<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE article PUBLIC "-//NLM//DTD JATS (Z39.96) Journal Publishing DTD v1.3 20210610//EN" "JATS-journalpublishing1-3.dtd">
<article article-type="research-article" dtd-version="1.3" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xml:lang="ru"><front><journal-meta><journal-id journal-id-type="publisher-id">vavilov</journal-id><journal-title-group><journal-title xml:lang="ru">Вавиловский журнал генетики и селекции</journal-title><trans-title-group xml:lang="en"><trans-title>Vavilov Journal of Genetics and Breeding</trans-title></trans-title-group></journal-title-group><issn pub-type="epub">2500-3259</issn><publisher><publisher-name>Institute of Cytology and Genetics of Siberian Branch of the RAS</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="doi">10.18699/VJ18.403</article-id><article-id custom-type="elpub" pub-id-type="custom">vavilov-1598</article-id><article-categories><subj-group subj-group-type="heading"><subject>Research Article</subject></subj-group><subj-group subj-group-type="section-heading" xml:lang="ru"><subject>ГЕНЕТИКА ЧЕЛОВЕКА</subject></subj-group><subj-group subj-group-type="section-heading" xml:lang="en"><subject>HUMAN GENETICS</subject></subj-group></article-categories><title-group><article-title>Полноэкзомный анализ первичного иммунодефицита</article-title><trans-title-group xml:lang="en"><trans-title>Whole exome analysis of primary immunodeficiency</trans-title></trans-title-group></title-group><contrib-group><contrib contrib-type="author" corresp="yes"><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Рахмани</surname><given-names>Э. Ш.</given-names></name><name name-style="western" xml:lang="en"><surname>Rahmani</surname><given-names>E. S.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Факультет медицинских биотехнологий, Школа комплементарной медицины</p><p>Тегеран</p></bio><bio xml:lang="en"><p>Department of Medical Biotechnology, College of Allied Medicine</p><p>Tehran</p></bio><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Азарпара</surname><given-names>Х.</given-names></name><name name-style="western" xml:lang="en"><surname>Azarpara</surname><given-names>Н.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Факультет медицины</p><p>Тегеран</p></bio><bio xml:lang="en"><p>Department of Medicine</p><p>Tehran</p></bio><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Каримипур</surname><given-names>M.</given-names></name><name name-style="western" xml:lang="en"><surname>Karimipoor</surname><given-names>M.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Факультет молекулярной медицины</p><p>Тегеран</p></bio><bio xml:lang="en"><p>Department of Molecular Medicine</p><p>Tehran</p></bio><xref ref-type="aff" rid="aff-2"/></contrib><contrib contrib-type="author" corresp="yes"><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Рахими</surname><given-names>Х.</given-names></name><name name-style="western" xml:lang="en"><surname>Rahimi</surname><given-names>Н.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Факультет молекулярной медицины</p><p>Тегеран</p></bio><bio xml:lang="en"><p>Department of Molecular Medicine</p><p>Tehran</p></bio><email xlink:type="simple">rahimi.h1981@gmail.com</email><xref ref-type="aff" rid="aff-2"/></contrib></contrib-group><aff-alternatives id="aff-1"><aff xml:lang="ru">Иранский университет медицинских наук<country>Иран</country></aff><aff xml:lang="en">Iran University of Medical Sciences<country>Islamic Republic of Iran</country></aff></aff-alternatives><aff-alternatives id="aff-2"><aff xml:lang="ru">Исследовательский центр биотехнологий, Институт Пастера Ирана<country>Иран</country></aff><aff xml:lang="en">Biotechnology Research Center, Pasteur Institute of Iran<country>Islamic Republic of Iran</country></aff></aff-alternatives><pub-date pub-type="collection"><year>2018</year></pub-date><pub-date pub-type="epub"><day>09</day><month>08</month><year>2018</year></pub-date><volume>22</volume><issue>5</issue><fpage>620</fpage><lpage>626</lpage><permissions><copyright-statement>Copyright &amp;#x00A9; Рахмани Э.Ш., Азарпара Х., Каримипур M., Рахими Х., 2018</copyright-statement><copyright-year>2018</copyright-year><copyright-holder xml:lang="ru">Рахмани Э.