska D, Dworak K, Ciesielska D, Siemińska I, Tischner M
Wounds of Companion Animals as a Habitat of Antibiotic-Resistant Bacteria That Are Potentially Harmful to Humans-Phenotypic, Proteomic and Molecular Detection.
Int J Mol Sci: 2024 Mar 8, 25(6);
[PubMed:38542095] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Zuil-Escobar JC, Martín-Urrialde JA, Mesa-Jiménez JA, Palomo-Carrión R, Martínez-Cepa CB
Telehealth in Informal Caregivers of Stroke Survivors: A Systematic Review.
J Clin Med: 2024 Mar 21, 13(6);
[PubMed:38542035] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Bialecka M, Rac M, Dziedziejko V, Safranow K, Chlubek D, Rać ME
An Evaluation of Plasma TNF, VEGF-A, and IL-6 Determination as a Risk Marker of Atherosclerotic Vascular Damage in Early-Onset CAD Patients.
J Clin Med: 2024 Mar 18, 13(6);
[PubMed:38541966] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Chae M, Yoon H, Lee H, Choi J
Hearing Recovery Prediction for Patients with Chronic Otitis Media Who Underwent Canal-Wall-Down Mastoidectomy.
J Clin Med: 2024 Mar 8, 13(6);
[PubMed:38541783] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Alexander KC, Anderson CW, Agala CB, Tasoudis P, Collins EN, Ding Y, Blackwell JW, Willcox DE, Farivar BS, Kibbe MR, Ikonomidis JS, Akerman AW
Paradoxical Changes: EMMPRIN Tissue and Plasma Levels in Marfan Syndrome-Related Thoracic Aortic Aneurysms.
J Clin Med: 2024 Mar 8, 13(6);
[PubMed:38541774] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Pais-Vieira C, Figueiredo JG, Perrotta A, Matos D, Aguiar M, Ramos J, Gato M, Poleri T, Pais-Vieira M
Activation of a Rhythmic Lower Limb Movement Pattern during the Use of a Multimodal Brain-Computer Interface: A Case Study of a Clinically Complete Spinal Cord Injury.
Life (Basel): 2024 Mar 16, 14(3);
[PubMed:38541720] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

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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)


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</biblio>