Gene Expression
Nebulas
Gene Expression Nebulas| Download | Dataset ID | BioProject ID | Project ID | Dataset Name | Species | Strategy | Sample Number | Tissue | Cell Type | Cell Line | Healthy Condition | Development Stage | Case Detail | Control Detail | Cell Number | Biological Condition | Quality and Quantity | |||||||||
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| Baseline | Genetic | Phenotypic | Environmental | Spatial | Temporal | RNA Type | Median Mapping Quality | Median Coverage | Max Sequencing Length | Max Replicate# | ||||||||||||||||
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Detection of SARS-CoV-2 genome and whole transcriptome sequencing in frontal cortex of COVID-19 patients.
Gagliardi S, Poloni ET, Pandini C, Garofalo M, Dragoni F, Medici V, Davin A, Visonà SD, Moretti M, Sproviero D, Pansarasa O, Guaita A, Ceroni M, Tronconi L, Cereda C.
Brain Behav Immun. 2021-05-19; 97
PMID: 34022369 DOI: 10.1016/j.bbi.2021.05.012
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Prosurvival kinase PIM2 is a therapeutic target for eradication of chronic myeloid leukemia stem cells.
Ma L, Pak ML, Ou J, Yu J, St Louis P, Shan Y, Hutchinson L, Li S, Brehm MA, Zhu LJ, Green MR.
Proc Natl Acad Sci U S A. 2019-05-08; 116 (21)
PMID: 31068472 DOI: 10.1073/pnas.1903550116
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Single-cell transcriptional profiles in human skeletal muscle.
Rubenstein AB, Smith GR, Raue U, Begue G, Minchev K, Ruf-Zamojski F, Nair VD, Nair VD, Wang X, Zhou L, Zaslavsky E, Trappe TA, Trappe S, Sealfon SC.
Sci Rep. 2020-01-14; 10 (1)
PMID: 31937892 DOI: 10.1038/s41598-019-57110-6
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Longitudinal Transcriptome Analysis Reveals a Sustained Differential Gene Expression Signature in Patients Treated for Acute Lyme Disease.
Bouquet J, Soloski MJ, Swei A, Cheadle C, Federman S, Billaud JN, Rebman AW, Kabre B, Halpert R, Boorgula M, Aucott JN, Chiu CY.
mBio. 2016-02-12; 7 (1)
PMID: 26873097 DOI: 10.1128/mbio.00100-16
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Single-cell analysis reveals congruence between kidney organoids and human fetal kidney.
Combes AN, Zappia L, Er PX, Oshlack A, Little MH.
Genome Med. 2019-01-23; 11 (1)
PMID: 30674341 DOI: 10.1186/s13073-019-0615-0
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FOXG1-Dependent Dysregulation of GABA/Glutamate Neuron Differentiation in Autism Spectrum Disorders.
Mariani J, Coppola G, Zhang P, Abyzov A, Provini L, Tomasini L, Amenduni M, Szekely A, Palejev D, Wilson M, Gerstein M, Grigorenko EL, Chawarska K, Pelphrey KA, Howe JR, Vaccarino FM.
Cell. 2015-07-01; 162 (2)
PMID: 26186191 DOI: 10.1016/j.cell.2015.06.034
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Discovery of new candidate genes for rheumatoid arthritis through integration of genetic association data with expression pathway analysis.
Shchetynsky K, Diaz-Gallo LM, Folkersen L, Hensvold AH, Catrina AI, Berg L, Klareskog L, Padyukov L.
Arthritis Res Ther. 2017-02-02; 19 (1)
PMID: 28148290 DOI: 10.1186/s13075-017-1220-5
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Temporal and spatial heterogeneity of host response to SARS-CoV-2 pulmonary infection.
Desai N, Neyaz A, Szabolcs A, Shih AR, Chen JH, Thapar V, Nieman LT, Solovyov A, Mehta A, Lieb DJ, Kulkarni AS, Jaicks C, Xu KH, Raabe MJ, Pinto CJ, Juric D, Chebib I, Colvin RB, Kim AY, Monroe R, Warren SE, Danaher P, Reeves JW, Gong J, Rueckert EH, Greenbaum BD, Hacohen N, Lagana SM, Rivera MN, Sholl LM, Stone JR, Ting DT, Deshpande V.
