Reza Kalhor

Optimizing the efficiency of assisted reproduction procedures in the common marmoset (Callithrix jacchus) improved IVF outcomes

This study optimizes IVF procedures in common marmosets by identifying factors like progesterone levels and stimulation duration that improve embryo development and implantation rates.

Analysis of sperm processing and cryopreservation procedures in the common marmoset (Callithrix jacchus) to reduce fragmentation and maximize total and progressive motility

The paper optimizes sperm processing and cryopreservation methods in common marmosets to improve motility and reduce DNA fragmentation for IVF applications.

Genomic repeats for single-cell molecular recording

This paper introduces RGRs, genomic repeats that enable high-resolution single-cell molecular recording, validated in live mice for long-term gene activity tracking.

Deconvolving organogenesis in space and time via spatial transcriptomics in thick tissues

The paper develops a spatial transcriptomic method to analyze hair follicle development in 3D, revealing molecular stages and structural changes over time.

Identifying a gene signature of metastatic potential by linking pre-metastatic state to ultimate metastatic fate

This study identifies a gene signature of metastatic potential by linking pre-metastatic states to metastatic outcomes in mouse pancreatic cancer and validates its relevance in human tumors.

Temporal recording of mammalian development and precancer

The paper introduces NSC-seq, a CRISPR-based molecular clock to track temporal and clonal events in development and precancer, revealing polyancestral initiation in colonic precancers.

Post-translational digital data encoding into the genomes of mammalian cell populations

This paper demonstrates a system that encodes biosignals into genomic DNA of mammalian cells using TdT and CRISPR-Cas9, achieving 91% accuracy in encoding the message 'HELLO WORLD'.

Quantitative fate mapping: Reconstructing progenitor field dynamics via retrospective lineage barcoding

This paper introduces quantitative fate mapping to reconstruct progenitor field dynamics using lineage barcodes and validates it with simulations and experiments.

Recording Temporal Signals with Minutes Resolution Using Enzymatic DNA Synthesis

This paper develops a DNA-based recording system using TdT to encode environmental signals with minutes resolution.

Recording temporal data onto DNA with minutes resolution

This paper introduces TURTLES, a DNA-based method to record temporal environmental signals with high resolution, achieving 2-minute accuracy over 60 minutes.

Enzymatic DNA synthesis for digital information storage

This paper develops an enzymatic DNA synthesis method for digital information storage, demonstrating error-tolerant retrieval of 144 bits and validating kilobyte-scale storage with 1 bit per nucleotide.

A homing CRISPR mouse resource for barcoding and lineage tracing

The paper introduces a mouse line with heritable homing guide RNAs for in vivo barcoding and lineage tracing in mammals.

Rapidly evolving homing CRISPR barcodes

This paper introduces a homing CRISPR system that generates evolving DNA barcodes in living cells, enabling lineage tracking and molecular recording.

Conneconomics: The Economics of Dense, Large-Scale, High-Resolution Neural Connectomics

The paper evaluates the cost and performance of different connectomics strategies for whole mouse brain mapping, identifying potential cost reductions with emerging technologies.