Ш., Азарпара Х., Каримипур M., Рахими Х.</copyright-holder><copyright-holder xml:lang="en">Rahmani E.S., Azarpara Н., Karimipoor M., Rahimi Н.</copyright-holder><license license-type="creative-commons-attribution" xlink:href="https://creativecommons.org/licenses/by/4.0/" xlink:type="simple"><license-p>This work is licensed under a Creative Commons Attribution 4.0 License.</license-p></license></permissions><self-uri xlink:href="https://vavilov.elpub.ru/jour/article/view/1598">https://vavilov.elpub.ru/jour/article/view/1598</self-uri><abstract><p>Первичный иммунодефицит представляет собой гетеро­генную группу редких наследственных мутаций единич­ного гена, вызывающих сбой в работе иммунной системы человека и проявляющихся в предрасположенности пациентов к тяжелым жизнеугрожающим инфекциям. Гетеро­генная природа первичного иммунодефицита, при которой мутации могут быть подвержены по меньшей мере 300 различных генов, серьезно осложняет его диагностику. И хотя было подсчитано, что от этого заболевания могут страдать около шести миллионов человек, только немно­гие из них могут рассчитывать на постановку правильного диагноза. Однако развитие методов секвенирования ДНК и доступность высокотехнологичного оборудования позволили сделать значительный шаг вперед в области моле-кулярных исследований генетических заболеваний. Тех­нология полноэкзомного анализа ДНК может оказать существенную помощь врачам при диагностировании менде­левских предрасположенностей к микробактериальным инфекциям и других форм редких генетических заболеваний. В представленном исследовании мы использовали метод полноэкзомного анализа ДНК для обследования двух младенцев с симптомами первичного иммунодефи­цита, такими как гемофагоцитарный лимфогистиоцитоз (ГЛГ) и тяжелый комбинированный иммунодефицит (ТКИД). Полноэкзомный анализ выявил мутацию UNC13D гена (NM_199242.2:c.627delT) у пациента с ГЛГ и мутацию RAG1 гена (NM_000448.2:c.322C&gt;G) – у пациента с ТКИД. Исследо­вание показало, что полноэкзомный анализ – это быстрый и экономичный метод, помогающий поставить правильный диагноз пациентам с первичным иммунодефицитом.</p></abstract><trans-abstract xml:lang="en"><p>The human primary immunodeficiency diseases (PIDs) refer to a rare heterogeneous group of single-gene inherited disorders causing malfunctions in the immune system, and thus the affected patients have a predisposition to severe life-threatening infections. The heterogeneous nature of PIDs, which involves at list 300 different genes, makes diagnosis of the disease a complex issue. Although studies revealed that six million people have a kind of PID, but due to a complex diagnosis procedure many affected individuals have not gotten a correct diagnosis. However, thanks to advancing in the DNA sequencing method and availability of sophisticated sequencers molecular characterization of genetic disorders have been revolutionized. The whole exome sequencing (WES) method can help clinicians detect Mendelian disease and other complex genetic disorders. The presented study used WES to investigate two infants with symptoms of primary immunodeficiency including hemophagocytic lymphohistio­cytosis (HLH) and severe combined immunodeficiency (SCID). It has been shown that the HLH patient had a mutation in the UNC13D gene (NM_199242.2:c.627delT), and the SCID patient had a mutation in the RAG1 gene (NM_000448.2:c.322C&gt;G). It has been demonstrated that WES is a fast and cost-effective method facilitating genetic diagnosis in PID sufferers.</p></trans-abstract><kwd-group xml:lang="ru"><kwd>первичный иммунодефицит</kwd><kwd>секвениро¬вание нового поколения</kwd><kwd>UNC13D</kwd><kwd>RAG1</kwd></kwd-group><kwd-group xml:lang="en"><kwd>primary immunodeficiency</kwd><kwd>next-generation sequencing</kwd><kwd>UNC13D</kwd><kwd>RAG1</kwd></kwd-group></article-meta></front><back><ref-list><title>References</title><ref id="cit1"><label>1</label><citation-alternatives><mixed-citation xml:lang="ru">Abolhassani H., Wang N., Aghamohammadi A., Rezaei N., Lee Y.N., Frugoni F., Notarangelo L.D., Pan-Hammarström Q., Hammarström L. A hypomorphic recombination-activating gene 1 (RAG1) mutation resulting in a phenotype resembling common variable immunodeficiency. J. Allergy Clin. Immunol. 