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Revision as of 11:32, 1 February 2016



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

Dholakia A, Burdick KJ, Kreatsoulas C, Monuteaux MC, Tsai J, Subramanian SV, Fleegler EW
Historical Redlining and Present-Day Nonsuicide Firearm Fatalities.
Ann Intern Med: 2024 Apr 23;
[PubMed:38648643] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Pandit S, Seth D
Graphene Oxide-Induced Prototropism and Enhancement of Fluorescence Yield of Organic Molecules in Solutions: Recent Advances.
Langmuir: 2024 Apr 22;
[PubMed:38648496] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Xia C, Johnson NF
Nonlinear spreading behavior across multi-platform social media universe.
Chaos: 2024 Apr 1, 34(4);
[PubMed:38648381] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Díaz-Coello S, Winkler D, Griesser C, Moser T, Rodríguez JL, Kunze-Liebhäuser J, García G, Pastor E
Highly Active W(2)C-Based Composites for the HER in Alkaline Solution: the Role of Surface Oxide Species.
ACS Appl Mater Interfaces: 2024 Apr 22;
[PubMed:38648335] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Hasan S, Ahlgren CD, Lipphardt M, Chrumka A, Zaman R, Khan R, Waheed M, Higginbotham DO, Saleh E, McCarty SA
#lowbackpain on TikTok: A New Frontier for Orthopaedic Medical Education.
J Am Acad Orthop Surg Glob Res Rev: 2024 Apr 1, 8(4);
[PubMed:38648295] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Zhang B, Liu T, Ke Z, Li Y, Silamu W
Rumor detection based on Attention Graph Adversarial Dual Contrast Learning.
PLoS One: 2024, 19(4);e0290291
[PubMed:38648224] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Lyons AC, Kersey K, Emslie C, Dimova E, Burrows A
Digital alcohol marketing and gender: A narrative synthesis.
Drug Alcohol Rev: 2024 Apr 22;
[PubMed:38648191] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Gill N, Banta JE, Gashugi L, Young SD
Analysis of Participant Stigma and Associated Costs of a Peer-Led Social Media HIV Intervention.
AIDS Educ Prev: 2024 Apr, 36(2);113-128
[PubMed:38648178] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Smith SM, Bais B, Ismaili M'hamdi H, Schermer MH, Steegers-Theunissen RP
Stimulating Preconception Care Uptake by Women With a Vulnerable Health Status Through a Mobile Health App (Pregnant Faster): Pilot Feasibility Study.
JMIR Hum Factors: 2024 Apr 22, 11;e53614
[PubMed:38648092] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Ingavat N, Wang X, Liew JM, Mahfut FB, But KP, Kok YJ, Bi X, Yang Y, Shintaro K, Tsoumpra M, Zhang W
Harnessing ceramic hydroxyapatite as an effective polishing strategy to remove product- and process-related impurities in bispecific antibody purification.
Bioresour Bioprocess: 2023 Dec 13, 10(1);93
[PubMed:38647984] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Kusumawati N, Sumarlan SH, Zubaidah E, Wardani AK
Isolation of xylose-utilizing yeasts from oil palm waste for xylitol and ethanol production.
Bioresour Bioprocess: 2023 Oct 13, 10(1);71
[PubMed:38647966] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Zhou M, Fakayode OA, Ren M, Li H, Liang J, Yagoub AEA, Fan Z, Zhou C
Laccase-catalyzed lignin depolymerization in deep eutectic solvents: challenges and prospects.
Bioresour Bioprocess: 2023 Mar 23, 10(1);21
[PubMed:38647951] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Volkmar M, Maus AL, Weisbrodt M, Bohlender J, Langsdorf A, Holtmann D, Ulber R
Municipal green waste as substrate for the microbial production of platform chemicals.
Bioresour Bioprocess: 2023 Jul 22, 10(1);43
[PubMed:38647939] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Michalska K, Brown RK, Schröder U
Carbon source priority and availability limit bidirectional electron transfer in freshwater mixed culture electrochemically active bacterial biofilms.
Bioresour Bioprocess: 2023 Sep 20, 10(1);64
[PubMed:38647932] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Reyes Castillo N, Díaz CE, Andres MF, Imperial J, Valcárcel F, González Coloma AA
Optimization of fungicidal and acaricidal metabolite production by endophytic fungus Aspergillus sp. SPH2.
Bioresour Bioprocess: 2024 Mar 5, 11(1);28
[PubMed:38647905] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Wang C, Chang D, Zhang Q, Yu Z
Enhanced bioethanol production by evolved Escherichia coli LGE2-H in a microbial electrolysis cell system.
Bioresour Bioprocess: 2024 Jan 3, 11(1);4
[PubMed:38647898] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Nwokeoji AO, Nwokeoji EA, Chou T, Togola A
A novel sustainable platform for scaled manufacturing of double-stranded RNA biopesticides.
Bioresour Bioprocess: 2022 Oct 6, 9(1);107
[PubMed:38647833] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Zeng W, Shan X, Liu L, Zhou J
Efficient 1,3-dihydroxyacetone biosynthesis in Gluconobacter oxydans using metabolic engineering and a fed-batch strategy.
Bioresour Bioprocess: 2022 Nov 26, 9(1);121
[PubMed:38647819] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Shan C, Xia T, Liu J, Wang Y, Bai P, Xu L, Li Z, Zhao J, Bao X
The impacts of nicotinamide and inositol on the available cells and product performance of industrial baker's yeasts.
Bioresour Bioprocess: 2023 Jul 22, 10(1);41
[PubMed:38647809] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Shabahang R, Kim S, Chen X, Aruguete MS, Zsila Á
Downloading appetite? Investigating the role of parasocial relationship with favorite social media food influencer in followers' disordered eating behaviors.
Eat Weight Disord: 2024 Apr 22, 29(1);28
[PubMed:38647734] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Ruhluel D, Fisher L, Barton TE, Leighton H, Kumar S, Morillo PA, O'Brien S, Fothergill JL, Neill DR
Secondary messenger signalling influences Pseudomonas aeruginosa adaptation to sinus and lung environments.
