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Science Research Weekly
By Mark R WilliamsonScience
Science Research Weekly episodes
- Episode 44: Composite Hands and Mitochondrial Medicine
Get ready for composite 3D robot parts, spotting sugar-protein interactions, MIC for mitochondrial health, the R Journal Volume 15/2, avoiding alphabetical order in SAS, font changes in ggplot2, and an NSF grant for organoid systems. Science On.
References:
- Vision-controlled jetting for composite systems and robots
- Minutes-duration optical flares with supernova luminosities
- Fluorogenic Photo-Crosslinking of Glycan-Binding Protein Recognition Using a Fluorinated Azido-Coumarin Fucoside
- A drug-like molecule engages nuclear hormone receptor DAF-12/FXR to regulate mitophagy and extend lifespan
- The R Journal Volume 15/2
- Tip: Avoid alphabetical order for a categorical axis in a graph
- the difference between standard deviation and standard error
- How to Change Fonts in ggplot2 with Google Fonts
- A classifier that's very accurate (and deep)
- Data Analysis in R for Becoming a Bioscientist
- GitHub: TIL
- NSF: Biocomputing through EnGINeering Organoid Intelligence
R Packages:
- cookiemonster: Your Friendly Solution to Managing Browser Cookies
- PAICE: Phylogeographic Analysis of Island Colonization Events
- BayesGmed: Bayesian Causal Mediation Analysis using 'Stan'
7 min - Episode 43: Invasion of the Paleobionics!
Get ready for the new field of Paleobionics, molecular beasts, virus-attaching viruses, Jurassic planets, the 2023 Python Developers Survey, free DataCamp and 365 Data Science courses, and an NSF grant for designing synthetic cells beyond the bounds of evolution. Science On.
References:
- Soft robotics informs how an early echinoderm moved
- Distinctive microfossil supports early Paleoproterozoic rise in complex cellular organisation
- CHARGED “MOLECULAR BEASTS” THE BASIS FOR NEW COMPOUNDS
- Simultaneous entry as an adaptation to virulence in a novel satellite-helper system infecting Streptomyces species
- Oxygen bounty for Earth-like exoplanets: spectra of Earth through the Phanerozoic
- A big step for little particle accelerators
- Join the Python Developers Survey 2023: Share and learn about the community!
- 4 ways to display an inset that contains statistics on a SAS graph
- R Shiny Modules: How to Create Your First R Shiny Module
- How to Make a Data Science Portfolio Website (in Under 15 Minutes with R)
- 365 Data Science courses 100% free until November 20
- Data Camp Free Week
- NIH: Exploratory Clinical Trial Grants in Arthritis and Musculoskeletal and Skin Diseases
- NSF: Incorporating Human Behavior in Epidemiological Models
- NSF: Designing Synthetic Cells Beyond the Bounds of Evolution
R Packages:
- qeML: Quick and Easy Machine Learning Tools
- Spectran: Visual and Non-Visual Spectral Analysis of Light
- SillyPutty: Silly Putty Clustering
8 min - Episode 42: Life, the Near Infrared, and Everything
Get ready for the sunken remains of a planet, long-lived fish, near infrared detection on Uranus, R and Bioconductor updates, and NASA grants for life in space. Science On.
