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Items: 1 to 50 of 73

1.

Aging Human Hematopoietic Stem Cells Manifest Profound Epigenetic Reprogramming of Enhancers That May Predispose to Leukemia.

Adelman ER, Huang HT, Roisman A, Olsson A, Colaprico A, Qin T, Lindsley RC, Bejar R, Salomonis N, Grimes HL, Figueroa ME.

Cancer Discov. 2019 May 13. pii: CD-18-1474. doi: 10.1158/2159-8290.CD-18-1474. [Epub ahead of print]

PMID:
31085557
2.

Investigating Cell Fate Decisions with ICGS Analysis of Single Cells.

Salomonis N.

Methods Mol Biol. 2019;1975:251-275. doi: 10.1007/978-1-4939-9224-9_12.

PMID:
31062314
3.

Author Correction: Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Olsson A, Venkatasubramanian M, Chaudhri VK, Aronow BJ, Salomonis N, Singh H, Grimes HL.

Nature. 2019 May;569(7755):E3. doi: 10.1038/s41586-019-1107-5.

PMID:
31019298
4.

U2AF1 mutations induce oncogenic IRAK4 isoforms and activate innate immune pathways in myeloid malignancies.

Smith MA, Choudhary GS, Pellagatti A, Choi K, Bolanos LC, Bhagat TD, Gordon-Mitchell S, Von Ahrens D, Pradhan K, Steeples V, Kim S, Steidl U, Walter M, Fraser IDC, Kulkarni A, Salomonis N, Komurov K, Boultwood J, Verma A, Starczynowski DT.

Nat Cell Biol. 2019 May;21(5):640-650. doi: 10.1038/s41556-019-0314-5. Epub 2019 Apr 22.

PMID:
31011167
5.

The Pediatric Cell Atlas: Defining the Growth Phase of Human Development at Single-Cell Resolution.

Taylor DM, Aronow BJ, Tan K, Bernt K, Salomonis N, Greene CS, Frolova A, Henrickson SE, Wells A, Pei L, Jaiswal JK, Whitsett J, Hamilton KE, MacParland SA, Kelsen J, Heuckeroth RO, Potter SS, Vella LA, Terry NA, Ghanem LR, Kennedy BC, Helbig I, Sullivan KE, Castelo-Soccio L, Kreigstein A, Herse F, Nawijn MC, Koppelman GH, Haendel M, Harris NL, Rokita JL, Zhang Y, Regev A, Rozenblatt-Rosen O, Rood JE, Tickle TL, Vento-Tormo R, Alimohamed S, Lek M, Mar JC, Loomes KM, Barrett DM, Uapinyoying P, Beggs AH, Agrawal PB, Chen YW, Muir AB, Garmire LX, Snapper SB, Nazarian J, Seeholzer SH, Fazelinia H, Singh LN, Faryabi RB, Raman P, Dawany N, Xie HM, Devkota B, Diskin SJ, Anderson SA, Rappaport EF, Peranteau W, Wikenheiser-Brokamp KA, Teichmann S, Wallace D, Peng T, Ding YY, Kim MS, Xing Y, Kong SW, Bönnemann CG, Mandl KD, White PS.

Dev Cell. 2019 Apr 8;49(1):10-29. doi: 10.1016/j.devcel.2019.03.001. Epub 2019 Mar 28. Review.

6.

Maturation of heart valve cell populations during postnatal remodeling.

Hulin A, Hortells L, Gomez-Stallons MV, O'Donnell A, Chetal K, Adam M, Lancellotti P, Oury C, Potter SS, Salomonis N, Yutzey KE.

Development. 2019 Mar 12;146(12). pii: dev173047. doi: 10.1242/dev.173047.

PMID:
30796046
7.

Cxcr3-expressing leukocytes are necessary for neurofibroma formation in mice.

Fletcher JS, Wu J, Jessen WJ, Pundavela J, Miller JA, Dombi E, Kim MO, Rizvi TA, Chetal K, Salomonis N, Ratner N.