Nat Commun. 2020-12-09; 11 (1)
PMID: 33298930 DOI: 10.1038/s41467-020-20139-7
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Local lung hypoxia determines epithelial fate decisions during alveolar regeneration.
Xi Y, Kim T, Brumwell AN, Driver IH, Wei Y, Tan V, Jackson JR, Xu J, Lee DK, Gotts JE, Matthay MA, Shannon JM, Chapman HA, Vaughan AE.
Nat Cell Biol. 2017-07-24; 19 (8)
PMID: 28737769 DOI: 10.1038/ncb3580
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Hemopoietic-specific Sf3b1-K700E knock-in mice display the splicing defect seen in human MDS but develop anemia without ring sideroblasts.
Mupo A, Seiler M, Sathiaseelan V, Pance A, Yang Y, Agrawal AA, Iorio F, Bautista R, Pacharne S, Tzelepis K, Manes N, Wright P, Papaemmanuil E, Kent DG, Campbell PC, Buonamici S, Bolli N, Vassiliou GS.
Leukemia. 2016-09-08; 31 (3)
PMID: 27604819 DOI: 10.1038/leu.2016.251
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Single-cell transcriptomic atlas of the human retina identifies cell types associated with age-related macular degeneration.
Menon M, Mohammadi S, Davila-Velderrain J, Goods BA, Cadwell TD, Xing Y, Stemmer-Rachamimov A, Shalek AK, Love JC, Kellis M, Hafler BP.
Nat Commun. 2019-10-25; 10 (1)
PMID: 31653841 DOI: 10.1038/s41467-019-12780-8
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Zika virus shedding in the stool and infection through the anorectal mucosa in mice.
Li C, Deng YQ, Zu S, Quanquin N, Shang J, Tian M, Ji X, Zhang NN, Dong HL, Xu YP, Zhao LZ, Zhang FC, Li XF, Wu A, Cheng G, Qin CF.
Emerg Microbes Infect. 2018-10-17; 7 (1)
PMID: 30333476 DOI: 10.1038/s41426-018-0170-6
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Differing molecular response of young and advanced maternal age human oocytes to IVM.
Reyes JM, Silva E, Chitwood JL, Schoolcraft WB, Krisher RL, Ross PJ.
Hum Reprod. 2017-11-01; 32 (11)
PMID: 29025019 DOI: 10.1093/humrep/dex284
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Single-cell RNA-seq reveals the diversity of trophoblast subtypes and patterns of differentiation in the human placenta.
Liu Y, Fan X, Wang R, Lu X, Dang YL, Wang H, Lin HY, Zhu C, Ge H, Cross JC, Wang H.
Cell Res. 2018-07-24; 28 (8)
PMID: 30042384 DOI: 10.1038/s41422-018-0066-y
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Cerebral organoids at the air-liquid interface generate diverse nerve tracts with functional output.
Giandomenico SL, Mierau SB, Gibbons GM, Wenger LMD, Masullo L, Sit T, Sutcliffe M, Boulanger J, Tripodi M, Derivery E, Paulsen O, Lakatos A, Lancaster MA.
Nat Neurosci. 2019-03-18; 22 (4)
PMID: 30886407 DOI: 10.1038/s41593-019-0350-2
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Integrating the Epigenome to Identify Drivers of Hepatocellular Carcinoma.
Hlady RA, Sathyanarayan A, Thompson JJ, Zhou D, Wu Q, Pham K, Lee JH, Liu C, Robertson KD.
Hepatology. 2019-01-05; 69 (2)
PMID: 30136421 DOI: 10.1002/hep.30211
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A gene network regulated by the transcription factor VGLL3 as a promoter of sex-biased autoimmune diseases.
Liang Y, Tsoi LC, Xing X, Beamer MA, Swindell WR, Sarkar MK, Berthier CC, Stuart PE, Harms PW, Nair RP, Elder JT, Voorhees JJ, Kahlenberg JM, Gudjonsson JE.
Nat Immunol. 2016-12-19; 18 (2)
PMID: 27992404 DOI: 10.1038/ni.3643
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Single-Cell Expression Variability Implies Cell Function.
Osorio D, Yu X, Zhong Y, Li G, Yu P, Serpedin E, Huang JZ, Cai JJ.