ISME J: 2024 Apr 22;
[PubMed:38647527] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Fernandez SV, Kim JH, Sadat D, Marcus C, Suh E, Mclntosh R, Shah A, Dagdeviren C
A Dynamic Ultrasound Phantom with Tissue-Mimicking Mechanical and Acoustic Properties.
Adv Sci (Weinh): 2024 Apr 22;e2400271
[PubMed:38647427] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Kerci SG, Sahan B
An Analysis of ChatGPT4 to Respond to Glaucoma-Related Questions.
J Glaucoma: 2024 Apr 23;
[PubMed:38647417] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Brown OI, Bridge KI, Straw S, Makava N, Scragg J, Limumpornpetch S, Luk C, Smith J, Skromna A, Bruns AF, Sukumar P, Roberts LD, Cubbon R, Witte KK, Wheatcroft S, Kearney MT
Studying Adipose Endothelial Cell/Adipocyte Cross-Talk in Human Subcutaneous Adipose Tissue.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647333] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Roets B, Abrahamse H, Crous A
Three-Dimensional Cell Culture of Adipose-Derived Stem Cells in a Hydrogel with Photobiomodulation Augmentation.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647328] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Charpentier M, Bloy N, Formenti SC, Galluzzi L, Demaria S
Live Imaging to Quantify Cellular Radiosensitivity in Patient-Derived Tumor Organoids.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647326] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Shimizu K, Kuze-Arata S, Kikusui T, Mogi K
Analysis of Electrocardiograms and Behavior in Mice from Pregnancy to Lactation Period.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647323] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Page-Dumroese DS, Tirocke JM, Anderson NM, Archuleta JG, McCollum DW, Morisette J, Pierson DN, Rodriguez-Franco C
Continuous In-woods Production of Biochar Using a Trailer-mounted Air Curtain Burner.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647320] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Alzoubi D, Rich W, Reilly MA
Automated Compression Testing of the Ocular Lens.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647316] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Budkov YA, Kalikin NN, Brandyshev PE
Surface tension of aqueous electrolyte solutions. A thermomechanical approach.
J Chem Phys: 2024 Apr 28, 160(16);
[PubMed:38647306] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Jockisch RD, Davey CR, Keller SMP, Lahoti S, Bramlet MT
Pioneering Patient-Specific Approaches for Precision Surgery Using Imaging and Virtual Reality.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647284] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Lopes MM, Lopes SM, Baganha R, Henriques C, Silva AC, Lobo DD, Cortes L, de Almeida LP, Nobre RJ
Isolation of Adeno-associated Viral Vectors Through a Single-step and Semi-automated Heparin Affinity Chromatography Protocol.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647283] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Molehin D, Guinan J, Lopez B
Generation of a Bovine Primary Enteroid-Derived Two-Dimensional Monolayer Culture System for Applications in Translational Biomedical Research.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647281] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Hu J, Hu C
Metacarpal Small Incision for Carpal Tunnel Syndrome.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647277] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Tan Z, Yeung TC, Ding Y, Wang CC
Establishment of an Experimental Mouse Model of Endometrioma to Study its Related Infertility.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647276] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Ni Z, Cao J, Shan M, Zhang Y, Shi L
Swimming Exercise Protocol and Care Methods for Pregnant Rats.
J Vis Exp: 2024 Apr 5, (206);
[PubMed:38647274] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Pinto M, Machado CS, Barreiro S, Otero-Espinar FJ, Remião F, Borges F, Fernandes C
Rescuing a Troubled Tolcapone with PEGylated PLGA Nanoparticles: Design, Characterization, and Hepatotoxicity Evaluation.
ACS Appl Mater Interfaces: 2024 Apr 22;
[PubMed:38647198] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Voinov MA, Nunn N, Rana R, Davidsson A, Smirnov AI, Smirnova TI
Measuring local pH at interfaces from molecular tumbling: A concept for designing EPR-active pH-sensitive labels and probes.
Org Biomol Chem: 2024 Apr 22;
[PubMed:38647161] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Farzad M, Naqui Z, MacDermid J, Cuypers S
Sustainable practices in hand therapy: a global perspective.
J Hand Surg Eur Vol: 2024 Apr 22;17531934241246451
[PubMed:38647160] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Paredes J, D'Anna L, Ramirez LD, Mayhan KT, Rhee JU, Timberlake DS
A qualitative assessment of blunt smokers' perceptions and receptivity to non-tobacco blunt wraps.
J Stud Alcohol Drugs: 2024 Apr 22;
[PubMed:38647093] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Guarducci G, Chiti M, Fattore DC, Caldararo R, Messina G, Filidei P, Nante N
Development of a network model to implement the HPV vaccination coverage.
Ann Ig: 2024 Apr 11;
[PubMed:38647091] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Waltz TB, Chao D, Prodoehl EK, Enders JD, Ehlers VL, Dharanikota BS, Dahms NM, Isaeva E, Hogan QH, Pan B, Stucky CL
Fabry disease Schwann cells release p11 to induce sensory neuron hyperactivity.
JCI Insight: 2024 Mar 7, 9(8);
[PubMed:38646936] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Mason O, Horton B, Starrett C
Trial by YouTube: effects of expert psychiatric witness testimony on viewers' opinions of Amber Heard and Johnny Depp.
BJPsych Bull: 2024 Apr 22;1-3
[PubMed:38646868] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