2014;134(6):1375-1380. DOI 10.1016/j.jaci.2014.04.042.</mixed-citation><mixed-citation xml:lang="en">Abolhassani H., Wang N., Aghamohammadi A., Rezaei N., Lee Y.N., Frugoni F., Notarangelo L.D., Pan-Hammarström Q., Hammarström L. A hypomorphic recombination-activating gene 1 (RAG1) mutation resulting in a phenotype resembling common variable immunodeficiency. J. Allergy Clin. Immunol. 2014;134(6):1375-1380. DOI 10.1016/j.jaci.2014.04.042.</mixed-citation></citation-alternatives></ref><ref id="cit2"><label>2</label><citation-alternatives><mixed-citation xml:lang="ru">Adzhubei I.A., Schmidt S., Peshkin L., Ramensky V.E., Gerasimova A., Bork P., Kondrashov A.S., Sunyaev S.R. A method and server for predicting damaging missense mutations. Nat. Methods. 2010; 7(4):248-249. DOI 10.1038/nmeth0410-248.</mixed-citation><mixed-citation xml:lang="en">Adzhubei I.A., Schmidt S., Peshkin L., Ramensky V.E., Gerasimova A., Bork P., Kondrashov A.S., Sunyaev S.R. A method and server for predicting damaging missense mutations. Nat. Methods. 2010; 7(4):248-249. DOI 10.1038/nmeth0410-248.</mixed-citation></citation-alternatives></ref><ref id="cit3"><label>3</label><citation-alternatives><mixed-citation xml:lang="ru">Al-Herz W., Bousfiha A., Casanova J.-L., Chapel H., Conley M.E., Cunningham-Rundles C., Etzioni A., Fischer A., Franco J.L., Geha R.S., Hammarström L., Nonoyama S., Notarangelo L.D., Ochs H.D., Puck J.M., Roifman C.M., Seger R., Tang M.L. Primary immunodeficiency diseases: an update on the classification from the international union of immunological societies expert committee for primary immunodeficiency. Front. Immunol. 2011;2:54. DOI 10.1007/s10875-015-0201-1.</mixed-citation><mixed-citation xml:lang="en">Al-Herz W., Bousfiha A., Casanova J.-L., Chapel H., Conley M.E., Cunningham-Rundles C., Etzioni A., Fischer A., Franco J.L., Geha R.S., Hammarström L., Nonoyama S., Notarangelo L.D., Ochs H.D., Puck J.M., Roifman C.M., Seger R., Tang M.L. Primary immunodeficiency diseases: an update on the classification from the international union of immunological societies expert committee for primary immunodeficiency. Front. Immunol. 2011;2:54. DOI 10.1007/s10875-015-0201-1.</mixed-citation></citation-alternatives></ref><ref id="cit4"><label>4</label><citation-alternatives><mixed-citation xml:lang="ru">Bonilla F.A., Bernstein I.L., Khan D.A., Ballas Z.K., Chinen J., Frank M.M., Kobrynski L.J., Levinson A.I., Mazer B., Nelson R.P., Orange J.S., Routes J.M., Shearer W.T., Sorensen R.U. Practice parameter for the diagnosis and management of primary immunodeficiency. Ann. Allergy Asthma Immunol. 2005;94(5):S1-S63. DOI 10.1016/S1081-1206(10)61142-8.</mixed-citation><mixed-citation xml:lang="en">Bonilla F.A., Bernstein I.L., Khan D.A., Ballas Z.K., Chinen J., Frank M.M., Kobrynski L.J., Levinson A.I., Mazer B., Nelson R.P., Orange J.S., Routes J.M., Shearer W.T., Sorensen R.U. Practice parameter for the diagnosis and management of primary immunodeficiency. Ann. Allergy Asthma Immunol. 2005;94(5):S1-S63. DOI 10.1016/S1081-1206(10)61142-8.</mixed-citation></citation-alternatives></ref><ref id="cit5"><label>5</label><citation-alternatives><mixed-citation xml:lang="ru">Bousfiha A.A., Jeddane L., Ailal F., Benhsaien I., Mahlaoui N., Casanova J.L., Abel L. Primary immunodeficiency diseases worldwide: more common than generally thought. J. Clin. Immunol. 2013;33(1): 1-7. DOI 10.1007/s10875-012-9751-7.</mixed-citation><mixed-citation xml:lang="en">Bousfiha A.A., Jeddane L., Ailal F., Benhsaien I., Mahlaoui N., Casanova J.L., Abel L. Primary immunodeficiency diseases worldwide: more common than generally thought. J. Clin. Immunol. 2013;33(1): 1-7. DOI 10.1007/s10875-012-9751-7.</mixed-citation></citation-alternatives></ref><ref id="cit6"><label>6</label><citation-alternatives><mixed-citation xml:lang="ru">Bousfiha A., Jeddane L., Al-Herz W., Ailal F., Casanova J.L., Chatila T., Conley M.E., Cunningham-Rundles C., Etzioni A., Franco J.L., Gaspar H.B., Holland S.M., Klein C., Nonoyama S., Ochs H.D., Oksenhendler E., Picard C., Puck J.M., Sullivan K.E., Tang M. The 2015 IUIS phenotypic classification for primary immunodeficiencies. J. Clin. Immunol. 