References:
- Moon-forming impactor as a source of Earth’s basal mantle anomalies
- Centenarian lifespans of three freshwater fish species in Arizona reveal the exceptional longevity of the buffalofishes (Ictiobus)
- Detection of the infrared aurora at Uranus with Keck-NIRSPEC
- [Rd] R 4.3.2 is released
- Bioconductor 3.18 Released
- Scanning QR codes in R
- Approaches to Calculating Number Needed to Treat (NNT) with Meta-Analysis
- How to Load SAS Files in R: Transitioning from SAS to R with Seamless Data Integration
- NOSI: Using Targeted Degradation of Protein and non-Protein Targets for the Development of Novel Anti-Infectives
- NOSI: Chronic Inflammation of the Oral Cavity - An Agent for Oral Mucosal Disease
- NASA: Established Program to Stimulate Competitive Research (EPSCoR)
- NASA: Transport Phenomena Research at the International Space Station to Benefit Life on Earth
- NASA: NSF/CASIS Collaboration on Tissue Engineering and Mechanobiology on the International Space Station (ISS) to Benefit Life on Earth
R Packages:
- portion: Extracting a Data Portion
- Rnanoflann: Extremely Fast Nearest Neighbor Search
- SurvSparse: Survival Analysis with Sparse Longitudinal Covariates
- tRigon: Toolbox for Integrative Pathomics Analysis
- defineOptions: Define and Parse Command Line Options
7 min - Episode 41: Things are Heating Up
Get ready for technosignatures from space, hypertension-reducing gut microbes, DNA nanomachines, molten Martian layers, a RegEx treasure hunt in R, and a radiation medical countermeasures grant. Science On.
References:
- A Simultaneous Dual-site Technosignature Search Using International LOFAR Stations
- Genetically engineered Lactobacillus paracasei rescues colonic angiotensin converting enzyme 2 (ACE2) and attenuates hypertension in female Ace2 knock out rats
- A rhythmically pulsing leaf-spring DNA-origami nanoengine that drives a passive follower
- Geophysical evidence for an enriched molten silicate layer above Mars’s core
- Weighted Trajectory Analysis and Application to Clinical Outcome Assessment
- mixed models with crossed random factors
- How to Create a Bubble Chart in R using ggplot2
- Unearthing Golden Nuggets of Data: A RegEx Treasure Hunt in R
- 3 (actually 4) neat R functions
- GitHub: MuJoCo
- NIH: Development of Candidate Radiation/Nuclear Medical Countermeasures
R Packages:
- envvar: Make Working with Environment Variables Easier and More Consistent
- multitool: Run Multiverse Style Analyses
- oeli: Utilities for Developing Data Science Software
- mvhtests: Multivariate Hypothesis Tests
- eglhmm: Extended Generalised Linear Hidden Markov Models
7 min - Episode 40: Brain Cell Atlas Shrugged
Get ready for polygenic risk score stumbling blocks, million-color-palette miniaturized DNA-based painting, the human brain cell atlas, rogue nanowaves, tiny particle accelerators, a Peanuts Halloween themed R release, the Power of Functional Programming in R, and a grant for developing models of oncoaging in cancer research. Science On.
References:
- Performance of polygenic risk scores in screening, prediction, and risk stratification: secondary analysis of data in the Polygenic Score Catalog
- A Canvas of Spatially Arranged DNA Strands that Can Produce 24-bit Color Depth
- VirB, a key transcriptional regulator of Shigella virulence, requires a CTP ligand for its regulatory activities
- Single-cell DNA methylation and 3D genome architecture in the human brain
- Rogue nanowaves: A route to film rupture
- Coherent nanophotonic electron accelerator
- Journal of Statistical Software, Volume 107
- R 4.3.2 scheduled for October 31
- Mastering Interaction Plots in R: Unveiling Hidden Relationships
- Mastering the Art of Drawing Circles in Plots with R
- Releasing collapse 2.0: Blazing Fast Joins, Reshaping, and Enhanced R
- Unlocking the Power of Functional Programming in R (Part 1)
- A brand new GAMLj
- NOSI: Research Projects to Develop Oncoaging Models for Cancer Research
R Packages:
- eglhmm: Extended Generalized Linear Hidden Markov Models
- maplegend: Legends for Maps
- ZIBR: A Zero-Inflated Beta Random Effect Model
- qrlabelr: Generate Machine- And Human-Readable Plot Labels for Experiments
- MicrobiomeSurv: Biomarker Validation for Microbiome-Based Survival Classification and Prediction
- tinycodet: A Few Functions to Help in your Coding Etiquette
11 min - Episode 39: Bulking Up on Microbial Dark Matter Proteins
Get ready for X-ray blasted 3D prints, a prehistoric “Pontus” tectonic plate, microbial dark matter protein families, function approximation in SAS, Bionic Reading in R, and a small business grant opportunity for genomic medicine. Science On.