O'Neill S, Begg S, Hyett N, Spelten E
Primary Health Care Interventions for Potentially Preventable Ear, Nose, and Throat Conditions in Rural and Remote Areas: A Systematic Review.
Ear Nose Throat J: 2024 Apr 22;1455613241245198
[PubMed:38646793] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Greer M, Kamma S, Tran H, Etumuse B, Shah JD, El-Abed Y, Onyemachi JO, Hussain N, Pittelkow TP, D'Souza RS
Misinformation Persists in Complementary Health: Evaluating the Reliability and Quality of YouTube-Based Information on the Use of Acupuncture for Chronic Pain.
J Pain Res: 2024, 17;1509-1518
[PubMed:38646592] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Domingos J, Dean J, Fernandes JB, Família C, Fernandes S, Godinho C
Exploring barriers and educational needs in implementing dual-task training for Parkinson's disease: insights from professionals.
Front Med (Lausanne): 2024, 11;1325978
[PubMed:38646555] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Tanaka K, Oshiro K, Yamashita N, Nakanishi H
Tangible document sharing: handing over paper documents across a videoconferencing display.
Front Robot AI: 2024, 11;1303440
[PubMed:38646473] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Mammarella F, Loperfido A, Velletrani G, Casorati F, Stasolla A, Di Girolamo S, Bellocchi G
Refractory Pseudomonas Osteomyelitis of the Skull Base With Gradenigo's Syndrome: Early Dysphagia and Late Abducens Nerve Palsy.
J Med Cases: 2024 Apr, 15(2-3);43-48
[PubMed:38646423] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Ahuja J, Fichadia PA
Concerns Regarding the Glorification of Mental Illness on Social Media.
Cureus: 2024 Mar, 16(3);e56631
[PubMed:38646360] [WorldCat.org: ISSN ESSN ] [DOI] ( )