2015;35(8):727-738. DOI 10.1007/s10875015-0198-5.</mixed-citation><mixed-citation xml:lang="en">Bousfiha A., Jeddane L., Al-Herz W., Ailal F., Casanova J.L., Chatila T., Conley M.E., Cunningham-Rundles C., Etzioni A., Franco J.L., Gaspar H.B., Holland S.M., Klein C., Nonoyama S., Ochs H.D., Oksenhendler E., Picard C., Puck J.M., Sullivan K.E., Tang M. The 2015 IUIS phenotypic classification for primary immunodeficiencies. J. Clin. Immunol. 2015;35(8):727-738. DOI 10.1007/s10875015-0198-5.</mixed-citation></citation-alternatives></ref><ref id="cit7"><label>7</label><citation-alternatives><mixed-citation xml:lang="ru">Caboche S., Audebert C., Lemoine Y., Hot D. Comparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data. BMC Genomics. 2014;15(1):1. DOI 10.1186/14712164-15-264.</mixed-citation><mixed-citation xml:lang="en">Caboche S., Audebert C., Lemoine Y., Hot D. Comparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data. BMC Genomics. 2014;15(1):1. DOI 10.1186/14712164-15-264.</mixed-citation></citation-alternatives></ref><ref id="cit8"><label>8</label><citation-alternatives><mixed-citation xml:lang="ru">Chou J., Ohsumi T.K., Geha R.S. Use of whole exome and genome sequencing in the identification of genetic causes of primary immunodeficiencies. Curr. Opin. Allergy Clin. Immunol. 2012;12(6):623628. DOI 10.1097/ACI.0b013e3283588ca6.</mixed-citation><mixed-citation xml:lang="en">Chou J., Ohsumi T.K., Geha R.S. Use of whole exome and genome sequencing in the identification of genetic causes of primary immunodeficiencies. Curr. Opin. Allergy Clin. Immunol. 2012;12(6):623628. DOI 10.1097/ACI.0b013e3283588ca6.</mixed-citation></citation-alternatives></ref><ref id="cit9"><label>9</label><citation-alternatives><mixed-citation xml:lang="ru">Cingolani P., Platts A., Wang L.L., Coon M., Nguyen T., Wang L., Land S.J., Lu X., Ruden D.M. A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly. 2012;6(2):80-92. DOI 10.4161/fly.19695.</mixed-citation><mixed-citation xml:lang="en">Cingolani P., Platts A., Wang L.L., Coon M., Nguyen T., Wang L., Land S.J., Lu X., Ruden D.M. A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly. 2012;6(2):80-92. DOI 10.4161/fly.19695.</mixed-citation></citation-alternatives></ref><ref id="cit10"><label>10</label><citation-alternatives><mixed-citation xml:lang="ru">Conley M.E., Casanova J.-L. Discovery of single-gene inborn errors of immunity by next generation sequencing. Curr. Opin. Immunol. 2014;30:17-23. DOI 10.1016/j.coi.2014.05.004.</mixed-citation><mixed-citation xml:lang="en">Conley M.E., Casanova J.-L. Discovery of single-gene inborn errors of immunity by next generation sequencing. Curr. Opin. Immunol. 2014;30:17-23. DOI 10.1016/j.coi.2014.05.004.</mixed-citation></citation-alternatives></ref><ref id="cit11"><label>11</label><citation-alternatives><mixed-citation xml:lang="ru">Corneo B., Moshous D., Güngör T., Wulffraat N., Philippet P., Le Deist F.L., Fischer A., de Villartay J.P. Identical mutations in RAG1 or RAG2 genes leading to defective V(D)J recombinase activity can cause either T-B-severe combined immune deficiency or Omenn syndrome. Blood. 2001;97(9):2772-2776. DOI 10.1182/blood.V97.9.2772.</mixed-citation><mixed-citation xml:lang="en">Corneo B., Moshous D., Güngör T., Wulffraat N., Philippet P., Le Deist F.L., Fischer A., de Villartay J.P. Identical mutations in RAG1 or RAG2 genes leading to defective V(D)J recombinase activity can cause either T-B-severe combined immune deficiency or Omenn syndrome. Blood. 2001;97(9):2772-2776. DOI 10.1182/blood.V97.9.2772.</mixed-citation></citation-alternatives></ref><ref id="cit12"><label>12</label><citation-alternatives><mixed-citation xml:lang="ru">Eppig J.T., Blake J.A., Bult C.J., Kadin J.A., Richardson J.E. Mouse Genome Database Group. The Mouse Genome Database (MGD): Facilitating mouse as a model for human biology and disease. Nu¬cleic Acids Res. 2015;43:D726-D736. DOI 10.1093/nar/gku967.</mixed-citation><mixed-citation xml:lang="en">Eppig J.T., Blake J.A., Bult C.J., Kadin J.A., Richardson J.E. Mouse Genome Database Group. The Mouse Genome Database (MGD): Facilitating mouse as a model for human biology and disease. Nu¬cleic Acids Res. 2015;43:D726-D736. DOI 10.1093/nar/gku967.