JCI Insight. 2019 Feb 7;4(3). pii: 98601. doi: 10.1172/jci.insight.98601. [Epub ahead of print]

8.

The Molecular Signature of Megakaryocyte-Erythroid Progenitors Reveals a Role for the Cell Cycle in Fate Specification.

Lu YC, Sanada C, Xavier-Ferrucio J, Wang L, Zhang PX, Grimes HL, Venkatasubramanian M, Chetal K, Aronow B, Salomonis N, Krause DS.

Cell Rep. 2018 Dec 11;25(11):3229. doi: 10.1016/j.celrep.2018.11.075. No abstract available.

9.

Defining human cardiac transcription factor hierarchies using integrated single-cell heterogeneity analysis.

Churko JM, Garg P, Treutlein B, Venkatasubramanian M, Wu H, Lee J, Wessells QN, Chen SY, Chen WY, Chetal K, Mantalas G, Neff N, Jabart E, Sharma A, Nolan GP, Salomonis N, Wu JC.

Nat Commun. 2018 Nov 21;9(1):4906. doi: 10.1038/s41467-018-07333-4.

10.

The Molecular Signature of Megakaryocyte-Erythroid Progenitors Reveals a Role for the Cell Cycle in Fate Specification.

Lu YC, Sanada C, Xavier-Ferrucio J, Wang L, Zhang PX, Grimes HL, Venkatasubramanian M, Chetal K, Aronow B, Salomonis N, Krause DS.

Cell Rep. 2018 Nov 20;25(8):2083-2093.e4. doi: 10.1016/j.celrep.2018.10.084. Erratum in: Cell Rep. 2018 Dec 11;25(11):3229.

11.

Defective transcription elongation in a subset of cancers confers immunotherapy resistance.

Modur V, Singh N, Mohanty V, Chung E, Muhammad B, Choi K, Chen X, Chetal K, Ratner N, Salomonis N, Weirauch MT, Waltz S, Huang G, Privette-Vinnedge L, Park JS, Janssen EM, Komurov K.

Nat Commun. 2018 Oct 23;9(1):4410. doi: 10.1038/s41467-018-06810-0.

12.

Rational targeting Cdc42 restrains Th2 cell differentiation and prevents allergic airway inflammation.

Yang JQ, Kalim KW, Li Y, Duan X, Nguyen P, Khurana Hershey GK, Kroner J, Ruff B, Zhang L, Salomonis N, Rochman M, Wen T, Zheng Y, Guo F.

Clin Exp Allergy. 2019 Jan;49(1):92-107. doi: 10.1111/cea.13293. Epub 2018 Nov 13.

PMID:
30307073
13.

Transcriptomic and epigenomic differences in human induced pluripotent stem cells generated from six reprogramming methods.

Churko JM, Lee J, Ameen M, Gu M, Venkatasubramanian M, Diecke S, Sallam K, Im H, Wang G, Gold JD, Salomonis N, Snyder MP, Wu JC.

Nat Biomed Eng. 2017 Oct;1(10):826-837. doi: 10.1038/s41551-017-0141-6. Epub 2017 Oct 3.

14.

SKI controls MDS-associated chronic TGF-β signaling, aberrant splicing, and stem cell fitness.

Muench DE, Ferchen K, Velu CS, Pradhan K, Chetal K, Chen X, Weirauch MT, Colmenares C, Verma A, Salomonis N, Grimes HL.

Blood. 2018 Nov 22;132(21):e24-e34. doi: 10.1182/blood-2018-06-860890. Epub 2018 Sep 24.

15.

The Human Cell Atlas bone marrow single-cell interactive web portal.

Hay SB, Ferchen K, Chetal K, Grimes HL, Salomonis N.

Exp Hematol. 2018 Dec;68:51-61. doi: 10.1016/j.exphem.2018.09.004. Epub 2018 Sep 21.

16.

Pathobiological Pseudohypoxia as a Putative Mechanism Underlying Myelodysplastic Syndromes.

