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Reply to Austin, Thomas; Gilbertson, Laura; Lam, Humphrey, regarding their comment 'Redefining the Primary Dependent Variable.

Sanford EL, Zurakowski D, Cravero JP.

Paediatr Anaesth. 2019 Aug 21. doi: 10.1111/pan.13722. [Epub ahead of print]


Rapid Whole Genome Sequencing Has Clinical Utility in Children in the PICU.

Sanford EF, Clark MM, Farnaes L, Williams MR, Perry JC, Ingulli EG, Sweeney NM, Doshi A, Gold JJ, Briggs B, Bainbridge MN, Feddock M, Watkins K, Chowdhury S, Nahas SA, Dimmock DP, Kingsmore SF, Coufal NG; RCIGM Investigators.

Pediatr Crit Care Med. 2019 Jun 19. doi: 10.1097/PCC.0000000000002056. [Epub ahead of print]


Pediatrics and Anesthesiology Combined Residency: A Graduate's Perspective and Opinion on Combined Pediatric Anesthesiology and Critical Care Fellowship.

Sanford EL.

Anesth Analg. 2019 Aug;129(2):634-635. doi: 10.1213/ANE.0000000000004228. No abstract available.


Diagnosis of genetic diseases in seriously ill children by rapid whole-genome sequencing and automated phenotyping and interpretation.

Clark MM, Hildreth A, Batalov S, Ding Y, Chowdhury S, Watkins K, Ellsworth K, Camp B, Kint CI, Yacoubian C, Farnaes L, Bainbridge MN, Beebe C, Braun JJA, Bray M, Carroll J, Cakici JA, Caylor SA, Clarke C, Creed MP, Friedman J, Frith A, Gain R, Gaughran M, George S, Gilmer S, Gleeson J, Gore J, Grunenwald H, Hovey RL, Janes ML, Lin K, McDonagh PD, McBride K, Mulrooney P, Nahas S, Oh D, Oriol A, Puckett L, Rady Z, Reese MG, Ryu J, Salz L, Sanford E, Stewart L, Sweeney N, Tokita M, Van Der Kraan L, White S, Wigby K, Williams B, Wong T, Wright MS, Yamada C, Schols P, Reynders J, Hall K, Dimmock D, Veeraraghavan N, Defay T, Kingsmore SF.

Sci Transl Med. 2019 Apr 24;11(489). pii: eaat6177. doi: 10.1126/scitranslmed.aat6177.


Widespread shifts in the coastal biota of northern California during the 2014-2016 marine heatwaves.

Sanford E, Sones JL, García-Reyes M, Goddard JHR, Largier JL.

Sci Rep. 2019 Mar 12;9(1):4216. doi: 10.1038/s41598-019-40784-3.


Correction: HER2-Overexpressing Breast Cancers Amplify FGFR Signaling upon Acquisition of Resistance to Dual Therapeutic Blockade of HER2.

Hanker AB, Garrett JT, Estrada MV, Moore PD, Ericsson PG, Koch JP, Langley E, Singh S, Kim PS, Frampton GM, Sanford E, Owens P, Becker J, Groseclose MR, Castellino S, Joensuu H, Huober J, Brase JC, Majjaj S, Brohée S, Venet D, Brown D, Baselga J, Piccart M, Sotiriou C, Arteaga CL.

Clin Cancer Res. 2019 Feb 15;25(4):1434. doi: 10.1158/1078-0432.CCR-18-4267. No abstract available.


The association between high-volume intraoperative fluid administration and outcomes among pediatric patients undergoing large bowel resection.

Sanford EL, Zurakowski D, Litvinova A, Zalieckas JM, Cravero JP.

Paediatr Anaesth. 2019 Apr;29(4):315-321. doi: 10.1111/pan.13581. Epub 2019 Feb 4.


Concomitant diagnosis of immune deficiency and Pseudomonas sepsis in a 19 month old with ecthyma gangrenosum by host whole-genome sequencing.

