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Items: 1 to 20 of 70

1.

Quanti.us: a tool for rapid, flexible, crowd-based annotation of images.

Hughes AJ, Mornin JD, Biswas SK, Beck LE, Bauer DP, Raj A, Bianco S, Gartner ZJ.

Nat Methods. 2018 Aug;15(8):587-590. doi: 10.1038/s41592-018-0069-0. Epub 2018 Jul 31.

PMID:
30065368
2.

IL-6 Mediates Cross-Talk between Tumor Cells and Activated Fibroblasts in the Tumor Microenvironment.

Karakasheva TA, Lin EW, Tang Q, Qiao E, Waldron TJ, Soni M, Klein-Szanto AJ, Sahu V, Basu D, Ohashi S, Baba K, Giaccone ZT, Walker SR, Frank DA, Wileyto EP, Long Q, Dunagin MC, Raj A, Diehl JA, Wong KK, Bass AJ, Rustgi AK.

Cancer Res. 2018 Sep 1;78(17):4957-4970. doi: 10.1158/0008-5472.CAN-17-2268. Epub 2018 Jul 5.

PMID:
29976575
3.

Gene expression distribution deconvolution in single-cell RNA sequencing.

Wang J, Huang M, Torre E, Dueck H, Shaffer S, Murray J, Raj A, Li M, Zhang NR.

Proc Natl Acad Sci U S A. 2018 Jul 10;115(28):E6437-E6446. doi: 10.1073/pnas.1721085115. Epub 2018 Jun 26.

4.

SAVER: gene expression recovery for single-cell RNA sequencing.

Huang M, Wang J, Torre E, Dueck H, Shaffer S, Bonasio R, Murray JI, Raj A, Li M, Zhang NR.

Nat Methods. 2018 Jul;15(7):539-542. doi: 10.1038/s41592-018-0033-z. Epub 2018 Jun 25.

PMID:
29941873
5.

Corrigendum: Rare cell variability and drug-induced reprogramming as a mode of cancer drug resistance.

Shaffer SM, Dunagin MC, Torborg SR, Torre EA, Emert B, Krepler C, Beqiri M, Sproesser K, Brafford PA, Xiao M, Eggan E, Anastopoulos IN, Vargas-Garcia CA, Singh A, Nathanson KL, Herlyn M, Raj A.

Nature. 2018 Mar 8;555(7695):274. doi: 10.1038/nature25162. Epub 2018 Feb 21.

PMID:
29466340
6.

Rare Cell Detection by Single-Cell RNA Sequencing as Guided by Single-Molecule RNA FISH.

Torre E, Dueck H, Shaffer S, Gospocic J, Gupte R, Bonasio R, Kim J, Murray J, Raj A.

Cell Syst. 2018 Feb 28;6(2):171-179.e5. doi: 10.1016/j.cels.2018.01.014. Epub 2018 Feb 14.

PMID:
29454938
7.

Intercellular mRNA trafficking via membrane nanotube-like extensions in mammalian cells.

Haimovich G, Ecker CM, Dunagin MC, Eggan E, Raj A, Gerst JE, Singer RH.

Proc Natl Acad Sci U S A. 2017 Nov 14;114(46):E9873-E9882. doi: 10.1073/pnas.1706365114. Epub 2017 Oct 24.

8.

Replication defective viral genomes exploit a cellular pro-survival mechanism to establish paramyxovirus persistence.

Xu J, Sun Y, Li Y, Ruthel G, Weiss SR, Raj A, Beiting D, López CB.

Nat Commun. 2017 Oct 6;8(1):799. doi: 10.1038/s41467-017-00909-6.

9.

Group 1 Innate Lymphoid Cell Lineage Identity Is Determined by a cis-Regulatory Element Marked by a Long Non-coding RNA.

Mowel WK, McCright SJ, Kotzin JJ, Collet MA, Uyar A, Chen X, DeLaney A, Spencer SP, Virtue AT, Yang E, Villarino A, Kurachi M, Dunagin MC, Pritchard GH, Stein J, Hughes C, Fonseca-Pereira D, Veiga-Fernandes H, Raj A, Kambayashi T, Brodsky IE, O'Shea JJ, Wherry EJ, Goff LA, Rinn JL, Williams A, Flavell RA, Henao-Mejia J.

Immunity. 2017 Sep 19;47(3):435-449.e8. doi: 10.1016/j.immuni.2017.08.012.

10.

Tumor-associated B-cells induce tumor heterogeneity and therapy resistance.