References:
- Dendritic deformation modes in additive manufacturing revealed by operando x-ray diffraction
- Plate tectonic cross-roads: Reconstructing the Panthalassa-Neotethys Junction Region from Philippine Sea Plate and Australasian oceans and orogens
- Unraveling the functional dark matter through global metagenomics
- GMM Estimators for Binary Spatial Models in R
- Approximate functions by using Taylor series and rational functions
- Horizontal Legends in Base R
- Little useless-useful R functions – Function for faster reading with Bionic Reading
- GitHub: Paperless-ngx
- NHGRI: Advancing Genomic Medicine Research through Small Businesses
- NSF: Cognitive Neuroscience
- MSA: Kenneth Downing Postdoctoral Scholarship
R Packages:
- MicrobiomeSurv: Biomarker Validation for Microbiome-Based Survival Classification and Prediction
- samplesizeestimator: Calculate Sample Size for Various Scenarios
- galamm: Generalized Additive Latent and Mixed Models
- wikkitidy: Tidy Analysis of Wikipedia
- mineSweepR: Mine Sweeper Game
6 min - Episode 38: Dancing DNA in the Detection Field
Get ready for highly sensitive dancing DNA detection, rare-earth munching bacteria, Python 3.12.0, the Top 9 R packages that every Data Scientist must know, and the Cancer Research Education Grants Program. Science On.
References:
- A New Tissue-Agnostic Microfluidic Device to model physiology and disease: The Lattice Platform
- Nanomechanoelectrical approach to highly sensitive and specific label-free DNA detection
- Genomic characterization of rare earth binding by Shewanella oneidensis
- piRNA processing by a trimeric Schlafen-domain nuclease
- A Candida auris–specific adhesin, Scf1, governs surface association, colonization, and virulence
- Use design matrices to analysis subgroups in SAS IML
- Python 3.12.0 (final) now available
- Top 9 R packages (that every Data Scientist must know)
- Creating typewriter-styled maps in {ggplot2}
- Plotting Decision Trees in R with rpart and rpart.plot
- NIH: Cancer Research Education Grants Program - Courses for Skills Development
- NIH: Cancer Research Education Grants Program - Research Experiences
- NIH: Cancer Research Education Grants Program - Curriculum or Methods Development
- NSF: Trailblazer Engineering Impact Award
- ACSM: Research & Program Grants
R Packages:
- conformalpvalue: Computes Conformal p-Values
- speccurvieR: Easy, Fast, and Pretty Specification Curve Analysis
- syntenyPlotteR: Genome Synteny Visualization
- h3r: Hexagonal Hierarchical Geospatial Indexing System
8 min - Episode 37: Code with me, I’m from the Future
Get ready for falling antimatter, water flea waste treatment, super solar distillation, R Journal volume 15/1, future programming languages, how NOT to format time series data, and an Ideas Lab grant for Personalized Engineering Learning. Science On.
References:
- Observation of the effect of gravity on the motion of antimatter
- Harnessing water fleas for water reclamation: A nature-based tertiary wastewater treatment technology
- Delivery of Nematicides Using TMGMV-Derived Spherical Nanoparticles
- A split and inducible adenine base editor for precise in vivo base editing
- Extreme salt-resisting multistage solar distillation with thermohaline convection
- Journal of Statistical Software: Volume 107
- R Journal: Volume 15/1
- 13+ Future Programming Languages 2025-2030 Coders Must Know
- 100+ CGR Micro Project Topics: Unleashing Your Creativity
- How NOT to format time series data
- Mastering Data Visualization with ggplot2: A Guide to Using facet_grid()
- GitHub: Omnivore
- NIAID: Fc-Dependent Mechanisms of Antibody-Mediated Killing
- NSF: Ideas Lab: Personalized Engineering Learning
R Packages:
- Colossus: Risk Model Regression and Analysis with Complex Non-Linear Models
- cloneRate: Estimate Growth Rates from Phylogenetic Trees
- statConfR: Models of Decision Confidence and Metacognition
- chem.databases: Collection of 3 Chemical Databases from Public Sources
9 min - Episode 36: Bone Lost in Space
Get ready for bone loss mitigation in space mice, a northern paleo-ocean on Mars, a new deep-sea virus, graphs within graphs in SAS, types of statistical contrasts, and a pediatrics grant from the March of Dimes. Science On.