B S A, Suresh V, S M, Sivaperumal P
Isolation of Secondary Metabolites From Marine Actinobacterium of Microbispora sp.T3S11 and Their Antibacterial Activities.
Cureus: 2024 Mar, 16(3);e56680
[PubMed:38646316] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Al Dihan FA, Alghamdi MA, Aldihan FA, Alamer NM, Alshahrani FA, Alqarni A
Knowledge, Attitude, Awareness, and Future Expectations of Robotic Surgery in Patients Attending Surgical Specialties Clinics.
Cureus: 2024 Mar, 16(3);e56523
[PubMed:38646294] [WorldCat.org: ISSN ESSN ] [DOI] ( )

To J, Horak VJ, Momen D, Chirala L, Kolcun JPG, Lam S, Raskin J
Information Sharing in Neurosurgery Topics Among Pediatric Patients and Loved Ones Within the Reddit Community.
Cureus: 2024 Mar, 16(3);e56571
[PubMed:38646236] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Allard A, Clavien C
Teaching epistemic integrity to promote reliable scientific communication.
Front Psychol: 2024, 15;1308304
[PubMed:38646125] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Kirchen F, Fundneider T, Gimmel L, Thomann M, Pulfer M, Lackner S
Scattered and transmitted light as surrogates for activated carbon residual in advanced wastewater treatment processes: Investigating the influence of particle size.
Water Res X: 2024 May 1, 23;100222
[PubMed:38646065] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Yunus RE, Sriyana AA
Unusual presentation of bilateral tuberculous otomastoiditis with tuberculous spondylitis in a 14-year-old child: A case report.
Radiol Case Rep: 2024 Jul, 19(7);2679-2683
[PubMed:38645953] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Kim CY, Lee MY, Jung JY, Choi JE
Atypical Gradenigo's syndrome in a pediatric case: A critical review of neuroimaging.
Radiol Case Rep: 2024 Jul, 19(7);2633-2638
[PubMed:38645945] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Mitchell KJ, Ybarra ML, Langhinrichsen-Rohling J, Jackson LA, Patts CE
Implementation of a Risk Reduction Protocol in Youth Violence Research.
Ethics Behav: 2024, 34(2);77-88
[PubMed:38645935] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Yakalı D
"He is just Ken:" deconstructing hegemonic masculinity in Barbie (2023 Movie).
Front Sociol: 2024, 9;1320774
[PubMed:38645898] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Vicars M, Milenkovic J
Interrogating global narratives of trans queerness. Well-being and agency? Or more stories of trans trauma?
Front Sociol: 2024, 9;1343117
[PubMed:38645897] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Roy D, Gunri SK, Pal KK
Isolation, screening and characterization of efficient cellulose-degrading fungal and bacterial strains and preparation of their consortium under in vitro studies.
3 Biotech: 2024 May, 14(5);131
[PubMed:38645793] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Bradford DE, DeFalco A, Perkins ER, Carbajal I, Kwasa J, Goodman FR, Jackson F, Richardson LNS, Woodley N, Neuberger L, Sandoval JA, Huang HJ, Joyner KJ
Whose Signals Are Being Amplified? Toward a More Equitable Clinical Psychophysiology.
Clin Psychol Sci: 2024 Mar, 12(2);237-252
[PubMed:38645420] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Landa-Blanco M, Romero K, Caballero I, Gálvez-Pineda E, Fúnes-Henríquez MJ, Romero R
Exploring suicide ideation in university students: sleep quality, social media, self-esteem, and barriers to seeking psychological help.
Front Psychiatry: 2024, 15;1352889
[PubMed:38645419] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Seliem AF, Mohammed AYA, Attia A, Aman S, Ahmad N, Ibrahim MM
ZIF-67 MOF-Derived Mn(3)O(4) @ N-Doped C as a Supercapacitor Electrode in Different Alkaline Media.
ACS Omega: 2024 Apr 16, 9(15);17563-17576
[PubMed:38645369] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Simão Neto F, Sousa Junior PG, da Silva Filho CJA, Pinheiro Coutinho L, Melo RLF, Rocha-Martin J, Rios MAS, Sanders Lopes AA, Monteiro NKV, de Mattos MC, Serafim LF, Sousa Dos Santos JC
Green Enzymatic Synthesis of Geranyl Butyrate: Process Optimization and Mechanistic Insights.
ACS Omega: 2024 Apr 16, 9(15);16992-17001
[PubMed:38645358] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Quadros JD, Khan SA, Mohin M, Mogul YI, Aabid A, Baig M, Ahmed OS
Heat Transfer of Ca (NO(3))(2)-KNO(3) Molten Salt Mixtures for Austempering and Martempering Processes of Steels.
ACS Omega: 2024 Apr 16, 9(15);17266-17275
[PubMed:38645353] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Wang M, Graner AN, Knowles B, McRae C, Fringuello A, Paucek P, Gavrilovic M, Redwine M, Hanson C, Coughlan C, Metzger B, Bolus V, Kopper T, Smith M, Zhou W, Lenz M, Abosch A, Ojemann S, Lillehei KO, Yu X, Graner MW
A tale of two tumors: differential, but detrimental, effects of glioblastoma extracellular vesicles (EVs) on normal human brain cells.
bioRxiv: 2024 Apr 12;
[PubMed:38645117] [DOI] ( e)