Sanford E, Farnaes L, Batalov S, Bainbridge M, Laubach S, Worthen HM, Tokita M, Kingsmore SF, Bradley J.

Cold Spring Harb Mol Case Stud. 2018 Dec 17;4(6). pii: a003244. doi: 10.1101/mcs.a003244. Print 2018 Dec.


Ccl5 Mediates Proper Wiring of Feedforward and Lateral Inhibition Pathways in the Inner Retina.

Duncan DS, Weiner RL, Weitlauf C, Risner ML, Roux AL, Sanford ER, Formichella CR, Sappington RM.

Front Neurosci. 2018 Oct 12;12:702. doi: 10.3389/fnins.2018.00702. eCollection 2018.


Transcriptomic responses to extreme low salinity among locally adapted populations of Olympia oyster (Ostrea lurida).

Maynard A, Bible JM, Pespeni MH, Sanford E, Evans TG.

Mol Ecol. 2018 Nov;27(21):4225-4240. doi: 10.1111/mec.14863. Epub 2018 Oct 5.


Timmy's in the well: Empathy and prosocial helping in dogs.

Sanford EM, Burt ER, Meyers-Manor JE.

Learn Behav. 2018 Dec;46(4):374-386. doi: 10.3758/s13420-018-0332-3.


Separable roles for Mec1/ATR in genome maintenance, DNA replication, and checkpoint signaling.

Lanz MC, Oberly S, Sanford EJ, Sharma S, Chabes A, Smolka MB.

Genes Dev. 2018 Jun 1;32(11-12):822-835. doi: 10.1101/gad.308148.117. Epub 2018 Jun 13.


Rapid whole-genome sequencing identifies a novel AIRE variant associated with autoimmune polyendocrine syndrome type 1.

Sanford E, Watkins K, Nahas S, Gottschalk M, Coufal NG, Farnaes L, Dimmock D, Kingsmore SF; RCIGM Investigators.

Cold Spring Harb Mol Case Stud. 2018 Jun 1;4(3). pii: a002485. doi: 10.1101/mcs.a002485. Print 2018 Jun. Review.


A computational approach to distinguish somatic vs. germline origin of genomic alterations from deep sequencing of cancer specimens without a matched normal.

Sun JX, He Y, Sanford E, Montesion M, Frampton GM, Vignot S, Soria JC, Ross JS, Miller VA, Stephens PJ, Lipson D, Yelensky R.

PLoS Comput Biol. 2018 Feb 7;14(2):e1005965. doi: 10.1371/journal.pcbi.1005965. eCollection 2018 Feb.


Rational library design by functional CDR resampling.

Zhao Q, Buhr D, Gunter C, Frenette J, Ferguson M, Sanford E, Holland E, Rajagopal C, Batonick M, Kiss MM, Weiner MP.

N Biotechnol. 2018 Oct 25;45:89-97. doi: 10.1016/j.nbt.2017.12.005. Epub 2017 Dec 11.


Examining Lead Exposures in California through State-Issued Health Alerts for Food Contamination and an Exposure-Based Candy Testing Program.

Handley MA, Nelson K, Sanford E, Clarity C, Emmons-Bell S, Gorukanti A, Kennelly P.

Environ Health Perspect. 2017 Oct 26;125(10):104503. doi: 10.1289/EHP2582.


Plastic responses of bryozoans to ocean acidification.

Swezey DS, Bean JR, Hill TM, Gaylord B, Ninokawa AT, Sanford E.

J Exp Biol. 2017 Dec 1;220(Pt 23):4399-4409. doi: 10.1242/jeb.163436. Epub 2017 Sep 22.


Timing of stressors alters interactive effects on a coastal foundation species.

Bible JM, Cheng BS, Chang AL, Ferner MC, Wasson K, Zabin CJ, Latta M, Sanford E, Deck A, Grosholz ED.