Somasundaram R, Zhang G, Fukunaga-Kalabis M, Perego M, Krepler C, Xu X, Wagner C, Hristova D, Zhang J, Tian T, Wei Z, Liu Q, Garg K, Griss J, Hards R, Maurer M, Hafner C, Mayerhöfer M, Karanikas G, Jalili A, Bauer-Pohl V, Weihsengruber F, Rappersberger K, Koller J, Lang R, Hudgens C, Chen G, Tetzlaff M, Wu L, Frederick DT, Scolyer RA, Long GV, Damle M, Ellingsworth C, Grinman L, Choi H, Gavin BJ, Dunagin M, Raj A, Scholler N, Gross L, Beqiri M, Bennett K, Watson I, Schaider H, Davies MA, Wargo J, Czerniecki BJ, Schuchter L, Herlyn D, Flaherty K, Herlyn M, Wagner SN.

Nat Commun. 2017 Sep 19;8(1):607. doi: 10.1038/s41467-017-00452-4.

11.

Mitotic transcription and waves of gene reactivation during mitotic exit.

Palozola KC, Donahue G, Liu H, Grant GR, Becker JS, Cote A, Yu H, Raj A, Zaret KS.

Science. 2017 Oct 6;358(6359):119-122. doi: 10.1126/science.aal4671. Epub 2017 Sep 14.

12.

A magnetic micropore chip for rapid (<1 hour) unbiased circulating tumor cell isolation and in situ RNA analysis.

Ko J, Bhagwat N, Yee SS, Black T, Redlinger C, Romeo J, O'Hara M, Raj A, Carpenter EL, Stanger BZ, Issadore D.

Lab Chip. 2017 Sep 12;17(18):3086-3096. doi: 10.1039/c7lc00703e.

13.

Rare cell variability and drug-induced reprogramming as a mode of cancer drug resistance.

Shaffer SM, Dunagin MC, Torborg SR, Torre EA, Emert B, Krepler C, Beqiri M, Sproesser K, Brafford PA, Xiao M, Eggan E, Anastopoulos IN, Vargas-Garcia CA, Singh A, Nathanson KL, Herlyn M, Raj A.

Nature. 2017 Jun 15;546(7658):431-435. doi: 10.1038/nature22794. Epub 2017 Jun 7. Erratum in: Nature. 2018 Feb 21;:.

14.

Visualizing adenosine-to-inosine RNA editing in single mammalian cells.

Mellis IA, Gupte R, Raj A, Rouhanifard SH.

Nat Methods. 2017 Aug;14(8):801-804. doi: 10.1038/nmeth.4332. Epub 2017 Jun 12.

15.

The BET Protein BRD2 Cooperates with CTCF to Enforce Transcriptional and Architectural Boundaries.

Hsu SC, Gilgenast TG, Bartman CR, Edwards CR, Stonestrom AJ, Huang P, Emerson DJ, Evans P, Werner MT, Keller CA, Giardine B, Hardison RC, Raj A, Phillips-Cremins JE, Blobel GA.

Mol Cell. 2017 Apr 6;66(1):102-116.e7. doi: 10.1016/j.molcel.2017.02.027.

16.

Neutrophils and Ly6Chi monocytes collaborate in generating an optimal cytokine response that protects against pulmonary Legionella pneumophila infection.

Casson CN, Doerner JL, Copenhaver AM, Ramirez J, Holmgren AM, Boyer MA, Siddarthan IJ, Rouhanifard SH, Raj A, Shin S.

PLoS Pathog. 2017 Apr 6;13(4):e1006309. doi: 10.1371/journal.ppat.1006309. eCollection 2017 Apr.

17.

FISHing Out the Details of CRISPR Genome Tracks.

Coté AJ, Raj A.

Biophys J. 2017 Mar 28;112(6):1045-1046. doi: 10.1016/j.bpj.2017.02.006. No abstract available.

18.

Systems biology: Molecular memoirs of a cellular family.

Beck LE, Raj A.

Nature. 2017 Jan 5;541(7635):38-39. doi: 10.1038/nature21101. Epub 2016 Dec 14. No abstract available.

PMID:
27974796
19.

The long non-coding RNA Morrbid regulates Bim and short-lived myeloid cell lifespan.

Kotzin JJ, Spencer SP, McCright SJ, Kumar DBU, Collet MA, Mowel WK, Elliott EN, Uyar A, Makiya MA, Dunagin MC, Harman CCD, Virtue AT, Zhu S, Bailis W, Stein J, Hughes C, Raj A, Wherry EJ, Goff LA, Klion AD, Rinn JL, Williams A, Flavell RA, Henao-Mejia J.

Nature. 2016 Sep 8;537(7619):239-243. doi: 10.1038/nature19346. Epub 2016 Aug 15.

20.

Transcriptional Bursting Explains the Noise-Versus-Mean Relationship in mRNA and Protein Levels.

Dar RD, Shaffer SM, Singh A, Razooky BS, Simpson ML, Raj A, Weinberger LS.

PLoS One. 2016 Jul 28;11(7):e0158298. doi: 10.1371/journal.pone.0158298. eCollection 2016.

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