Pollalis D, Georgescu C, Wren JD, Tombulyan G, Leung JM, Lo PA, Bloemhof CM, Lee RH, Bae E, Bailey JK, Pennington BO, Khan AI, Kelly KR, Yeh AK, Sundaram KS, Humayun M, Louie S, Clegg DO, Lee SY
Rescuing Photoreceptors in RPE Dysfunction-Driven Retinal Degeneration: The Role of Small Extracellular Vesicles Secreted from Retinal Pigment Epithelium.
bioRxiv: 2024 Apr 13;
[PubMed:38645051] [DOI] ( e)

Cohen DJ, Dennis CD, Deng J, Boyan BD, Schwartz Z
Estradiol induces bone osteolysis in triple-negative breast cancer via its membrane-associated receptor ERα36.
JBMR Plus: 2024 May, 8(5);ziae041
[PubMed:38644978] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Chen J, Yuan D, Yang R, Xiang J
Multi-domain wavelet boundary element method for calculating two-dimensional stress intensity factors.
Heliyon: 2024 Apr 30, 10(8);e29423
[PubMed:38644892] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Song Y, Liu Z, Sun Z, Du W, Wang Z, Hu Z, Ma M, Wang Z
Flow field analysis of cigarette filter through micro-CT-based geometries and CFD simulation.
Heliyon: 2024 Apr 30, 10(8);e29253
[PubMed:38644843] [WorldCat.org: ISSN ESSN ] [DOI] ( )

El-Deeb EM, Elsayed HE, Ateya HB, Taha HS, Elgindi MR, Abouelenein D, Caprioli G, Lai KH, Mustafa AM, Moharram FA
Phenolic profiling and bioactivity assessment of in vitro propagated Psidium cattleianum Sabine: A promising study.
Heliyon: 2024 Apr 30, 10(8);e29379
[PubMed:38644814] [WorldCat.org: ISSN ESSN ] [DOI] ( )

Harahsheh MM, Mukattash TL, Al-Shatnawi SF, Abu-Farha RK, D'Arcy DM, Jarab AS, Abuhammad SH
Community Pharmacists' Identifying and Counseling of Breastfeeding Women: A Study from Jordan.
Korean J Fam Med: 2024 Apr 22;
[PubMed:38644643] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Ding J, Liu XC, Hong J, Zhang QM, Xu XW, Liu YQ, Yu CQ
Knowledge about, attitudes toward and acceptance and predictors of intention to receive the mpox vaccine among cancer patients in China: A cross-sectional survey.
Hum Vaccin Immunother: 2024 Dec 31, 20(1);2337157
[PubMed:38644633] [WorldCat.org: ISSN ESSN ] [DOI] ( o)