Ecology. 2017 Sep;98(9):2468-2478. doi: 10.1002/ecy.1943. Epub 2017 Aug 22.


Persistent spatial structuring of coastal ocean acidification in the California Current System.

Chan F, Barth JA, Blanchette CA, Byrne RH, Chavez F, Cheriton O, Feely RA, Friederich G, Gaylord B, Gouhier T, Hacker S, Hill T, Hofmann G, McManus MA, Menge BA, Nielsen KJ, Russell A, Sanford E, Sevadjian J, Washburn L.

Sci Rep. 2017 May 31;7(1):2526. doi: 10.1038/s41598-017-02777-y.


Ocean acidification compromises a planktic calcifier with implications for global carbon cycling.

Davis CV, Rivest EB, Hill TM, Gaylord B, Russell AD, Sanford E.

Sci Rep. 2017 May 22;7(1):2225. doi: 10.1038/s41598-017-01530-9.


Interactive effects of temperature, food and skeletal mineralogy mediate biological responses to ocean acidification in a widely distributed bryozoan.

Swezey DS, Bean JR, Ninokawa AT, Hill TM, Gaylord B, Sanford E.

Proc Biol Sci. 2017 Apr 26;284(1853). pii: 20162349. doi: 10.1098/rspb.2016.2349.


HER2-Overexpressing Breast Cancers Amplify FGFR Signaling upon Acquisition of Resistance to Dual Therapeutic Blockade of HER2.

Hanker AB, Garrett JT, Estrada MV, Moore PD, Ericsson PG, Koch JP, Langley E, Singh S, Kim PS, Frampton GM, Sanford E, Owens P, Becker J, Groseclose MR, Castellino S, Joensuu H, Huober J, Brase JC, Majjaj S, Brohée S, Venet D, Brown D, Baselga J, Piccart M, Sotiriou C, Arteaga CL.

Clin Cancer Res. 2017 Aug 1;23(15):4323-4334. doi: 10.1158/1078-0432.CCR-16-2287. Epub 2017 Apr 5. Erratum in: Clin Cancer Res. 2019 Feb 15;25(4):1434.


Transcriptomic responses to seawater acidification among sea urchin populations inhabiting a natural pH mosaic.

Evans TG, Pespeni MH, Hofmann GE, Palumbi SR, Sanford E.

Mol Ecol. 2017 Apr;26(8):2257-2275. doi: 10.1111/mec.14038. Epub 2017 Mar 8.


Inducible defenses in Olympia oysters in response to an invasive predator.

Bible JM, Griffith KR, Sanford E.

Oecologia. 2017 Mar;183(3):809-819. doi: 10.1007/s00442-017-3811-x. Epub 2017 Jan 13.


Enrichment of Targetable Mutations in the Relapsed Neuroblastoma Genome.

Padovan-Merhar OM, Raman P, Ostrovnaya I, Kalletla K, Rubnitz KR, Sanford EM, Ali SM, Miller VA, Mossé YP, Granger MP, Weiss B, Maris JM, Modak S.

PLoS Genet. 2016 Dec 20;12(12):e1006501. doi: 10.1371/journal.pgen.1006501. eCollection 2016 Dec.


Patient-derived xenotransplants can recapitulate the genetic driver landscape of acute leukemias.

Wang K, Sanchez-Martin M, Wang X, Knapp KM, Koche R, Vu L, Nahas MK, He J, Hadler M, Stein EM, Tallman MS, Donahue AL, Frampton GM, Lipson D, Roels S, Stephens PJ, Sanford EM, Brennan T, Otto GA, Yelensky R, Miller VA, Kharas MG, Levine RL, Ferrando A, Armstrong SA, Krivtsov AV.

Leukemia. 2017 Jan;31(1):151-158. doi: 10.1038/leu.2016.166. Epub 2016 Jun 13.


Ocean acidification alters the response of intertidal snails to a key sea star predator.