</mixed-citation></citation-alternatives></ref><ref id="cit13"><label>13</label><citation-alternatives><mixed-citation xml:lang="ru">Feldmann J., Callebaut I., Raposo G., Certain S., Bacq D., Dumont C., Lambert N., Ouachée-Chardin M., Chedeville G., Tamary H., Minard-Colin V. Munc13-4 is essential for cytolytic granules fusion and is mutated in a form of familial hemophagocytic lymphohistiocytosis (FHL3). Cell. 2003;115(4):461-473. DOI 10.1016/S00928674(03)00855-9.</mixed-citation><mixed-citation xml:lang="en">Feldmann J., Callebaut I., Raposo G., Certain S., Bacq D., Dumont C., Lambert N., Ouachée-Chardin M., Chedeville G., Tamary H., Mi¬nard-Colin V. Munc13-4 is essential for cytolytic granules fusion and is mutated in a form of familial hemophagocytic lymphohistiocytosis (FHL3). Cell. 2003;115(4):461-473. DOI 10.1016/S00928674(03)00855-9.</mixed-citation></citation-alternatives></ref><ref id="cit14"><label>14</label><citation-alternatives><mixed-citation xml:lang="ru">Firth H.V., Richards S.M., Bevan A.P., Clayton S., Corpas M., Rajan D., Van Vooren S., Moreau Y., Pettett R.M., Carter N.P. DECIPHER: database of chromosomal imbalance and phenotype in humans using ensembl resources. Am. J. Hum. Genet. 2009;84(4):524-533. DOI 10.1016/j.ajhg.2009.03.010.</mixed-citation><mixed-citation xml:lang="en">Firth H.V., Richards S.M., Bevan A.P., Clayton S., Corpas M., Rajan D., Van Vooren S., Moreau Y., Pettett R.M., Carter N.P. DECIPHER: database of chromosomal imbalance and phenotype in humans using ensembl resources. Am. J. Hum. Genet. 2009;84(4):524-533. DOI 10.1016/j.ajhg.2009.03.010.</mixed-citation></citation-alternatives></ref><ref id="cit15"><label>15</label><citation-alternatives><mixed-citation xml:lang="ru">Gilissen C., Hoischen A., Brunner H.G., Veltman J.A. Disease gene identification strategies for exome sequencing. Eur. J. Hum. Genet. 2012;20(5):490-497. DOI 10.1038/ejhg.2011.258.</mixed-citation><mixed-citation xml:lang="en">Gilissen C., Hoischen A., Brunner H.G., Veltman J.A. Disease gene identification strategies for exome sequencing. Eur. J. Hum. Genet. 2012;20(5):490-497. DOI 10.1038/ejhg.2011.258.</mixed-citation></citation-alternatives></ref><ref id="cit16"><label>16</label><citation-alternatives><mixed-citation xml:lang="ru">Greil J., Rausch T., Giese T., Bandapalli O.R., Daniel V., BekeredjianDing I., Stütz A.M., Drees C., Roth S., Ruland J., Korbel J.O., Kulozik A.E. Whole-exome sequencing links caspase recruitment domain 11 (CARD11) inactivation to severe combined immunodeficiency. J. Allergy Clin. Immunol. 2013;131(5):1376-1383. e1373. DOI 10.1016/j.jaci.2013.02.012.</mixed-citation><mixed-citation xml:lang="en">Greil J., Rausch T., Giese T., Bandapalli O.R., Daniel V., BekeredjianDing I., Stütz A.M., Drees C., Roth S., Ruland J., Korbel J.O., Kulozik A.E. Whole-exome sequencing links caspase recruitment domain 11 (CARD11) inactivation to severe combined immunodeficiency. J. Allergy Clin. Immunol. 2013;131(5):1376-1383. e1373. DOI 10.1016/j.jaci.2013.02.012.</mixed-citation></citation-alternatives></ref><ref id="cit17"><label>17</label><citation-alternatives><mixed-citation xml:lang="ru">Harrow J., Frankish A., Gonzalez J.M., Tapanari E., Diekhans M., Kokocinski F., Aken B.L., Barrell D., Zadissa A., Searle S., Barnes I., Bignell A., Boychenko V., Hunt T., Kay M., Mukherjee G., Rajan J., Despacio-Reyes G., Saunders G., Steward C., Harte R., Lin M., Howald C., Tanzer A., Derrien T., Chrast J., Walters N., Balasubramanian S., Pei B., Tress M., Rodriguez J.M., Ezkurdia I., van Baren J., Brent M., Haussler D., Kellis M., Valencia A., Reymond A., Gerstein M., Guigó R., Hubbard T.J. GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res. 2012;22(9):1760-1774. DOI 10.1101/gr.135350.111.</mixed-citation><mixed-citation xml:lang="en">Harrow J., Frankish A., Gonzalez J.M., Tapanari E., Diekhans M., Kokocinski F., Aken B.L., Barrell D., Zadissa A., Searle S., Barnes I., Bignell A., Boychenko V., Hunt T., Kay M., Mukherjee G., Rajan J., Despacio-Reyes G., Saunders G., Steward C., Harte R., Lin M., Howald C., Tanzer A., Derrien T., Chrast J., Walters N., Balasub¬ramanian S., Pei B., Tress M., Rodriguez J.M., Ezkurdia I., van Baren J., Brent M., Haussler D., Kellis M., Valencia A., Reymond A., Gerstein M., Guigó R., Hubbard T.J. GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res. 2012;22(9):1760-1774. DOI 10.1101/gr.135350.111.