Cells. 2019-12-19; 9 (1)
PMID: 31861624 DOI: 10.3390/cells9010014
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Multi-Omic Data Integration Allows Baseline Immune Signatures to Predict Hepatitis B Vaccine Response in a Small Cohort.
Shannon CP, Blimkie TM, Ben-Othman R, Gladish N, Amenyogbe N, Drissler S, Edgar RD, Chan Q, Krajden M, Foster LJ, Kobor MS, Mohn WW, Brinkman RR, Le Cao KA, Scheuermann RH, Tebbutt SJ, Hancock REW, Koff WC, Kollmann TR, Sadarangani M, Lee AH.
Front Immunol. 2020-11-30; 11
PMID: 33329547 DOI: 10.3389/fimmu.2020.578801
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Direct pericyte-to-neuron reprogramming via unfolding of a neural stem cell-like program.
Karow M, Camp JG, Falk S, Gerber T, Pataskar A, Gac-Santel M, Kageyama J, Brazovskaja A, Garding A, Fan W, Riedemann T, Casamassa A, Smiyakin A, Schichor C, Götz M, Tiwari VK, Treutlein B, Berninger B.
Nat Neurosci. 2018-06-18; 21 (7)
PMID: 29915193 DOI: 10.1038/s41593-018-0168-3
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The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells.
Trapnell C, Cacchiarelli D, Grimsby J, Pokharel P, Li S, Morse M, Lennon NJ, Livak KJ, Mikkelsen TS, Rinn JL.
Nat Biotechnol. 2014-03-23; 32 (4)
PMID: 24658644 DOI: 10.1038/nbt.2859
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Clinico-histopathologic and single nuclei RNA sequencing insights into cardiac injury and microthrombi in critical COVID-19.
Brener MI, Hulke ML, Fukuma N, Golob S, Zilinyi RS, Zhou Z, Tzimas C, Russo I, McGroder C, Pfeiffer RD, Chong A, Zhang G, Burkhoff D, Leon MB, Maurer MS, Moses JW, Uhlemann AC, Hibshoosh H, Uriel N, Szabolcs MJ, Redfors B, Marboe CC, Baldwin MR, Tucker NR, Tsai EJ.
JCI Insight. 2021-12-14;
PMID: 34905515 DOI: 10.1172/jci.insight.154633
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An atlas connecting shared genetic architecture of human diseases and molecular phenotypes provides insight into COVID-19 susceptibility.
Wang L, Balmat TJ, Antonia AL, Constantine FJ, Henao R, Burke TW, Ingham A, McClain MT, Tsalik EL, Ko ER, Ginsburg GS, DeLong MR, Shen X, Woods CW, Hauser ER, Ko DC.
Genome Med. 2021-05-17; 13 (1)
PMID: 34001247 DOI: 10.1186/s13073-021-00904-z
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COX-2 mediates tumor-stromal prolactin signaling to initiate tumorigenesis.
Zheng Y, Comaills V, Burr R, Boulay G, Miyamoto DT, Wittner BS, Emmons E, Sil S, Koulopoulos MW, Broderick KT, Tai E, Rengarajan S, Kulkarni AS, Shioda T, Wu CL, Ramaswamy S, Ting DT, Toner M, Rivera MN, Maheswaran S, Haber DA.
Proc Natl Acad Sci U S A. 2019-02-28; 116 (12)
PMID: 30819896 DOI: 10.1073/pnas.1819303116
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Molecular characterization of foveal versus peripheral human retina by single-cell RNA sequencing.
Voigt AP, Whitmore SS, Flamme-Wiese MJ, Riker MJ, Wiley LA, Tucker BA, Stone EM, Mullins RF, Scheetz TE.
Exp Eye Res. 2019-05-08; 184
PMID: 31075224 DOI: 10.1016/j.exer.2019.05.001
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Single-cell RNA sequencing reveals metallothionein heterogeneity during hESC differentiation to definitive endoderm.
Lu J, Baccei A, Lummertz da Rocha E, Guillermier C, McManus S, Finney LA, Zhang C, Steinhauser ML, Li H, Lerou PH.
Stem Cell Res. 2018-01-31; 28
PMID: 29427839 DOI: 10.1016/j.scr.2018.01.015
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Defective structural RNA processing in relapsing-remitting multiple sclerosis.
Spurlock CF, Tossberg JT, Guo Y, Sriram S, Crooke PS, Aune TM.