Jellison BM, Ninokawa AT, Hill TM, Sanford E, Gaylord B.

Proc Biol Sci. 2016 Jun 29;283(1833). pii: 20160890. doi: 10.1098/rspb.2016.0890.


Historical baselines and the future of shell calcification for a foundation species in a changing ocean.

Pfister CA, Roy K, Wootton JT, McCoy SJ, Paine RT, Suchanek TH, Sanford E.

Proc Biol Sci. 2016 Jun 15;283(1832). pii: 20160392. doi: 10.1098/rspb.2016.0392.


Comprehensive Genomic Profiling Identifies a Subset of Crizotinib-Responsive ALK-Rearranged Non-Small Cell Lung Cancer Not Detected by Fluorescence In Situ Hybridization.

Ali SM, Hensing T, Schrock AB, Allen J, Sanford E, Gowen K, Kulkarni A, He J, Suh JH, Lipson D, Elvin JA, Yelensky R, Chalmers Z, Chmielecki J, Peled N, Klempner SJ, Firozvi K, Frampton GM, Molina JR, Menon S, Brahmer JR, MacMahon H, Nowak J, Ou SH, Zauderer M, Ladanyi M, Zakowski M, Fischbach N, Ross JS, Stephens PJ, Miller VA, Wakelee H, Ganesan S, Salgia R.

Oncologist. 2016 Jun;21(6):762-70. doi: 10.1634/theoncologist.2015-0497. Epub 2016 May 31.


Antitumor Response of VEGFR2- and VEGFR3-Amplified Angiosarcoma to Pazopanib.

Ravi V, Sanford EM, Wang WL, Ross JS, Ramesh N, Futreal A, Patel S, Stephens PJ, Miller VA, Ali SM.

J Natl Compr Canc Netw. 2016 May;14(5):499-502.


Interacting environmental mosaics drive geographic variation in mussel performance and predation vulnerability.

Kroeker KJ, Sanford E, Rose JM, Blanchette CA, Chan F, Chavez FP, Gaylord B, Helmuth B, Hill TM, Hofmann GE, McManus MA, Menge BA, Nielsen KJ, Raimondi PT, Russell AD, Washburn L.

Ecol Lett. 2016 Jul;19(7):771-9. doi: 10.1111/ele.12613. Epub 2016 May 6.


Genomic Alterations Observed in Colitis-Associated Cancers Are Distinct From Those Found in Sporadic Colorectal Cancers and Vary by Type of Inflammatory Bowel Disease.

Yaeger R, Shah MA, Miller VA, Kelsen JR, Wang K, Heins ZJ, Ross JS, He Y, Sanford E, Yantiss RK, Balasubramanian S, Stephens PJ, Schultz N, Oren M, Tang L, Kelsen D.

Gastroenterology. 2016 Aug;151(2):278-287.e6. doi: 10.1053/j.gastro.2016.04.001. Epub 2016 Apr 8.


Comprehensive genomic profiling of anal squamous cell carcinoma reveals distinct genomically defined classes.

Chung JH, Sanford E, Johnson A, Klempner SJ, Schrock AB, Palma NA, Erlich RL, Frampton GM, Chalmers ZR, Vergilio J, Rubinson DA, Sun JX, Chmielecki J, Yelensky R, Suh JH, Lipson D, George TJ Jr, Elvin JA, Stephens PJ, Miller VA, Ross JS, Ali SM.

Ann Oncol. 2016 Jul;27(7):1336-41. doi: 10.1093/annonc/mdw152. Epub 2016 Apr 6.


MiR-449a Affects Epithelial Proliferation during the Pseudoglandular and Canalicular Phases of Avian and Mammal Lung Development.

Sanford EL, Choy KW, Donahoe PK, Tracy AA, Hila R, Loscertales M, Longoni M.

PLoS One. 2016 Feb 18;11(2):e0149425. doi: 10.1371/journal.pone.0149425. eCollection 2016.