Hayashi Y, Zhang Y, Yokota A, Yan X, Liu J, Choi K, Li B, Sashida G, Peng Y, Xu Z, Huang R, Zhang L, Freudiger GM, Wang J, Dong Y, Zhou Y, Wang J, Wu L, Bu J, Chen A, Zhao X, Sun X, Chetal K, Olsson A, Watanabe M, Romick-Rosendale LE, Harada H, Shih LY, Tse W, Bridges JP, Caligiuri MA, Huang T, Zheng Y, Witte DP, Wang QF, Qu CK, Salomonis N, Grimes HL, Nimer SD, Xiao Z, Huang G.

Cancer Discov. 2018 Nov;8(11):1438-1457. doi: 10.1158/2159-8290.CD-17-1203. Epub 2018 Aug 23.

PMID:
30139811
17.

miR-196b target screen reveals mechanisms maintaining leukemia stemness with therapeutic potential.

Meyer SE, Muench DE, Rogers AM, Newkold TJ, Orr E, O'Brien E, Perentesis JP, Doench JG, Lal A, Morris PJ, Thomas CJ, Lieberman J, McGlinn E, Aronow BJ, Salomonis N, Grimes HL.

J Exp Med. 2018 Aug 6;215(8):2115-2136. doi: 10.1084/jem.20171312. Epub 2018 Jul 11.

18.

PHIP as a therapeutic target for driver-negative subtypes of melanoma, breast, and lung cancer.

de Semir D, Bezrookove V, Nosrati M, Dar AA, Wu C, Shen J, Rieken C, Venkatasubramanian M, Miller JR 3rd, Desprez PY, McAllister S, Soroceanu L, Debs RJ, Salomonis N, Schadendorf D, Cleaver JE, Kashani-Sabet M.

Proc Natl Acad Sci U S A. 2018 Jun 19;115(25):E5766-E5775. doi: 10.1073/pnas.1804779115. Epub 2018 Jun 4.

19.

Transcription factors operate across disease loci, with EBNA2 implicated in autoimmunity.

Harley JB, Chen X, Pujato M, Miller D, Maddox A, Forney C, Magnusen AF, Lynch A, Chetal K, Yukawa M, Barski A, Salomonis N, Kaufman KM, Kottyan LC, Weirauch MT.

Nat Genet. 2018 May;50(5):699-707. doi: 10.1038/s41588-018-0102-3. Epub 2018 Apr 16.

20.

Synthetic Gene Network with Positive Feedback Loop Amplifies Cellulase Gene Expression in Neurospora crassa.

Matsu-Ura T, Dovzhenok AA, Coradetti ST, Subramanian KR, Meyer DR, Kwon JJ, Kim C, Salomonis N, Glass NL, Lim S, Hong CI.

ACS Synth Biol. 2018 May 18;7(5):1395-1405. doi: 10.1021/acssynbio.8b00011. Epub 2018 Apr 20.

PMID:
29625007
21.

IL-1 signaling mediates intrauterine inflammation and chorio-decidua neutrophil recruitment and activation.

Presicce P, Park CW, Senthamaraikannan P, Bhattacharyya S, Jackson C, Kong F, Rueda CM, DeFranco E, Miller LA, Hildeman DA, Salomonis N, Chougnet CA, Jobe AH, Kallapur SG.

JCI Insight. 2018 Mar 22;3(6). pii: 98306. doi: 10.1172/jci.insight.98306.

22.

TRAF6 Mediates Basal Activation of NF-κB Necessary for Hematopoietic Stem Cell Homeostasis.

Fang J, Muto T, Kleppe M, Bolanos LC, Hueneman KM, Walker CS, Sampson L, Wellendorf AM, Chetal K, Choi K, Salomonis N, Choi Y, Zheng Y, Cancelas JA, Levine RL, Starczynowski DT.

Cell Rep. 2018 Jan 30;22(5):1250-1262. doi: 10.1016/j.celrep.2018.01.013.

