Extended Data Fig. 1: Staining of nuclear and cytosolic proteins using oligo-antibodies blocked with EcoSSB.

a) Sorting of cells expressing low, mid, or high levels of nuclear GFP that have been stained with an anti-GFP oligo-conjugated antibody. b) Quantitative PCR for the conjugated oligo from equal cell numbers of sorted populations in (a) for n = 2 technical replicates. c) Staining of K562 cells and mouse ESCs for endogenous GATA1 protein using an anti-GATA1 antibody linked to an 80 bp oligo with 3’-Cy5. d) Flow cytometry plot of HEK293T cells expressing cytosolic GFP and stained with an anti-GFP antibody linked to a 100 bp single stranded DNA oligo with 3’-Cy5 modification. e) Flow cytometry plot of nuclear GFP-expressing HEK293T cells with a GFP antibody linked to a Cy5-modified ssDNA oligo using the conditions indicated. “NEAT-seq”: NEAT-seq fixation, permeabilization, and staining conditions using oligo-antibodies pre-incubated with EcoSSB. “Dextran sulfate block”: NEAT-seq fixation and permeabilization conditions with inCITE-seq staining conditions (i.e with dextran sulfate blocking agent). “inCITE-seq”: inCITE-seq fixation, permeabilization, and staining conditions. Spearman correlation is shown.