Severe Tumor Lysis Syndrome and Acute Pulmonary Edema Requiring Extracorporeal Membrane Oxygenation Following Initiation of Chemotherapy for Metastatic Alveolar Rhabdomyosarcoma.

Sanford E, Wolbrink T, Mack J, Rowe RG.

Pediatr Blood Cancer. 2016 May;63(5):928-30. doi: 10.1002/pbc.25879. Epub 2015 Dec 29.


Comprehensive Genomic Profiling of Advanced Penile Carcinoma Suggests a High Frequency of Clinically Relevant Genomic Alterations.

Ali SM, Pal SK, Wang K, Palma NA, Sanford E, Bailey M, He J, Elvin JA, Chmielecki J, Squillace R, Dow E, Morosini D, Buell J, Yelensky R, Lipson D, Frampton GM, Howley P, Ross JS, Stephens PJ, Miller VA.

Oncologist. 2016 Jan;21(1):33-9. doi: 10.1634/theoncologist.2015-0241. Epub 2015 Dec 15.


Ocean acidification through the lens of ecological theory.

Gaylord B, Kroeker KJ, Sunday JM, Anderson KM, Barry JP, Brown NE, Connell SD, Dupont S, Fabricius KE, Hall-Spencer JH, Klinger T, Milazzo M, Munday PL, Russell BD, Sanford E, Schreiber SJ, Thiyagarajan V, Vaughan ML, Widdicombe S, Harley CD.

Ecology. 2015 Jan;96(1):3-15.


Copper Pollution Increases the Relative Importance of Predation Risk in an Aquatic Food Web.

Kwan CK, Sanford E, Long J.

PLoS One. 2015 Jul 14;10(7):e0133329. doi: 10.1371/journal.pone.0133329. eCollection 2015. Erratum in: PLoS One. 2015;10(8):e0136006.


Identification and characterization of RET fusions in advanced colorectal cancer.

Le Rolle AF, Klempner SJ, Garrett CR, Seery T, Sanford EM, Balasubramanian S, Ross JS, Stephens PJ, Miller VA, Ali SM, Chiu VK.

Oncotarget. 2015 Oct 6;6(30):28929-37. doi: 10.18632/oncotarget.4325.


Activation of MET via diverse exon 14 splicing alterations occurs in multiple tumor types and confers clinical sensitivity to MET inhibitors.

Frampton GM, Ali SM, Rosenzweig M, Chmielecki J, Lu X, Bauer TM, Akimov M, Bufill JA, Lee C, Jentz D, Hoover R, Ou SH, Salgia R, Brennan T, Chalmers ZR, Jaeger S, Huang A, Elvin JA, Erlich R, Fichtenholtz A, Gowen KA, Greenbowe J, Johnson A, Khaira D, McMahon C, Sanford EM, Roels S, White J, Greshock J, Schlegel R, Lipson D, Yelensky R, Morosini D, Ross JS, Collisson E, Peters M, Stephens PJ, Miller VA.

Cancer Discov. 2015 Aug;5(8):850-9. doi: 10.1158/2159-8290.CD-15-0285. Epub 2015 May 13.


The Clinical Use of Genomic Profiling to Distinguish Intrapulmonary Metastases From Synchronous Primaries in Non-Small-Cell Lung Cancer: A Mini-Review.

Klempner SJ, Ou SH, Costa DB, VanderLaan PA, Sanford EM, Schrock A, Gay L, Ali SM, Miller VA.

Clin Lung Cancer. 2015 Sep;16(5):334-339.e1. doi: 10.1016/j.cllc.2015.03.004. Epub 2015 Mar 26. Review.


Prospective comprehensive genomic profiling of advanced gastric carcinoma cases reveals frequent clinically relevant genomic alterations and new routes for targeted therapies.

Ali SM, Sanford EM, Klempner SJ, Rubinson DA, Wang K, Palma NA, Chmielecki J, Yelensky R, Palmer GA, Morosini D, Lipson D, Catenacci DV, Braiteh F, Erlich R, Stephens PJ, Ross JS, Ou SH, Miller VA.

