Bioinformatician (Metagenomics) at MDU-PHL. RNA-seq and Microbiome. Jakartan🇮🇩 in Melbourne🇦🇺
Melbourne, Victoria
Joined March 2012
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Muhamad Fachrul, PhD retweeted
Ancestral and environmental diversity shape the immune landscape in Indonesia biorxiv.org/content/10.64898… #biorxiv_genomic
Muhamad Fachrul, PhD retweeted
🎉 New paper! 🎉
How to estimate the carbon footprint of computations, in practice? With @minouye271, we discuss the different options in this Comment just out in @MethodsPrimers
Full text: rdcu.be/c5KPJ
And a lot of resources on green-algorithms.org 🌱
Muhamad Fachrul, PhD retweeted
Pleased to announce our latest work is now live at Nature Metabolism (@natmetabolism), in which we show polygenic risk scores (PRS) can be used to identify novel and causal proteins underlying disease risk.
nature.com/articles/s42255-0…
Thread 1/9
Muhamad Fachrul, PhD retweeted
Batch effects, freeze-thaw and more! @F_Azr shares the major sources of technical variations in 🐖 microbiome data and provides us walks us through some popular batch correction tools #MicroSeq2021
Muhamad Fachrul, PhD retweeted
Another great technical talk on technical variation in microbiome studies. Storage conditions and freeze-thawing important! @F_azr Big plug for this whole session! #MicroSeq2021
Muhamad Fachrul, PhD retweeted
We have an awesome line up for session 2.1 of #MicroSeq2021. Plenary speaker @schwessinger will open the day, followed by talks from @ClaireGorrie @FidaZulqarnain @ashporter_1 @KinzaAsif15 @monalisa_taouk @F_Azr
Muhamad Fachrul, PhD retweeted
some scientific posters come to life in the iposter format! J Warhol looks at microbes in film, including clips: Beer, wine, a robot butcher and the life of #Pasteur ! #worldmicrobeforum wmf2021-asm.ipostersessions.…
Muhamad Fachrul, PhD retweeted
Excellent work, Fachrul - Congrats! It is a pleasure to collaborating with you! Thanks also to @minouye271 @phylogeo and Agus Salim. Check out our new preprint: biorxiv.org/content/10.1101/…
Happy to announce that our preprint (my first one 😁) is finally out!
We assessed how unwanted technical variations affect microbiome data, and suggest a novel computational batch correction tool, RUV-III-NB.
@phylogeo @minouye271 @SJPamp & Agus Salim
biorxiv.org/content/10.1101/…
Muhamad Fachrul, PhD retweeted
Our NEW preprint! Check out how ‘Standard Sample Storage Conditions Impact on Inferred Microbiome Composition and Antimicrobial Resistance Patterns’ biorxiv.org/content/10.1101/…
Muhamad Fachrul, PhD retweeted
“a careful consideration of possible technical confounders is critical in the experimental design of microbiome studies to ensure accurate biological reading of microbial taxa of interest…”
An important preprint. Looking forward to reading in detail.
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Muhamad Fachrul, PhD retweeted
NB model based RUVIII for removing batch effects in microbiome data. Very nice to see
this work out! It's something I've been wishing for.
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Muhamad Fachrul, PhD retweeted
The carbon footprint of bioinformatics biorxiv.org/cgi/content/shor… #biorxiv_bioinfo
Muhamad Fachrul, PhD retweeted
I JUST CAME ACROSS THE MOST ADORABLE PEER-REVIEWED RESEARCH I HAVE EVER SEEN AND HAD TO MAKE A THREAD ABOUT IT HAVE AN AMAZING WEEKEND!!!!
Muhamad Fachrul, PhD retweeted
Extremely proud of our newly published work at @ARD_BMJ, where we generated and evaluated the performance of genomic risk scores for Juvenile Idiopathic Arthritis and its subtypes using three case/control cohorts (UK, US-based and Australia). ard.bmj.com/content/early/ 1/7
Muhamad Fachrul, PhD retweeted
Very excited to see our Green Algorithms preprint out! arxiv.org/pdf/2007.07610.pdf
Important project around the carbon impact of scientific computation, developed with @Jason_Grealey and @minouye271
A thread about the methodology and things we have learned along the way 🧵