Genome Biol. 2015-03-25; 16
PMID: 25885816 DOI: 10.1186/s13059-015-0629-x
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Super-Obese Patient-Derived iPSC Hypothalamic Neurons Exhibit Obesogenic Signatures and Hormone Responses.
Rajamani U, Gross AR, Hjelm BE, Sequeira A, Vawter MP, Tang J, Gangalapudi V, Wang Y, Andres AM, Gottlieb RA, Sareen D.
Cell Stem Cell. 2018-04-19; 22 (5)
PMID: 29681516 DOI: 10.1016/j.stem.2018.03.009
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Androgen Signaling Regulates SARS-CoV-2 Receptor Levels and Is Associated with Severe COVID-19 Symptoms in Men.
Samuel RM, Majd H, Richter MN, Ghazizadeh Z, Zekavat SM, Navickas A, Ramirez JT, Asgharian H, Simoneau CR, Bonser LR, Koh KD, Garcia-Knight M, Tassetto M, Sunshine S, Farahvashi S, Kalantari A, Liu W, Andino R, Zhao H, Natarajan P, Erle DJ, Ott M, Goodarzi H, Fattahi F.
Cell Stem Cell. 2020-11-17; 27 (6)
PMID: 33232663 DOI: 10.1016/j.stem.2020.11.009
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Diversity of peripheral blood human NK cells identified by single-cell RNA sequencing.
Smith SL, Kennedy PR, Stacey KB, Worboys JD, Yarwood A, Seo S, Solloa EH, Mistretta B, Chatterjee SS, Gunaratne P, Allette K, Wang YC, Smith ML, Sebra R, Mace EM, Horowitz A, Thomson W, Martin P, Eyre S, Davis DM.
Blood Adv. 2020-04-01; 4 (7)
PMID: 32271902 DOI: 10.1182/bloodadvances.2019000699
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Resident T Cells in Resolved Psoriasis Steer Tissue Responses that Stratify Clinical Outcome.
Gallais Sérézal I, Classon C, Cheuk S, Barrientos-Somarribas M, Wadman E, Martini E, Chang D, Xu Landén N, Ehrström M, Nylén S, Eidsmo L.
J Invest Dermatol. 2018-03-03; 138 (8)
PMID: 29510191 DOI: 10.1016/j.jid.2018.02.030
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BRN2 suppresses apoptosis, reprograms DNA damage repair, and is associated with a high somatic mutation burden in melanoma.
Herbert K, Binet R, Lambert JP, Louphrasitthiphol P, Kalkavan H, Sesma-Sanz L, Robles-Espinoza CD, Sarkar S, Suer E, Andrews S, Chauhan J, Roberts ND, Middleton MR, Gingras AC, Masson JY, Larue L, Falletta P, Goding CR.
Genes Dev. 2019-02-25; 33 (5-6)
PMID: 30804224 DOI: 10.1101/gad.314633.118
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Modeling Steatohepatitis in Humans with Pluripotent Stem Cell-Derived Organoids.
Ouchi R, Togo S, Kimura M, Shinozawa T, Koido M, Koike H, Thompson W, Karns RA, Mayhew CN, McGrath PS, McCauley HA, Zhang RR, Lewis K, Hakozaki S, Ferguson A, Saiki N, Yoneyama Y, Takeuchi I, Mabuchi Y, Akazawa C, Yoshikawa HY, Wells JM, Takebe T.
Cell Metab. 2019-05-30; 30 (2)
PMID: 31155493 DOI: 10.1016/j.cmet.2019.05.007
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Transcriptomic characteristics of bronchoalveolar lavage fluid and peripheral blood mononuclear cells in COVID-19 patients.
Xiong Y, Liu Y, Cao L, Wang D, Guo M, Jiang A, Guo D, Hu W, Yang J, Tang Z, Wu H, Lin Y, Zhang M, Zhang Q, Shi M, Liu Y, Zhou Y, Lan K, Chen Y.
Emerg Microbes Infect. 2020-12-01; 9 (1)
PMID: 32228226 DOI: 10.1080/22221751.2020.1747363
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Early adaptive immune activation detected in monozygotic twins with prodromal multiple sclerosis.
Beltrán E, Gerdes LA, Hansen J, Flierl-Hecht A, Krebs S, Blum H, Ertl-Wagner B, Barkhof F, Kümpfel T, Hohlfeld R, Dornmair K.
