Dmitriy Chudakov, Ph.D.

2017

• BOLOTIN, DA; POSLAVSKY, S; DAVYDOV, AN; FRENKEL, FE; FANCHI, L; ZOLOTAREVA, OI; HEMMERS, S; PUTINTSEVA, EV; OBRAZTSOVA, AS; SHUGAY, M; ATAULLAKHANOV, RI; RUDENSKY, AY; SCHUMACHER, TN; CHUDAKOV, DM, 2017:Antigen receptor repertoire profiling from RNA-seq data. NATURE BIOTECHNOLOGY 35 (10), p. 908 - 911.
• DAVEY, M S; WILLCOX, C R; JOYCE, S P; LADELL, K; KASATSKAYA, S A; MCLAREN, J E; HUNTER, S; SALIM, M; MOHAMMED, F; PRICE, D A; CHUDAKOV, D M; WILLCOX, B E, 2017:Clonal selection in the human V delta 1 T cell repertoire indicates gamma delta TCR-dependent adaptive immune surveillance.. Nature communications
• DAVEY, MS; WILLCOX, CR; JOYCE, SP; LADELL, K; KASATSKAYA, SA; MCLAREN, JE; HUNTER, S; SALIM, M; MOHAMMED, F; PRICE, DA; CHUDAKOV, DM; WILLCOX, BE, 2017:Clonal selection in the human V delta 1 T cell repertoire indicates gamma delta TCR-dependent adaptive immune surveillance. NATURE COMMUNICATIONS 8
• LEVINE, AG; MEDOZA, A; HEMMERS, S; MOLTEDO, B; NIEC, RE; SCHIZAS, M; HOYOS, BE; PUTINTSEVA, EV; CHAUDHRY, A; DIKIY, S; FUJISAWA, S; CHUDAKOV, DM; TREUTING, PM; RUDENSKY, AY, 2017:Stability and function of regulatory T cells expressing the transcription factor T-bet. NATURE 546 (7658), p. 421 - +.
• SHAGIN, DA; SHAGINA, IA; ZARETSKY, AR; BARSOVA, EV; KELMANSON, IV; LUKYANOV, S; CHUDAKOV, DM; SHUGAY, M, 2017:A high-throughput assay for quantitative measurement of PCR errors. SCIENTIFIC REPORTS 7
• SHUGAY, M; ZARETSKY, AR; SHAGIN, DA; SHAGINA, IA; VOLCHENKOV, IA; SHELENKOV, AA; LEBEDIN, MY; BAGAEV, DV; LUKYANOV, S; CHUDAKOV, DM, 2017:MAGERI: Computational pipeline for molecular-barcoded targeted resequencing. PLOS COMPUTATIONAL BIOLOGY 13 (5)
• ZVYAGIN, IV; MAMEDOV, IZ; TATARINOVA, OV; KOMECH, EA; KURNIKOVA, EE; BOYAKOVA, EV; BRILLIANTOVA, V; SHELIKHOVA, LN; BALASHOV, DN; SHUGAY, M; SYCHEVA, AL; KASATSKAYA, SA; LEBEDEV, YB; MASCHAN, AA; MASCHAN, MA; CHUDAKOV, DM, 2017:Tracking T-cell immune reconstitution after TCR alpha beta/CD19-depleted hematopoietic cells transplantation in children. LEUKEMIA 31 (5), p. 1145 - 1153.

2016

• BAGAEV, DV; ZVYAGIN, IV; PUTINTSEVA, EV; IZRAELSON, M; BRITANOVA, OV; CHUDAKOV, DM; SHUGAY, M, 2016:VDJviz: a versatile browser for immunogenomics data. BMC GENOMICS 17
• BRITANOVA, OV; SHUGAY, M; MERZLYAK, EM; STAROVEROV, DB; PUTINTSEVA, EV; TURCHANINOVA, MA; MAMEDOV, IZ; POGORELYY, MV; BOLOTIN, DA; IZRAELSON, M; DAVYDOV, AN; EGOROV, ES; KASATSKAYA, SA; REBRIKOV, DV; LUKYANOV, S; CHUDAKOV, DM, 2016:Dynamics of Individual T Cell Repertoires: From Cord Blood to Centenarians. JOURNAL OF IMMUNOLOGY 196 (12), p. 5005 - 5013.
• PLITAS, G; KONOPACKI, C; WU, KM; BOS, PD; MORROW, M; PUTINTSEVA, EV; CHUDAKOV, DM; RUDENSKY, AY, 2016:Regulatory T Cells Exhibit Distinct Features in Human Breast Cancer. IMMUNITY 45 (5), p. 1122 - 1134.
• SARKISYAN, KS; BOLOTIN, DA; MEER, MV; USMANOVA, DR; MISHIN, AS; SHARONOV, GV; IVANKOV, DN; BOZHANOVA, NG; BARANOV, MS; SOYLEMEZ, O; BOGATYREVA, NS; VLASOV, PK; EGOROV, ES; LOGACHEVA, MD; KONDRASHOV, AS; CHUDAKOV, DM; PUTINTSEVA, EV; MAMEDOV, IZ; TAWFIK, DS; LUKYANOV, KA; KONDRASHOV, FA, 2016:Local fitness landscape of the green fluorescent protein. NATURE 533 (7603), p. 397 - 401.
• TURCHANINOVA, MA; DAVYDOV, A; BRITANOVA, OV; SHUGAY, M; BIKOS, V; EGOROV, ES; KIRGIZOVA, VI; MERZLYAK, EM; STAROVEROV, DB; BOLOTIN, DA; MAMEDOV, IZ; IZRAELSON, M; LOGACHEVA, MD; KLADOVA, O; PLEVOVA, K; POSPISILOVA, S; CHUDAKOV, DM, 2016:High-quality full-length immunoglobulin profiling with unique molecular barcoding. NATURE PROTOCOLS 11 (9), p. 1599 - 1616.