Oncologist. 2015 May;20(5):499-507. doi: 10.1634/theoncologist.2014-0378. Epub 2015 Apr 16.


Penile foreskin avulsion from parrot fish bite.

Kobayashi SA, Sanford EF, Witucki P.

West J Emerg Med. 2015 Mar;16(2):320. doi: 10.5811/westjem.2015.1.25338. Epub 2015 Feb 26. No abstract available.


Acute Takotsubo Cardiomyopathy During Elective Hernia Repair in a Patient With Previously Resected Pheochromocytoma.

Sanford EL, Hickey T, Lu J.

J Cardiothorac Vasc Anesth. 2015 Dec;29(6):1596-8. doi: 10.1053/j.jvca.2014.12.001. Epub 2014 Dec 3. No abstract available.


Ocean acidification research in the 'post-genomic' era: Roadmaps from the purple sea urchin Strongylocentrotus purpuratus.

Evans TG, Padilla-Gamiño JL, Kelly MW, Pespeni MH, Chan F, Menge BA, Gaylord B, Hill TM, Russell AD, Palumbi SR, Sanford E, Hofmann GE.

Comp Biochem Physiol A Mol Integr Physiol. 2015 Jul;185:33-42. doi: 10.1016/j.cbpa.2015.03.007. Epub 2015 Mar 13. Review.


Cartilage-specific ablation of XBP1 signaling in mouse results in a chondrodysplasia characterized by reduced chondrocyte proliferation and delayed cartilage maturation and mineralization.

Cameron TL, Gresshoff IL, Bell KM, Piróg KA, Sampurno L, Hartley CL, Sanford EM, Wilson R, Ermann J, Boot-Handford RP, Glimcher LH, Briggs MD, Bateman JF.

Osteoarthritis Cartilage. 2015 Apr;23(4):661-70. doi: 10.1016/j.joca.2015.01.001. Epub 2015 Jan 17.


Predicting the effects of ocean acidification on predator-prey interactions: a conceptual framework based on coastal molluscs.

Kroeker KJ, Sanford E, Jellison BM, Gaylord B.

Biol Bull. 2014 Jun;226(3):211-22. Review.


The role of temperature in determining species' vulnerability to ocean acidification: a case study using Mytilus galloprovincialis.

Kroeker KJ, Gaylord B, Hill TM, Hosfelt JD, Miller SH, Sanford E.

PLoS One. 2014 Jul 1;9(7):e100353. doi: 10.1371/journal.pone.0100353. eCollection 2014.


Ocean acidification increases the vulnerability of native oysters to predation by invasive snails.

Sanford E, Gaylord B, Hettinger A, Lenz EA, Meyer K, Hill TM.

Proc Biol Sci. 2014 Jan 15;281(1778):20132681. doi: 10.1098/rspb.2013.2681. Print 2014 Mar 7.


Development and validation of a clinical cancer genomic profiling test based on massively parallel DNA sequencing.

Frampton GM, Fichtenholtz A, Otto GA, Wang K, Downing SR, He J, Schnall-Levin M, White J, Sanford EM, An P, Sun J, Juhn F, Brennan K, Iwanik K, Maillet A, Buell J, White E, Zhao M, Balasubramanian S, Terzic S, Richards T, Banning V, Garcia L, Mahoney K, Zwirko Z, Donahue A, Beltran H, Mosquera JM, Rubin MA, Dogan S, Hedvat CV, Berger MF, Pusztai L, Lechner M, Boshoff C, Jarosz M, Vietz C, Parker A, Miller VA, Ross JS, Curran J, Cronin MT, Stephens PJ, Lipson D, Yelensky R.

Nat Biotechnol. 2013 Nov;31(11):1023-31. doi: 10.1038/nbt.2696. Epub 2013 Oct 20.

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