References:
- Bisphosphonate conjugation enhances the bone-specificity of NELL-1-based systemic therapy for spaceflight-induced bone loss in mice
- Longitudinal genomic surveillance of carriage and transmission of Clostridioides difficile in an intensive care unit
- Gravity aspects for Mars
- Identification and genomic analysis of temperate Halomonas bacteriophage vB_HmeY_H4907 from the surface sediment of the Mariana Trench at a depth of 8,900 m
- Use PROC SGPLOT to embed a graph inside another graph
- six common types of statistical contrasts
- An Educational Stroll With Stan – Part 1
- Histograms with Two or More Variables in R
- MD: Pediatric Scientist Development Program
R Packages:
- LearnSL: Learn Supervised Classification Methods Through Examples and Code
- clustlearn: Learn Clustering Techniques Through Examples and Code
6 min - Episode 35: Wi-Fi Reading and Microflying
Get ready for atmospheric water harvesting, entering the lipidome, Wi-Fi reading through walls, electric-producing bacteria, shape-shifting microflyer origami robots, the return of the Journal of Statistical Software, top picks for posit::conf 2023, the TidyTuesday GitHub repository, and a grant to establish a Center for Exposome Research Coordination. Science On.
References:
- Molecularly confined hydration in thermoresponsive hydrogels for efficient atmospheric water harvesting
- Dynamic lipidome alterations associated with human health, disease and ageing
- Analysis of Keller Cones for RF Imaging
- Video of RF Imaging
- An interfacial solar evaporation enabled autonomous double-layered vertical floating solar sea farm
- Extracellular electron transfer pathways to enhance the electroactivity of modified Escherichia coli
- Biofilm formation of Pseudomonas aeruginosa in spaceflight is minimized on lubricant impregnated surfaces
- Senolytic therapy in mild Alzheimer’s disease: a phase 1 feasibility trial
- Genetic manipulation of Patescibacteria provides mechanistic insights into microbial dark matter and the epibiotic lifestyle
- Solar-powered shape-changing origami microfliers
- Video of Origami microfliers
- Journal of Statistical Software: Volume 107
- Multi-threading on JuliaHub
- The SG annotation macros in SAS
- Appsilon’s Top 10 Sessions to Check Out at posit::conf 2023
- Creating Population Pyramid Plots in R with ggplot2
- Plotting SVM Decision Boundaries with e1071 in R
- GitHub: TidyTuesday
- NIH: Center for Exposome Research Coordination to Accelerate Precision Environmental Health
- AAN: Clinical Research Training Scholarship in Parkinson's Disease
R Packages:
- DebiasInfer: Efficient Inference on High-Dimensional Linear Model with Missing Outcomes
- biosampleR: Biodiversity Index Calculation and Bootstrap Confidence Interval Estimation
- CohortAlgebra: Use of Interval Algebra to Create New Cohort(s) from Existing Cohorts
- moodlequizR: Easily Create Fully Randomized 'Moodle' Test Questions
- epiCleanr: A Tidy Solution for Epidemiological Data
12 min
About Science Research Weekly
From the publisher's feed
A weekly overview of helpful scientific research topics and the successor of the podcast Statistics Weekly. Every week, I will cover 3 topic areas: Research Articles, Research Tools, and Research…
Funding. Science On.