23.

Obesity alters the long-term fitness of the hematopoietic stem cell compartment through modulation of Gfi1 expression.

Lee JM, Govindarajah V, Goddard B, Hinge A, Muench DE, Filippi MD, Aronow B, Cancelas JA, Salomonis N, Grimes HL, Reynaud D.

J Exp Med. 2018 Feb 5;215(2):627-644. doi: 10.1084/jem.20170690. Epub 2017 Dec 27.

24.

Cross-platform single cell analysis of kidney development shows stromal cells express Gdnf.

Magella B, Adam M, Potter AS, Venkatasubramanian M, Chetal K, Hay SB, Salomonis N, Potter SS.

Dev Biol. 2018 Feb 1;434(1):36-47. doi: 10.1016/j.ydbio.2017.11.006. Epub 2017 Nov 26.

25.

Granulocyte-Monocyte Progenitors and Monocyte-Dendritic Cell Progenitors Independently Produce Functionally Distinct Monocytes.

Yáñez A, Coetzee SG, Olsson A, Muench DE, Berman BP, Hazelett DJ, Salomonis N, Grimes HL, Goodridge HS.

Immunity. 2017 Nov 21;47(5):890-902.e4. doi: 10.1016/j.immuni.2017.10.021.

26.

Integrative Analysis of Proteomics Data to Obtain Clinically Relevant Markers.

Salomonis N.

Methods Mol Biol. 2018;1788:89-111. doi: 10.1007/7651_2017_94.

PMID:
29147916
27.

An Unbiased High-Throughput Screen to Identify Novel Effectors That Impact on Cardiomyocyte Aggregate Levels.

McLendon PM, Davis G, Gulick J, Singh SR, Xu N, Salomonis N, Molkentin JD, Robbins J.

Circ Res. 2017 Sep 1;121(6):604-616. doi: 10.1161/CIRCRESAHA.117.310945. Epub 2017 Jun 27.

28.

Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives.

Daily K, Ho Sui SJ, Schriml LM, Dexheimer PJ, Salomonis N, Schroll R, Bush S, Keddache M, Mayhew C, Lotia S, Perumal TM, Dang K, Pantano L, Pico AR, Grassman E, Nordling D, Hide W, Hatzopoulos AK, Malik P, Cancelas JA, Lutzko C, Aronow BJ, Omberg L.

Sci Data. 2017 Mar 28;4:170030. doi: 10.1038/sdata.2017.30.

29.

KIF3A genetic variation is associated with pediatric asthma in the presence of eczema independent of allergic rhinitis.

Johansson E, Biagini Myers JM, Martin LJ, He H, Pilipenko V, Mersha T, Weirauch M, Salomonis N, Ryan P, LeMasters GK, Bernstein DI, Lockey J, Khurana Hershey GK.

J Allergy Clin Immunol. 2017 Aug;140(2):595-598.e5. doi: 10.1016/j.jaci.2017.02.003. Epub 2017 Feb 24. No abstract available.

30.

Molecular Characterization of Pediatric Restrictive Cardiomyopathy from Integrative Genomics.

Rindler TN, Hinton RB, Salomonis N, Ware SM.

Sci Rep. 2017 Jan 18;7:39276. doi: 10.1038/srep39276.

31.

Ubiquitination of hnRNPA1 by TRAF6 links chronic innate immune signaling with myelodysplasia.

Fang J, Bolanos LC, Choi K, Liu X, Christie S, Akunuru S, Kumar R, Wang D, Chen X, Greis KD, Stoilov P, Filippi MD, Maciejewski JP, Garcia-Manero G, Weirauch MT, Salomonis N, Geiger H, Zheng Y, Starczynowski DT.

Nat Immunol. 2017 Feb;18(2):236-245. doi: 10.1038/ni.3654. Epub 2016 Dec 26. Erratum in: Nat Immunol. 2017 Mar 22;18(4):474.

32.

Loaded, locked, drawn: kSORT validated for patient samples.