J Clin Invest. 2019-11-01; 129 (11)
PMID: 31566584 DOI: 10.1172/jci128475
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Single-Cell RNA Sequencing Reveals Expanded Clones of Islet Antigen-Reactive CD4+ T Cells in Peripheral Blood of Subjects with Type 1 Diabetes.
Cerosaletti K, Barahmand-Pour-Whitman F, Yang J, DeBerg HA, Dufort MJ, Murray SA, Israelsson E, Speake C, Gersuk VH, Eddy JA, Reijonen H, Greenbaum CJ, Kwok WW, Wambre E, Prlic M, Gottardo R, Nepom GT, Linsley PS.
J Immunol. 2017-05-31; 199 (1)
PMID: 28566371 DOI: 10.4049/jimmunol.1700172
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Assessing similarity to primary tissue and cortical layer identity in induced pluripotent stem cell-derived cortical neurons through single-cell transcriptomics.
Handel AE, Chintawar S, Lalic T, Whiteley E, Vowles J, Giustacchini A, Argoud K, Sopp P, Nakanishi M, Bowden R, Cowley S, Newey S, Akerman C, Ponting CP, Cader MZ.
Hum Mol Genet. 2016-01-05; 25 (5)
PMID: 26740550 DOI: 10.1093/hmg/ddv637
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Genomic analysis of DNA repair genes and androgen signaling in prostate cancer.
Jividen K, Kedzierska KZ, Yang CS, Szlachta K, Ratan A, Paschal BM.
BMC Cancer. 2018-10-10; 18 (1)
PMID: 30305041 DOI: 10.1186/s12885-018-4848-x
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Stromal Microenvironment Shapes the Intratumoral Architecture of Pancreatic Cancer.
Ligorio M, Sil S, Malagon-Lopez J, Nieman LT, Misale S, Di Pilato M, Ebright RY, Karabacak MN, Kulkarni AS, Liu A, Vincent Jordan N, Franses JW, Philipp J, Kreuzer J, Desai N, Arora KS, Rajurkar M, Horwitz E, Neyaz A, Tai E, Magnus NKC, Vo KD, Yashaswini CN, Marangoni F, Boukhali M, Fatherree JP, Damon LJ, Xega K, Desai R, Choz M, Bersani F, Langenbucher A, Thapar V, Morris R, Wellner UF, Schilling O, Lawrence MS, Liss AS, Rivera MN, Deshpande V, Benes CH, Maheswaran S, Haber DA, Fernandez-Del-Castillo C, Ferrone CR, Haas W, Aryee MJ, Ting DT.
Cell. 2019-05-30; 178 (1)
PMID: 31155233 DOI: 10.1016/j.cell.2019.05.012
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TIM3+ TRBV11-2 T cells and IFNγ signature in patrolling monocytes and CD16+ NK cells delineate MIS-C.
Hoste L, Roels L, Naesens L, Bosteels V, Vanhee S, Dupont S, Bosteels C, Browaeys R, Vandamme N, Verstaen K, Roels J, Van Damme KFA, Maes B, De Leeuw E, Declercq J, Aegerter H, Seys L, Smole U, De Prijck S, Vanheerswynghels M, Claes K, Debacker V, Van Isterdael G, Backers L, Claes KBM, Bastard P, Jouanguy E, Zhang SY, Mets G, Dehoorne J, Vandekerckhove K, Schelstraete P, Willems J, MIS-C Clinicians, Stordeur P, Janssens S, Beyaert R, Saeys Y, Casanova JL, Lambrecht BN, Haerynck F, Tavernier SJ.
J Exp Med. 2021-12-16; 219 (2)
PMID: 34914824 DOI: 10.1084/jem.20211381
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Copy number loss of the interferon gene cluster in melanomas is linked to reduced T cell infiltrate and poor patient prognosis.
Linsley PS, Speake C, Whalen E, Chaussabel D.
PLoS One. 2014-10-14; 9 (10)
PMID: 25314013 DOI: 10.1371/journal.pone.0109760
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Cutaneous and systemic hyperinflammation drives maculopapular drug exanthema in severely ill COVID-19 patients.