</mixed-citation></citation-alternatives></ref><ref id="cit18"><label>18</label><citation-alternatives><mixed-citation xml:lang="ru">Janka G. Familial and acquired hemophagocytic lymphohistiocytosis. Annu. Rev. Med. 2012;63:233-246. DOI 10.1146/annurev-med041610-134208.</mixed-citation><mixed-citation xml:lang="en">Janka G. Familial and acquired hemophagocytic lymphohistiocytosis. Annu. Rev. Med. 2012;63:233-246. DOI 10.1146/annurev-med041610-134208.</mixed-citation></citation-alternatives></ref><ref id="cit19"><label>19</label><citation-alternatives><mixed-citation xml:lang="ru">Kircher M., Witten D.M., Jain P., O’Roak B.J., Cooper G.M., Shendure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat. Genet. 2014;46(3):310. DOI 10.1038/ng.2892.</mixed-citation><mixed-citation xml:lang="en">Kircher M., Witten D.M., Jain P., O’Roak B.J., Cooper G.M., Shen¬dure J. A general framework for estimating the relative pathogenicity of human genetic variants. Nat. Genet. 2014;46(3):310. DOI 10.1038/ng.2892.</mixed-citation></citation-alternatives></ref><ref id="cit20"><label>20</label><citation-alternatives><mixed-citation xml:lang="ru">Kwan A., Puck J.M. Newborn screening for severe combined immu¬nodeficiency. Curr. Pediatr. Rep. 2015;3(1):34-42. DOI 10.1007/ s40124-014-0068-2.</mixed-citation><mixed-citation xml:lang="en">Kwan A., Puck J.M. Newborn screening for severe combined immunodeficiency. Curr. Pediatr. Rep. 2015;3(1):34-42. DOI 10.1007/ s40124-014-0068-2.</mixed-citation></citation-alternatives></ref><ref id="cit21"><label>21</label><citation-alternatives><mixed-citation xml:lang="ru">Li H., Handsaker B., Wysoker A., Fennell T., Ruan J., Homer N., Marth G., Abecasis G., Durbin R. The sequence alignment/map format and SAMtools. Bioinformatics. 2009;25(16):2078-2079. DOI 10.1093/bioinformatics/btp352.</mixed-citation><mixed-citation xml:lang="en">Li H., Handsaker B., Wysoker A., Fennell T., Ruan J., Homer N., Marth G., Abecasis G., Durbin R. The sequence alignment/map format and SAMtools. Bioinformatics. 2009;25(16):2078-2079. DOI 10.1093/bioinformatics/btp352.</mixed-citation></citation-alternatives></ref><ref id="cit22"><label>22</label><citation-alternatives><mixed-citation xml:lang="ru">Li M.-X., Gui H.-S., Kwan J.S., Bao S.-Y., Sham P.C. A comprehensive framework for prioritizing variants in exome sequencing studies of Mendelian diseases. Nucleic Acids Res. 2012;gkr1257.</mixed-citation><mixed-citation xml:lang="en">Li M.-X., Gui H.-S., Kwan J.S., Bao S.-Y., Sham P.C. A comprehensive framework for prioritizing variants in exome sequencing studies of Mendelian diseases. Nucleic Acids Res. 2012;gkr1257.</mixed-citation></citation-alternatives></ref><ref id="cit23"><label>23</label><citation-alternatives><mixed-citation xml:lang="ru">McCusker C., Warrington R. Primary immunodeficiency. Allergy Asthma Clin. Immunol. 2011;7(1):1. DOI 10.1186/1710-1492-7-S1-S11.</mixed-citation><mixed-citation xml:lang="en">McCusker C., Warrington R. Primary immunodeficiency. Allergy Asthma Clin. Immunol. 2011;7(1):1. DOI 10.1186/1710-1492-7-S1-S11.</mixed-citation></citation-alternatives></ref><ref id="cit24"><label>24</label><citation-alternatives><mixed-citation xml:lang="ru">Melek M., Gellert M. RAG1/2-mediated resolution of transposition in¬termediates: two pathways and possible consequences. Cell. 2000; 101(6):625-633. DOI 10.1016/S0092-8674(00)80874-0.</mixed-citation><mixed-citation xml:lang="en">Melek M., Gellert M. RAG1/2-mediated resolution of transposition in¬termediates: two pathways and possible consequences. Cell. 2000; 101(6):625-633. DOI 10.1016/S0092-8674(00)80874-0.</mixed-citation></citation-alternatives></ref><ref id="cit25"><label>25</label><citation-alternatives><mixed-citation xml:lang="ru">Miller S.A., Dykes D.D., Polesky H.F. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res. 1988;16:1215. DOI 10.1093/nar/16.3.1215.</mixed-citation><mixed-citation xml:lang="en">Miller S.A., Dykes D.D., Polesky H.F. