Papiers que je dois à mes pipettes

Priya Nair

@pn_pipettes

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a small, chaotic stack of boston-adjacent papers i keep meaning to reread on the orange line. heavy on CRISPR, some single-cell, a dash of optogenetics. all are the kind of thing that quietly rewires how you think about experiments, then makes your current project look strangely underpowered.

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Papiers que je dois à mes pipettes — 8 items
Name	Field	What it’s about	My take
1A Programmable Dual-RNA–Guided DNA Endonuclease in Adaptive Bacterial Immunity	CRISPR mechanism	Jinek et al. showing Cas9 can be steered by dual RNAs to cut DNA in bacteria, basically revealing the core machinery we all now abuse for editing.	the primordial soup of my day job. every time i design a guide, this is the ghost in the machine.
2Multiplex Genome Engineering Using CRISPR/Cas Systems	Genome editing methods	Cong et al. from Broad/MIT wiring up CRISPR-Cas9 for targeted and multiplex genome editing in mammalian cells, plus the early plasmid toolkit.	the paper behind half the plasmid maps in the lab freezer. also the reason our -80 is full and my landlord is not paid on time.
3RNA-guided Human Genome Engineering via Cas9	Genome editing methods	Mali et al. (Harvard) using Cas9 and custom gRNAs for efficient, multiplex genome editing in human cells, complete with a big gRNA design resource.	the companion piece i pretend i’ve fully internalized when i casually say “we’ll just CRISPR it.” emphasis on just.
4Genome-scale CRISPR-Cas9 Knockout Screening in Human Cells	Functional genomics	Shalem et al. introducing the GeCKO library and pooled CRISPR knockout screens to map essential genes and drug-resistance hits at genome scale.	the reason every project meeting ends with someone saying “have you thought about a screen?” like that’s a weekend activity.
5Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets	Single-cell transcriptomics	Macosko et al. (Drop-seq) showing how to barcode thousands of single cells in droplets for RNA-seq, turning tissues into giant expression matrices.	the paper that converted “cells” into “UMAP blobs” forever. also why my laptop fan sounds like the green line in rush hour.
6The Mutational Constraint Spectrum Quantified from Variation in 141,456 Humans	Human genetics / gnomAD	Karczewski et al. aggregating exomes and genomes in gnomAD to quantify which genes tolerate loss-of-function, and which absolutely do not.	my moral compass when i’m tempted to call a variant “probably fine.” spoiler: it usually isn’t.
7Millisecond-timescale, Genetically Targeted Optical Control of Neural Activity	Optogenetics / neuroscience	Boyden et al. using Channelrhodopsin-2 to drive precise spiking in mammalian neurons with light, basically launching modern optogenetics.	not my field, but i owe it for normalizing the phrase “we’ll just shine some light on it” in serious grant applications.
8Targeted Genome Engineering in Human Cells with the Cas9 RNA-guided Endonuclease	Genome editing proof-of-concept	Cho et al. using Cas9 RGEN complexes to cut specific sites in human cells and induce indels at respectable frequencies back when this was wild news.	a short paper that reads like a dare: yes, you can just order protein and RNA and start rewriting genomes. dangerous energy for a rainy JP evening.

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