Mitamura Y, Schulz D, Oro S, Li N, Kolm I, Lang C, Ziadlou R, Tan G, Bodenmiller B, Steiger P, Marzano A, de Prost N, Caudin O, Levesque M, Stoffel C, Schmid-Grendelmeier P, Maverakis E, Akdis CA, Brüggen MC.
Allergy. 2021-06-22;
PMID: 34157151 DOI: 10.1111/all.14983
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RNA-sequencing of the brain transcriptome implicates dysregulation of neuroplasticity, circadian rhythms and GTPase binding in bipolar disorder.
Akula N, Barb J, Jiang X, Wendland JR, Choi KH, Sen SK, Hou L, Chen DT, Laje G, Johnson K, Lipska BK, Kleinman JE, Corrada-Bravo H, Detera-Wadleigh S, Munson PJ, McMahon FJ.
Mol Psychiatry. 2014-01-07; 19 (11)
PMID: 24393808 DOI: 10.1038/mp.2013.170
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Identification of conserved SARS-CoV-2 spike epitopes that expand public cTfh clonotypes in mild COVID-19 patients.
Lu X, Hosono Y, Nagae M, Ishizuka S, Ishikawa E, Motooka D, Ozaki Y, Sax N, Maeda Y, Kato Y, Morita T, Shinnakasu R, Inoue T, Onodera T, Matsumura T, Shinkai M, Sato T, Nakamura S, Mori S, Kanda T, Nakayama EE, Shioda T, Kurosaki T, Takeda K, Kumanogoh A, Arase H, Nakagami H, Yamashita K, Takahashi Y, Yamasaki S.
J Exp Med. 2021-10-14; 218 (12)
PMID: 34647971 DOI: 10.1084/jem.20211327
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B cell-specific XIST complex enforces X-inactivation and restrains atypical B cells.
Yu B, Qi Y, Li R, Shi Q, Satpathy AT, Chang HY.
Cell. 2021-03-17; 184 (7)
PMID: 33735607 DOI: 10.1016/j.cell.2021.02.015
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Multipotent RAG1+ progenitors emerge directly from haemogenic endothelium in human pluripotent stem cell-derived haematopoietic organoids.
Motazedian A, Bruveris FF, Kumar SV, Schiesser JV, Chen T, Ng ES, Chidgey AP, Wells CA, Elefanty AG, Stanley EG.
Nat Cell Biol. 2020-01-06; 22 (1)
PMID: 31907413 DOI: 10.1038/s41556-019-0445-8
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Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.
Macosko EZ, Basu A, Satija R, Nemesh J, Shekhar K, Goldman M, Tirosh I, Bialas AR, Kamitaki N, Martersteck EM, Trombetta JJ, Weitz DA, Sanes JR, Shalek AK, Regev A, McCarroll SA.
Cell. 2015-05-01; 161 (5)
PMID: 26000488 DOI: 10.1016/j.cell.2015.05.002
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Single-cell RNA-seq enables comprehensive tumour and immune cell profiling in primary breast cancer.
Chung W, Eum HH, Lee HO, Lee KM, Lee HB, Kim KT, Ryu HS, Kim S, Lee JE, Park YH, Kan Z, Han W, Park WY.
Nat Commun. 2017-05-05; 8
PMID: 28474673 DOI: 10.1038/ncomms15081
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Low-Avidity CD4+ T Cell Responses to SARS-CoV-2 in Unexposed Individuals and Humans with Severe COVID-19.
Bacher P, Rosati E, Esser D, Martini GR, Saggau C, Schiminsky E, Dargvainiene J, Schröder I, Wieters I, Khodamoradi Y, Eberhardt F, Vehreschild MJGT, Neb H, Sonntagbauer M, Conrad C, Tran F, Rosenstiel P, Markewitz R, Wandinger KP, Augustin M, Rybniker J, Kochanek M, Leypoldt F, Cornely OA, Koehler P, Franke A, Scheffold A.
Immunity. 2020-11-26; 53 (6)
PMID: 33296686 DOI: 10.1016/j.immuni.2020.11.016
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Pharmacodynamic biomarkers and differential effects of TNF- and GM-CSF-targeting biologics in rheumatoid arthritis.
Guo X, Wang S, Godwood A, Close D, Ryan PC, Roskos LK, White WI.
Int J Rheum Dis. 2018-10-24; 22 (4)
PMID: 30358109 DOI: 10.1111/1756-185x.13395
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Longitudinal Multi-omics Analyses Identify Responses of Megakaryocytes, Erythroid Cells, and Plasmablasts as Hallmarks of Severe COVID-19.