Roedder S, Salomonis N.

Nat Rev Nephrol. 2017 Jan;13(1):60. doi: 10.1038/nrneph.2016.160. Epub 2016 Nov 14. No abstract available.

PMID:
27840421
33.

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Olsson A, Venkatasubramanian M, Chaudhri VK, Aronow BJ, Salomonis N, Singh H, Grimes HL.

Nature. 2016 Sep 29;537(7622):698-702. doi: 10.1038/nature19348. Epub 2016 Aug 31. Erratum in: Nature. 2019 May;569(7755):E3.

34.

Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium.

Salomonis N, Dexheimer PJ, Omberg L, Schroll R, Bush S, Huo J, Schriml L, Ho Sui S, Keddache M, Mayhew C, Shanmukhappa SK, Wells J, Daily K, Hubler S, Wang Y, Zambidis E, Margolin A, Hide W, Hatzopoulos AK, Malik P, Cancelas JA, Aronow BJ, Lutzko C.

Stem Cell Reports. 2016 Jul 12;7(1):110-25. doi: 10.1016/j.stemcr.2016.05.006. Epub 2016 Jun 9.

35.

Intragraft Antiviral-Specific Gene Expression as a Distinctive Transcriptional Signature for Studies in Polyomavirus-Associated Nephropathy.

Sigdel TK, Bestard O, Salomonis N, Hsieh SC, Torras J, Naesens M, Tran TQ, Roedder S, Sarwal MM.

Transplantation. 2016 Oct;100(10):2062-70. doi: 10.1097/TP.0000000000001214.

36.

DNMT3A Haploinsufficiency Transforms FLT3ITD Myeloproliferative Disease into a Rapid, Spontaneous, and Fully Penetrant Acute Myeloid Leukemia.

Meyer SE, Qin T, Muench DE, Masuda K, Venkatasubramanian M, Orr E, Suarez L, Gore SD, Delwel R, Paietta E, Tallman MS, Fernandez H, Melnick A, Le Beau MM, Kogan S, Salomonis N, Figueroa ME, Grimes HL.

Cancer Discov. 2016 May;6(5):501-15. doi: 10.1158/2159-8290.CD-16-0008. Epub 2016 Mar 25.

37.

MBNL1-mediated regulation of differentiation RNAs promotes myofibroblast transformation and the fibrotic response.

Davis J, Salomonis N, Ghearing N, Lin SC, Kwong JQ, Mohan A, Swanson MS, Molkentin JD.

Nat Commun. 2015 Dec 16;6:10084. doi: 10.1038/ncomms10084.

38.

Systems biology evaluation of cell-free amniotic fluid transcriptome of term and preterm infants to detect fetal maturity.

Kamath-Rayne BD, Du Y, Hughes M, Wagner EA, Muglia LJ, DeFranco EA, Whitsett JA, Salomonis N, Xu Y.

BMC Med Genomics. 2015 Oct 22;8:67. doi: 10.1186/s12920-015-0138-5.

39.

Analyzing alternative splicing data of splice junction arrays from Parkinson patients' leukocytes before and after deep brain stimulation as compared with control donors.

Soreq L, Salomonis N, Israel Z, Bergman H, Soreq H.

Genom Data. 2015 Jul 16;5:340-3. doi: 10.1016/j.gdata.2015.07.014. eCollection 2015 Sep.

40.

Whole transcriptome RNA sequencing data from blood leukocytes derived from Parkinson's disease patients prior to and following deep brain stimulation treatment.

Soreq L, Salomonis N, Guffanti A, Bergman H, Israel Z, Soreq H.

Genom Data. 2014 Nov 22;3:57-60. doi: 10.1016/j.gdata.2014.11.009. eCollection 2015 Mar.

41.

Intrinsic Age-Dependent Changes and Cell-Cell Contacts Regulate Nephron Progenitor Lifespan.

Chen S, Brunskill EW, Potter SS, Dexheimer PJ, Salomonis N, Aronow BJ, Hong CI, Zhang T, Kopan R.