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res. 1988;16:1215. DOI 10.1093/nar/16.3.1215.</mixed-citation></citation-alternatives></ref><ref id="cit26"><label>26</label><citation-alternatives><mixed-citation xml:lang="ru">Moens L.N., Falk-Sörqvist E., Asplund A.C., Bernatowska E., Smith C.E., Nilsson M. Diagnostics of primary immunodeficiency diseases: a sequencing capture approach. PloS One. 2014;9(12): e114901. DOI 10.1371/journal.pone.0114901.</mixed-citation><mixed-citation xml:lang="en">Moens L.N., Falk-Sörqvist E., Asplund A.C., Bernatowska E., Smith C.E., Nilsson M. Diagnostics of primary immunodeficiency diseases: a sequencing capture approach. PloS One. 2014;9(12): e114901. DOI 10.1371/journal.pone.0114901.</mixed-citation></citation-alternatives></ref><ref id="cit27"><label>27</label><citation-alternatives><mixed-citation xml:lang="ru">Mukda E., Trachoo O., Pasomsub E., Tiyasirichokchai R., Iemwimangsa N., Sosothikul D., Chantratita W., Pakakasama S. Exome sequencing for simultaneous mutation screening in children with hemophagocytic lymphohistiocytosis. Int. J. Hematol. 2017;1-9. DOI 10.1007/s12185-017-2223-3.</mixed-citation><mixed-citation xml:lang="en">Mukda E., Trachoo O., Pasomsub E., Tiyasirichokchai R., Iemwimangsa N., Sosothikul D., Chantratita W., Pakakasama S. Exome sequencing for simultaneous mutation screening in children with hemophagocytic lymphohistiocytosis. Int. J. Hematol. 2017;1-9. DOI 10.1007/s12185-017-2223-3.</mixed-citation></citation-alternatives></ref><ref id="cit28"><label>28</label><citation-alternatives><mixed-citation xml:lang="ru">Ng P.C., Henikoff S. SIFT: Predicting amino acid changes that affect protein function. Nucleic Acids Res. 2003;31(13):3812-3814. DOI 10.1093/nar/gkg509.</mixed-citation><mixed-citation xml:lang="en">Ng P.C., Henikoff S. SIFT: Predicting amino acid changes that affect protein function. Nucleic Acids Res. 2003;31(13):3812-3814. DOI 10.1093/nar/gkg509.</mixed-citation></citation-alternatives></ref><ref id="cit29"><label>29</label><citation-alternatives><mixed-citation xml:lang="ru">Patel R.K., Jain M. NGS QC Toolkit: a toolkit for quality control of next generation sequencing data. PloS One. 2012;7(2):e30619. DOI 10.1371/journal.pone.0030619.</mixed-citation><mixed-citation xml:lang="en">Patel R.K., Jain M. NGS QC Toolkit: a toolkit for quality control of next generation sequencing data. PloS One. 2012;7(2):e30619. DOI 10.1371/journal.pone.0030619.</mixed-citation></citation-alternatives></ref><ref id="cit30"><label>30</label><citation-alternatives><mixed-citation xml:lang="ru">Picard C., Al-Herz W., Bousfiha A., Casanova J.-L., Chatila T., Conley M.E., Cunningham-Rundles C., Etzioni A., Franco J.L., Gas¬par H.B., Holland S.M., Klein C., Nonoyama S., Ochs H.D., Oksenhendler E., Picard C., Puck J.M., Sullivan K., Tang M.L. Primary immunodeficiency diseases: an update on the classification from the International Union of Immunological Societies Expert Committee for primary immunodeficiency 2015. J. Clin. Immunol. 2015;35(8): 696-726. DOI 10.1007/s10875-015-0201-1.</mixed-citation><mixed-citation xml:lang="en">Picard C., Al-Herz W., Bousfiha A., Casanova J.-L., Chatila T., Conley M.E., Cunningham-Rundles C., Etzioni A., Franco J.L., Gaspar H.B., Holland S.M., Klein C., Nonoyama S., Ochs H.D., Oksenhendler E., Picard C., Puck J.M., Sullivan K., Tang M.L. Primary immunodeficiency diseases: an update on the classification from the International Union of Immunological Societies Expert Committee for primary immunodeficiency 2015. J. Clin. Immunol. 2015;35(8): 696-726. DOI 10.1007/s10875-015-0201-1.</mixed-citation></citation-alternatives></ref><ref id="cit31"><label>31</label><citation-alternatives><mixed-citation xml:lang="ru">Sanger F., Nicklen S., Coulson A.R. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci USA. 1977;74(12):54635467. DOI 10.1073/pnas.74.12.5463.</mixed-citation><mixed-citation xml:lang="en">Sanger F., Nicklen S., Coulson A.R. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci USA. 1977;74(12):54635467. DOI 10.1073/pnas.74.12.5463.