Kim HS, Chung MY
A Motivational Technology Perspective on the Use of Smart Wrist-Worn Wearables for Postpartum Exercise and Weight Management.
Health Commun: 2024 Apr 21;1-15
[PubMed:38644619] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zhang X, Wu F, Zhang Q, Lu Z, Zheng Y, Zhu Y, Lin Y
Self-Supported WO(3)@RuO(2) Nanowires for Electrocatalytic Acidic Water Oxidation.
Inorg Chem: 2024 Apr 21;
[PubMed:38644568] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Sharma M, Huertas L, Shah S, Gil A, Bitrian E, Chang TC
Compliance with web content accessibility guidelines in ophthalmology social media posts.
Sci Rep: 2024 Apr 21, 14(1);9142
[PubMed:38644414] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Ho TH, Hoang NH, Wilhelmsen Ø, Trinh TT
Water adsorption on surfaces of calcium aluminosilicate crystal phase of stone wool: a DFT study.
Sci Rep: 2024 Apr 21, 14(1);9135
[PubMed:38644397] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Lin C, Mazzuca MQ, Khalil RA
Increased uterine arterial tone, stiffness and remodeling with augmented matrix metalloproteinase-1 and -7 in uteroplacental ischemia-induced hypertensive pregnancy.
Biochem Pharmacol: 2024 Apr 19;116227
[PubMed:38643908] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

DuPont-Reyes MJ, Villatoro AP, Tang L
Mechanisms of mental illness anti-stigma messaging matter: Leveraging mental health communication inequities among Latinx populations to understand what works and what we can do better.
Soc Sci Med: 2024 Apr 12, 349;116865
[PubMed:38643699] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Gao W, Wang X, Diao Y, Gong Y, Miao J, Sang W, Yuan H, Shen Z, El-Sayed MEA, Abdelhafeez IA
Co-impacts of cation type and humic acid on migration of polystyrene microplastics in saturated porous media.
J Environ Manage: 2024 Apr 20, 358;120918
[PubMed:38643625] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Schneider KN, Zafeiris T, Gosheger G, Klingebiel S, Rickert C, Schachtrup T, Theil C
Shoulder dislocations in professional male football (soccer): A retrospective epidemiological analysis of the German Bundesliga from season 2012/2013 until 2022/2023.
Knee Surg Sports Traumatol Arthrosc: 2024 Apr 21;
[PubMed:38643395] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zemariam AB, Yimer A, Abebe GK, Wondie WT, Abate BB, Alamaw AW, Yilak G, Melaku TM, Ngusie HS
Employing supervised machine learning algorithms for classification and prediction of anemia among youth girls in Ethiopia.
Sci Rep: 2024 Apr 20, 14(1);9080
[PubMed:38643324] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Tao R, Yang B, Lin L, Munir S, Li Y, Wang X, Huang M
Biological characterization of emerging fungal pathogen Colletotrichum associated with mango (Mangifera indica L.) post-harvest anthracnose from Vietnam.
Mol Biol Rep: 2024 Apr 20, 51(1);557
[PubMed:38643317] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Scantlebury A, Sivey P, Anteneh Z, Ayres B, Bloor K, Castelli A, Castro-Avila AC, Davies F, Davies S, Glerum-Brooks K, Gutacker N, Lampard P, Rangan A, Saad A, Street A, Wen J, Adamson J
Mixed Methods EvAluation of the high-volume low-complexity Surgical hUb pRogrammE (MEASURE): a mixed methods study protocol.
BMJ Open: 2024 Apr 19, 14(4);e086338
[PubMed:38643003] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Frost K, Graham-DeMello A, Ball J, Pettie Ngāti Pūkenga M, Hoek J
A qualitative analysis of how underage adolescents access nicotine vaping products in Aotearoa New Zealand.
Nicotine Tob Res: 2024 Apr 20;
[PubMed:38642909] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Singh A, Hunt C, Channaiah LH
Validation of a simulated commercial English muffin baking process to control Salmonella contamination.
J Food Prot: 2024 Apr 18;100280
[PubMed:38642807] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Zulbeari N, Holm R
Is Ultrasound as a Milling or Pre-milling Method to Prepare Aqueous Suspensions an Effective Approach?
J Pharm Sci: 2024 Apr 18;
[PubMed:38642708] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Michaud L, Kolla G, Rudzinski K, Guta A
Mapping a moral panic: News media narratives and medical expertise in public debates on safer supply, diversion, and youth drug use in Canada.
Int J Drug Policy: 2024 Apr 19, 127;104423
[PubMed:38642543] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Goggins S
Discursive trends in New York times coverage of Evusheld access: A case study in the social production of ignorance.
Soc Sci Med: 2024 Apr 9, 349;116855
[PubMed:38642521] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Karimadom BR, Kornweitz H
The Effectiveness of Silver and Gold in Catalytic Homogenous and Heterogenous Borohydride Hydrolysis - a DFT Study.
Chemphyschem: 2024 Apr 20;e202400253
[PubMed:38642388] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Cohen HB
An Icon of Painless Parker.
J Hist Dent: 2024 Spring, 72(1);36-39
[PubMed:38642378] [WorldCat.org: ISSN ESSN ] [DOI] ( p)