Dev Cell. 2015 Oct 12;35(1):49-62. doi: 10.1016/j.devcel.2015.09.009.

42.

Transcriptional Perturbations in Graft Rejection.

Vitalone MJ, Sigdel TK, Salomonis N, Sarwal RD, Hsieh SC, Sarwal MM.

Transplantation. 2015 Sep;99(9):1882-93. doi: 10.1097/TP.0000000000000809.

43.

Reactive oxygen species-mediated therapeutic response and resistance in glioblastoma.

Singer E, Judkins J, Salomonis N, Matlaf L, Soteropoulos P, McAllister S, Soroceanu L.

Cell Death Dis. 2015 Jan 15;6:e1601. doi: 10.1038/cddis.2014.566.

44.

The kSORT assay to detect renal transplant patients at high risk for acute rejection: results of the multicenter AART study.

Roedder S, Sigdel T, Salomonis N, Hsieh S, Dai H, Bestard O, Metes D, Zeevi A, Gritsch A, Cheeseman J, Macedo C, Peddy R, Medeiros M, Vincenti F, Asher N, Salvatierra O, Shapiro R, Kirk A, Reed EF, Sarwal MM.

PLoS Med. 2014 Nov 11;11(11):e1001759. doi: 10.1371/journal.pmed.1001759. eCollection 2014 Nov. Erratum in: PLoS Med. 2015 Feb;12(2):e1001790. Zeevi, Andrea [corrected to Zeevi, Adriana]; Reed, Elaine [corrected to Reed, Elaine F].

45.

Systems-level perspective of sudden infant death syndrome.

Salomonis N.

Pediatr Res. 2014 Sep;76(3):220-9. doi: 10.1038/pr.2014.90. Epub 2014 Jun 25. Review.

46.

Alternative splicing of MBD2 supports self-renewal in human pluripotent stem cells.

Lu Y, Loh YH, Li H, Cesana M, Ficarro SB, Parikh JR, Salomonis N, Toh CX, Andreadis ST, Luckey CJ, Collins JJ, Daley GQ, Marto JA.

Cell Stem Cell. 2014 Jul 3;15(1):92-101. doi: 10.1016/j.stem.2014.04.002. Epub 2014 May 8.

47.

Long non-coding RNA and alternative splicing modulations in Parkinson's leukocytes identified by RNA sequencing.

Soreq L, Guffanti A, Salomonis N, Simchovitz A, Israel Z, Bergman H, Soreq H.

PLoS Comput Biol. 2014 Mar 20;10(3):e1003517. doi: 10.1371/journal.pcbi.1003517. eCollection 2014 Mar. Erratum in: PLoS Comput Biol. 2014 May;10(5):e1003647.

48.

MAAMD: a workflow to standardize meta-analyses and comparison of affymetrix microarray data.

Gan Z, Wang J, Salomonis N, Stowe JC, Haddad GG, McCulloch AD, Altintas I, Zambon AC.

BMC Bioinformatics. 2014 Mar 12;15:69. doi: 10.1186/1471-2105-15-69.

49.

The identification of novel potential injury mechanisms and candidate biomarkers in renal allograft rejection by quantitative proteomics.

Sigdel TK, Salomonis N, Nicora CD, Ryu S, He J, Dinh V, Orton DJ, Moore RJ, Hsieh SC, Dai H, Thien-Vu M, Xiao W, Smith RD, Qian WJ, Camp DG 2nd, Sarwal MM.

Mol Cell Proteomics. 2014 Feb;13(2):621-31. doi: 10.1074/mcp.M113.030577. Epub 2013 Dec 12.

50.

A robust method to derive functional neural crest cells from human pluripotent stem cells.

Kreitzer FR, Salomonis N, Sheehan A, Huang M, Park JS, Spindler MJ, Lizarraga P, Weiss WA, So PL, Conklin BR.

Am J Stem Cells. 2013 Jun 30;2(2):119-31. Print 2013.

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