Niranjan Nagarajan

Associate Professor at the National University of Singapore & Senior Group Leader at the Genome Institute of Singapore

[Niranjan Nagarajan @NiranjanTW]

🌟 We finally have a brand new lab webpage, with blog-style articles describing our work, and exciting *open positions* in culturomics and metagenomics!

Please spread the word 🙏

https://t.co/VkxFLQMR4b
https://t.co/PZurTtejTr

[Niranjan Nagarajan @NiranjanTW]

@usepapertrace @trinobia Please email me - happy to clarify in detail there

[Niranjan Nagarajan @NiranjanTW]

We are organizing an intense 10-day summer school for new PhD/master's students in computational genomics & metagenomics at IISER Pune (July 18th-27th, 2026) - please do spread the word! https://t.co/HMDn7RWWnb

[Mile Sikic @msikic]

HERRO has been published in @Nature !!
https://t.co/zZFSuYvXq7

This achievement is a result of the great work by @domstanojevic, with contributions from @DehuiLin, @sergeynurk, and @PaolaFlorezdeS

We are entering the era of high-quality genome assemblies supported by AI. This is just the beginning.

[Niranjan Nagarajan @NiranjanTW]

Finally out in @naturemethods 🎉 Our work with @ywan_wan's lab shows that signal alignments from direct RNA @nanopore sequencing can reveal structural heterogeneity in RNA. Huge implications for RNA therapeutics!

Read all about it here: https://t.co/ZRGNwA9Dg7

[Aarthi Ravikrishnan @aarthiravikrish]

Excited to share our latest preprint on host–microbiome interactions in skin recovery following barrier disruption.
https://t.co/urPlPmeHzM
Human skin—the body’s largest organ—is constantly exposed to insults, yet how it recovers remains poorly understood. [1/8]
@NiranjanTW

[Chew Wei Leong @ChewWeiLeong]

Spatial perturb-seq: single-cell functional genomics within intact tissue architecture

Scale up your in situ CRISPR screens

Out in @NatureComms

[Niranjan Nagarajan @NiranjanTW]

Our article includes a checklist that we hope will be useful for the community to summarize the lines of evidence that have been provided in a study!

[Niranjan Nagarajan @NiranjanTW]

🎇Very excited to share our perspective piece calling for higher standards for reports on microbial detection in cancers! It was great to put this together with some of the leaders in the field including @StevenSalzberg1 @barjammar @rafalab @minghao_chia: https://t.co/jrOdV31lnI

[Niranjan Nagarajan @NiranjanTW]

A key message is the need for extensive controls (particularly sampling controls) which can be missing in some studies. We also highlight the need for orthogonal validation beyond just sequencing based detection: https://t.co/LX6aqIG3Sv

[Niranjan Nagarajan @NiranjanTW]

Are you still relying on quality values to do QC for genome sequencing data? What if there was an ultra-fast method that does not need quality values or alignments to genomes?

If this sounds interesting, check out our latest preprint w/ @zhenhao_gu:
https://t.co/w6UqsW8NzV

[Steven Salzberg 💙💛 @StevenSalzberg1]

I'm happy to share this free link to our new paper on the perils of trying to find microbes in human cancers, which appeared today in @NatureCancer. Co-authors include Nobel laureate @barjammar and ancient DNA expert Eske Willerslev: https://t.co/grpN52GrpQ

[Niranjan Nagarajan @NiranjanTW]

I forgot to mention here that we have Hi-C data for >100 gut metagenomes (thanks to @PhaseGenomics) which was crucial for assigning phages to their hosts!

[Niranjan Nagarajan @NiranjanTW]

Thrilled to share our labor of love over the last 5 years!
Leveraging long-read metagenomics we identified several previously unknown phage families that are highly prevalent in the human gut microbiome. Lead by @hanrong_chen [1/5] https://t.co/O2P0gw8NZO

[Niranjan Nagarajan @NiranjanTW]

Interestingly, many of the highly prevalent phage families have diverse Firmicutes hosts. They seem to frequently have temperate lifestyles, but are also spontaneously induced from their hosts! [4/5]

[Niranjan Nagarajan @NiranjanTW]

Say hello to Heliusvirales, Astravirales and Suryavirales! These are the first TEM images of members of these highly prevalent gut phage clades. Genomic characterization identified many interesting features that could explain their ability to infect diverse hosts. [5/5]

[jsgounot @jsgounot]

Our new paper on high-throughput isolation of Bifidobacterium just got published! A very nice adventure starting with the supervision of Hai, a talented intern, and a nice collab with our BSight expert @isaacyueyuan ! Stay tuned for more isolation and Bifido work! :)

[Niranjan Nagarajan @NiranjanTW]

High-throughput isolation of probiotic species from the gut microbiome!

https://t.co/Qb8IW798Ij

[Yue Yuan On (Isaac) @isaacyueyuan]

Thrilled to share our high-throughput Bifidobacterium isolation work!
Now out in https://t.co/JVN00fXHND

By integrating a single-cell dispenser into a culturomics workflow, we accelerated the isolation of individual bacterial cells, allowing robust strain-level resolution.