Solmaz F, Durgut O, Dikici O, Veziroğlu L
Risk of hearing loss in the opposite ear after tympanomastoidectomy.
Eur Arch Otorhinolaryngol: 2024 Apr 20;
[PubMed:38642086] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Al-Attar M, Butterworth S, McKay L
A quantitative and qualitative analysis of patient group narratives suggests common biopsychosocial red flags of undiagnosed rare disease.
Orphanet J Rare Dis: 2024 Apr 19, 19(1);172
[PubMed:38641814] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Bezie MM, Asmare ZA, Asebe HA, Lombebo AA, Fentie BM, Asnake AA, Seifu BL
Factors associated with the use of antibiotics for children presenting with illnesses with fever and cough obtained from prescription and non-prescription sources: a cross-sectional study of data for 37 sub-Saharan African countries.
BMC Public Health: 2024 Apr 19, 24(1);1089
[PubMed:38641808] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Khaing EM, Senarat S, Jitrangsri K, Phaechamud T
Fluconazole-Loaded Ibuprofen In Situ Gel-Based Oral Spray for Oropharyngeal Candidiasis Treatment.
AAPS PharmSciTech: 2024 Apr 19, 25(5);89
[PubMed:38641711] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Fabrizio GM, Cardillo C, Egol A, Rozell JC, Schwarzkopf R, Aggarwal VK
Factors influencing patient selection of orthopaedic surgeons for total hip (THA) and total knee arthroplasty (TKA).
Arch Orthop Trauma Surg: 2024 Apr 19;
[PubMed:38641682] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Pourbaba R, Abdulkhani A, Rashidi A, Ashori A
Lignin nanoparticles as a highly efficient adsorbent for the removal of methylene blue from aqueous media.
Sci Rep: 2024 Apr 19, 14(1);9039
[PubMed:38641667] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Tang J, Zhang X, Yu J, Liu Z, Ding H
Contrast extravasation mimicking intracerebral and intraventricular hemorrhage after intravenous thrombolytic treatment of ischemic stroke: a case report.
BMC Neurol: 2024 Apr 19, 24(1);134
[PubMed:38641592] [WorldCat.org: ISSN ESSN ] [DOI] ( e)

Breiding PS, Gomollon AMT, Martini K, Nakhostin D, Alkadhi H, Euler A
Photon-Counting Detector CT for Kidney Stone Detection in Excretory Phase CT-Comparison Between Virtual Non-contrast and Virtual Non-iodine Reconstructions in a 3D Printed Kidney Phantom.
Acad Radiol: 2024 Apr 18;
[PubMed:38641450] [WorldCat.org: ISSN ESSN ] [DOI] ( a)

Macêdo LP, Araújo MGF, Guerra PLN, Marques MASS Júnior, Silva JLJ
Middle meningeal artery embolization contraindication when it originates from the ophthalmic artery.
Arq Neuropsiquiatr: 2024 Apr, 82(4);1-2
[PubMed:38641341] [WorldCat.org: ISSN ESSN ] [DOI] ( o) 

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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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