This database provides mRNA abundances (in TPM) for all genes expressed in in early portion of the proximal tubule segment (S1) and cortical collecting duct, comparing values from sham-operated versus unilaterally nephrectomized mice.

Brief Method: Kidneys from 6-8 week-old WT male mice were perfused via the left ventricle with perfusion buffer (135 mM NaCl, 1 mM Na₂HPO₄, 1.2 mM Na₂SO₄, 1.2 mM MgSO₄, 5 mM KCl, 2 mM CaCl₂, 5.5 mM glucose, 5 mM HEPES, pH 7.4). Kidneys were then sliced and dissociated in perfusion buffer supplemented with collagenase B. Microdissection was performed under a stereomicroscope equipped with on-stage cooling. After washes in ice-cold PBS, the microdissected renal tubules were transferred to Trizol reagent for RNA extraction. cDNAs were synthesized by SMARTer V4 kit (Clontech) and cDNA libraries were constructed for paired-end sequencing and sequenced on Illumina Novaseq 6000 platform. Reads were mapped to mouse Ensembl Genome by STAR and transcript abundances were calculated in the units of transcripts per million (TPM) using RSEM (https://github.com/deweylab/RSEM).

Database created by Hiroaki Kikuchi, Kavee Limbutara and Mark A. Knepper

Citation: Early Signaling Events in Renal Compensatory Hypertrophy Revealed via Multi-Omics, PMID: xxxxx

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Renal tubule segment nomenclature