2015

• BOLOTIN, DA; POSLAVSKY, S; MITROPHANOV, I; SHUGAY, M; MAMEDOV, IZ; PUTINTSEVA, EV; CHUDAKOV, DM, 2015:MiXCR: software for comprehensive adaptive immunity profiling. NATURE METHODS 12 (5), p. 380 - 381.
• FENG, YQ; VAN DER VEEKEN, J; SHUGAY, M; PUTINTSEVA, EV; OSMANBEYOGLU, HU; DIKIY, S; HOYOS, BE; MOLTEDO, B; HEMMERS, S; TREUTING, P; LESLIE, CS; CHUDAKOV, DM; RUDENSKY, AY, 2015:A mechanism for expansion of regulatory T-cell repertoire and its role in self-tolerance. NATURE 528 (7580), p. 132 - 136.
• LUKER, KE; PATA, P; SHEMIAKINA, II; PEREVERZEVA, A; STACER, AC; SHCHERBO, DS; PLETNEV, VZ; SKOLNAJA, M; LUKYANOV, KA; LUKER, GD; PATA, I; CHUDAKOV, DM, 2015:Comparative study reveals better far-red fluorescent protein for whole body imaging. SCIENTIFIC REPORTS 5
• SHUGAY, M; BAGAEV, DV; TURCHANINOVA, MA; BOLOTIN, DA; BRITANOVA, OV; PUTINTSEVA, EV; POGORELYY, MV; NAZAROV, VI; ZVYAGIN, IV; KIRGIZOVA, VI; KIRGIZOV, KI; SKOROBOGATOVA, EV; CHUDAKOV, DM, 2015:VDJtools: Unifying Post-analysis of T Cell Receptor Repertoires. PLOS COMPUTATIONAL BIOLOGY 11 (11)
• SHUGAY, M; LUKYANOV, S; CHUDAKOV, DM, 2015:Sequencing rare T-cell populations. ONCOTARGET 6 (37), p. 39393 - 39394.

2014

• SHUGAY, M; BRITANOVA, OV; MERZLYAK, EM; TURCHANINOVA, MA; MAMEDOV, IZ; TUGANBAEV, TR; BOLOTIN, DA; STAROVEROV, DB; PUTINTSEVA, EV; PLEVOVA, K; LINNEMANN, C; SHAGIN, D; POSPISILOVA, S; LUKYANOV, S; SCHUMACHER, TN; CHUDAKOV, DM, 2014:Towards error-free profiling of immune repertoires. NATURE METHODS 11 (6), p. 653 - +.

2013

• BOLOTIN, DA; SHUGAY, M; MAMEDOV, IZ; PUTINTSEVA, EV; TURCHANINOVA, MA; ZVYAGIN, IV; BRITANOVA, OV; CHUDAKOV, DM, 2013:MiTCR: software for T-cell receptor sequencing data analysis. NATURE METHODS 10 (9), p. 813 - 814.
• LINNEMANN, C; HEEMSKERK, B; KVISTBORG, P; KLUIN, RJC; BOLOTIN, DA; CHEN, XJ; BRESSER, K; NIEUWLAND, M; SCHOTTE, R; MICHELS, S; GOMEZ-EERLAND, R; JAHN, L; HOMBRINK, P; LEGRAND, N; SHU, CJ; MAMEDOV, IZ; VELDS, A; BLANK, CU; HAANEN, JBAG; TURCHANINOVA, MA; K, 2013:High-throughput identification of antigen-specific TCRs by TCR gene capture. NATURE MEDICINE 19 (11), p. 1534 - +.

2012

• LUKER, KE; MIHALKO, LA; SCHMIDT, BT; LEWIN, SA; RAY, P; SHCHERBO, D; CHUDAKOV, DM; LUKER, GD, 2012:In vivo imaging of ligand receptor binding with Gaussia luciferase cornplementation. NATURE MEDICINE 18 (1), p. 172 - 177.
• SHEMIAKINA, II; ERMAKOVA, GV; CRANFILL, PJ; BAIRD, MA; EVANS, RA; SOUSLOVA, EA; STAROVEROV, DB; GOROKHOVATSKY, AY; PUTINTSEVA, EV; GORODNICHEVA, TV; CHEPURNYKH, TV; STRUKOVA, L; LUKYANOV, S; ZARAISKY, AG; DAVIDSON, MW; CHUDAKOV, DM; SHCHERBO, D, 2012:A monomeric red fluorescent protein with low cytotoxicity. NATURE COMMUNICATIONS 3

Office 1:

Masarykova univerzita - CEITEC MU Kamenice 753/5, Brno, 625 00, office bud. A35/147