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Items: 14

1.

Paternally inherited cis-regulatory structural variants are associated with autism.

Brandler WM, Antaki D, Gujral M, Kleiber ML, Whitney J, Maile MS, Hong O, Chapman TR, Tan S, Tandon P, Pang T, Tang SC, Vaux KK, Yang Y, Harrington E, Juul S, Turner DJ, Thiruvahindrapuram B, Kaur G, Wang Z, Kingsmore SF, Gleeson JG, Bisson D, Kakaradov B, Telenti A, Venter JC, Corominas R, Toma C, Cormand B, Rueda I, Guijarro S, Messer KS, Nievergelt CM, Arranz MJ, Courchesne E, Pierce K, Muotri AR, Iakoucheva LM, Hervas A, Scherer SW, Corsello C, Sebat J.

Science. 2018 Apr 20;360(6386):327-331. doi: 10.1126/science.aan2261.

2.

Profiling of Short-Tandem-Repeat Disease Alleles in 12,632 Human Whole Genomes.

Tang H, Kirkness EF, Lippert C, Biggs WH, Fabani M, Guzman E, Ramakrishnan S, Lavrenko V, Kakaradov B, Hou C, Hicks B, Heckerman D, Och FJ, Caskey CT, Venter JC, Telenti A.

Am J Hum Genet. 2017 Nov 2;101(5):700-715. doi: 10.1016/j.ajhg.2017.09.013.

3.

Single-Cell Alternative Splicing Analysis with Expedition Reveals Splicing Dynamics during Neuron Differentiation.

Song Y, Botvinnik OB, Lovci MT, Kakaradov B, Liu P, Xu JL, Yeo GW.

Mol Cell. 2017 Jul 6;67(1):148-161.e5. doi: 10.1016/j.molcel.2017.06.003. Epub 2017 Jun 29.

4.

Early transcriptional and epigenetic regulation of CD8+ T cell differentiation revealed by single-cell RNA sequencing.

Kakaradov B, Arsenio J, Widjaja CE, He Z, Aigner S, Metz PJ, Yu B, Wehrens EJ, Lopez J, Kim SH, Zuniga EI, Goldrath AW, Chang JT, Yeo GW.

Nat Immunol. 2017 Apr;18(4):422-432. doi: 10.1038/ni.3688. Epub 2017 Feb 20.

5.

Predicting the functional states of human iPSC-derived neurons with single-cell RNA-seq and electrophysiology.

Bardy C, van den Hurk M, Kakaradov B, Erwin JA, Jaeger BN, Hernandez RV, Eames T, Paucar AA, Gorris M, Marchand C, Jappelli R, Barron J, Bryant AK, Kellogg M, Lasken RS, Rutten BP, Steinbusch HW, Yeo GW, Gage FH.

Mol Psychiatry. 2016 Nov;21(11):1573-1588. doi: 10.1038/mp.2016.158. Epub 2016 Oct 4.

6.

Reply to: "CD8(+) T cell diversification by asymmetric cell division".

Arsenio J, Kakaradov B, Metz PJ, Yeo GW, Chang JT.

Nat Immunol. 2015 Sep;16(9):893-4. doi: 10.1038/ni.3234. No abstract available.

7.

Regulation of asymmetric division and CD8+ T lymphocyte fate specification by protein kinase Cζ and protein kinase Cλ/ι.

Metz PJ, Arsenio J, Kakaradov B, Kim SH, Remedios KA, Oakley K, Akimoto K, Ohno S, Yeo GW, Chang JT.

J Immunol. 2015 Mar 1;194(5):2249-59. doi: 10.4049/jimmunol.1401652. Epub 2015 Jan 23.

8.

SeeSite: Characterizing Relationships between Splice Junctions and Splicing Enhancers.

Lo C, Kakaradov B, Lokshtanov D, Boucher C.

IEEE/ACM Trans Comput Biol Bioinform. 2014 Jul-Aug;11(4):648-56. doi: 10.1109/TCBB.2014.2304294.

PMID:
26356335
9.

Early specification of CD8+ T lymphocyte fates during adaptive immunity revealed by single-cell gene-expression analyses.

Arsenio J, Kakaradov B, Metz PJ, Kim SH, Yeo GW, Chang JT.

Nat Immunol. 2014 Apr;15(4):365-372. doi: 10.1038/ni.2842. Epub 2014 Mar 2.

10.

The dsRBP and inactive editor ADR-1 utilizes dsRNA binding to regulate A-to-I RNA editing across the C. elegans transcriptome.

Washburn MC, Kakaradov B, Sundararaman B, Wheeler E, Hoon S, Yeo GW, Hundley HA.

Cell Rep. 2014 Feb 27;6(4):599-607. doi: 10.1016/j.celrep.2014.01.011. Epub 2014 Feb 6.

11.

Challenges in estimating percent inclusion of alternatively spliced junctions from RNA-seq data.

Kakaradov B, Xiong HY, Lee LJ, Jojic N, Frey BJ.

BMC Bioinformatics. 2012 Apr 19;13 Suppl 6:S11. doi: 10.1186/1471-2105-13-S6-S11.

12.

Error correction of high-throughput sequencing datasets with non-uniform coverage.

Medvedev P, Scott E, Kakaradov B, Pevzner P.

Bioinformatics. 2011 Jul 1;27(13):i137-41. doi: 10.1093/bioinformatics/btr208.

13.

A complex-based reconstruction of the Saccharomyces cerevisiae interactome.

Wang H, Kakaradov B, Collins SR, Karotki L, Fiedler D, Shales M, Shokat KM, Walther TC, Krogan NJ, Koller D.

Mol Cell Proteomics. 2009 Jun;8(6):1361-81. doi: 10.1074/mcp.M800490-MCP200. Epub 2009 Jan 27.

14.

Chemoselective covalent coupling of oligonucleotide probes to self-assembled monolayers.

Devaraj NK, Miller GP, Ebina W, Kakaradov B, Collman JP, Kool ET, Chidsey CE.

J Am Chem Soc. 2005 Jun 22;127(24):8600-1.

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