Bernardes JP, Mishra N, Tran F, Bahmer T, Best L, Blase JI, Bordoni D, Franzenburg J, Geisen U, Josephs-Spaulding J, Köhler P, Künstner A, Rosati E, Aschenbrenner AC, Bacher P, Baran N, Boysen T, Brandt B, Bruse N, Dörr J, Dräger A, Elke G, Ellinghaus D, Fischer J, Forster M, Franke A, Franzenburg S, Frey N, Friedrichs A, Fuß J, Glück A, Hamm J, Hinrichsen F, Hoeppner MP, Imm S, Junker R, Kaiser S, Kan YH, Knoll R, Lange C, Laue G, Lier C, Lindner M, Marinos G, Markewitz R, Nattermann J, Noth R, Pickkers P, Rabe KF, Renz A, Röcken C, Rupp J, Schaffarzyk A, Scheffold A, Schulte-Schrepping J, Schunk D, Skowasch D, Ulas T, Wandinger KP, Wittig M, Zimmermann J, Busch H, Hoyer BF, Kaleta C, Heyckendorf J, Kox M, Rybniker J, Schreiber S, Schultze JL, Rosenstiel P, HCA Lung Biological Network, Deutsche COVID-19 Omics Initiative (DeCOI).
Immunity. 2020-11-26; 53 (6)
PMID: 33296687 DOI: 10.1016/j.immuni.2020.11.017
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Dysregulated transcriptional responses to SARS-CoV-2 in the periphery.
McClain MT, Constantine FJ, Henao R, Liu Y, Tsalik EL, Burke TW, Steinbrink JM, Petzold E, Nicholson BP, Rolfe R, Kraft BD, Kelly MS, Saban DR, Yu C, Shen X, Ko EM, Sempowski GD, Denny TN, Ginsburg GS, Woods CW.
Nat Commun. 2021-02-17; 12 (1)
PMID: 33597532 DOI: 10.1038/s41467-021-21289-y
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Cell fixation and preservation for droplet-based single-cell transcriptomics.
Alles J, Karaiskos N, Praktiknjo SD, Grosswendt S, Wahle P, Ruffault PL, Ayoub S, Schreyer L, Boltengagen A, Birchmeier C, Zinzen R, Kocks C, Rajewsky N.
BMC Biol. 2017-05-19; 15 (1)
PMID: 28526029 DOI: 10.1186/s12915-017-0383-5
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Deciphering the state of immune silence in fatal COVID-19 patients.
Bost P, De Sanctis F, Canè S, Ugel S, Donadello K, Castellucci M, Eyal D, Fiore A, Anselmi C, Barouni RM, Trovato R, Caligola S, Lamolinara A, Iezzi M, Facciotti F, Mazzariol A, Gibellini D, De Nardo P, Tacconelli E, Gottin L, Polati E, Schwikowski B, Amit I, Bronte V.
Nat Commun. 2021-03-05; 12 (1)
PMID: 33674591 DOI: 10.1038/s41467-021-21702-6
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Pseudotime Dynamics in Melanoma Single-Cell Transcriptomes Reveals Different Mechanisms of Tumor Progression.
Loeffler-Wirth H, Binder H, Willscher E, Gerber T, Kunz M.
Biology (Basel). 2018-04-03; 7 (2)
PMID: 29614062 DOI: 10.3390/biology7020023
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Assembly of functionally integrated human forebrain spheroids.
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Tracing the temporal-spatial transcriptome landscapes of the human fetal digestive tract using single-cell RNA-sequencing.
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Maternal respiratory SARS-CoV-2 infection in pregnancy is associated with a robust inflammatory response at the maternal-fetal interface.
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Cancer-Associated SF3B1 Hotspot Mutations Induce Cryptic 3' Splice Site Selection through Use of a Different Branch Point.
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Analysis of long non-coding RNAs highlights tissue-specific expression patterns and epigenetic profiles in normal and psoriatic skin.
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Single-Cell RNA-Seq Reveals Transcriptional Heterogeneity in Latent and Reactivated HIV-Infected Cells.
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Aberrant Development Corrected in Adult-Onset Huntington's Disease iPSC-Derived Neuronal Cultures via WNT Signaling Modulation.
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