</mixed-citation></citation-alternatives></ref><ref id="cit32"><label>32</label><citation-alternatives><mixed-citation xml:lang="ru">Schulert G.S., Zhang M., Fall N., Husami A., Kissell D., Hanosh A., Zhang K., Davis K., Jentzen J.M., Napolitano L., Siddiqui J., Smith L.B., Harms P.W., Grom A.A., Cron R.Q. Whole-exome se-quencing reveals mutations in genes linked to hemophagocytic lymphohistiocytosis and macrophage activation syndrome in fatal cases of H1N1 influenza. J. Infect. Dis. 2015;213(7):1180-1188. DOI 10.1093/infdis/jiv550.</mixed-citation><mixed-citation xml:lang="en">Schulert G.S., Zhang M., Fall N., Husami A., Kissell D., Hanosh A., Zhang K., Davis K., Jentzen J.M., Napolitano L., Siddiqui J., Smith L.B., Harms P.W., Grom A.A., Cron R.Q. Whole-exome se-quencing reveals mutations in genes linked to hemophagocytic lymphohistiocytosis and macrophage activation syndrome in fatal cases of H1N1 influenza. J. Infect. Dis. 2015;213(7):1180-1188. DOI 10.1093/infdis/jiv550.</mixed-citation></citation-alternatives></ref><ref id="cit33"><label>33</label><citation-alternatives><mixed-citation xml:lang="ru">Sifers T.M., Raje N., Dinakar C. Hemophagocytic lymphohistiocytosis: A concise review for the practicing physician. Allergy Asthma Proc. 2016;37(3):256-258. DOI 10.2500/aap.2016.37.3948.</mixed-citation><mixed-citation xml:lang="en">Sifers T.M., Raje N., Dinakar C. Hemophagocytic lymphohistiocytosis: A concise review for the practicing physician. Allergy Asthma Proc. 2016;37(3):256-258. DOI 10.2500/aap.2016.37.3948.</mixed-citation></citation-alternatives></ref><ref id="cit34"><label>34</label><citation-alternatives><mixed-citation xml:lang="ru">Sikkema-Raddatz B., Johansson L.F., Boer E.N., Almomani R., Boven L.G., van den Berg M.P., van Spaendonck-Zwarts K.Y., van Tintelen J.P., Sijmons R.H., Jongbloed J.D., Sinke R.J. Targeted next-generation sequencing can replace Sanger sequencing in clini¬cal diagnostics. Hum. Mutat. 2013;34(7):1035-1042. DOI 10.1002/humu.22332.</mixed-citation><mixed-citation xml:lang="en">Sikkema-Raddatz B., Johansson L.F., Boer E.N., Almomani R., Boven L.G., van den Berg M.P., van Spaendonck-Zwarts K.Y., van Tintelen J.P., Sijmons R.H., Jongbloed J.D., Sinke R.J. Targeted next-generation sequencing can replace Sanger sequencing in clinical diagnostics. Hum. Mutat. 2013;34(7):1035-1042. DOI 10.1002/humu.22332.</mixed-citation></citation-alternatives></ref><ref id="cit35"><label>35</label><citation-alternatives><mixed-citation xml:lang="ru">Stadt U.Z., Beutel K., Kolberg S., Schneppenheim R., Kabisch H., Janka G., Hennies H.C. Mutation spectrum in children with primary hemophagocytic lymphohistiocytosis: molecular and functional analyses of PRF1, UNC13D, STX11, and RAB27A. Hum. Mutat. 2006;27(1):62-68. DOI 10.1002/humu.20274.</mixed-citation><mixed-citation xml:lang="en">Stadt U.Z., Beutel K., Kolberg S., Schneppenheim R., Kabisch H., Janka G., Hennies H.C. Mutation spectrum in children with primary hemophagocytic lymphohistiocytosis: molecular and functional analyses of PRF1, UNC13D, STX11, and RAB27A. Hum. Mutat. 2006;27(1):62-68. DOI 10.1002/humu.20274.</mixed-citation></citation-alternatives></ref><ref id="cit36"><label>36</label><citation-alternatives><mixed-citation xml:lang="ru">Stoddard J.L., Niemela J.E., Fleisher T.A., Rosenzweig S.D. Targeted NGS: a cost-effective approach to molecular diagnosis of PIDs. Front. Immunol. 2014;5:531. DOI 10.3389/fimmu.2014.00531.</mixed-citation><mixed-citation xml:lang="en">Stoddard J.L., Niemela J.E., Fleisher T.A., Rosenzweig S.D. Targeted NGS: a cost-effective approach to molecular diagnosis of PIDs. Front. Immunol. 2014;5:531. DOI 10.3389/fimmu.2014.00531.</mixed-citation></citation-alternatives></ref><ref id="cit37"><label>37</label><citation-alternatives><mixed-citation xml:lang="ru">Tamura S., Higuchi K., Tamaki M., Inoue C., Awazawa R. Mitsuki N., Nakazawa Y., Mishima H., Takahashi K., Kondo O., Imai K., Morio T., Ohara O., Ogi T., Furukawa F., Inoue M., Yoshiura K., Kanazawa N. Novel compound heterozygous DNA ligase IV mutations in an adolescent with a slowly-progressing radiosensitive-severe combined immunodeficiency. Clin. Immunol. 2015;160(2):255-260. DOI 10.1016/j.clim.2015.07.004.</mixed-citation><mixed-citation xml:lang="en">Tamura S., Higuchi K., Tamaki M., Inoue C., Awazawa R. Mitsuki N., Nakazawa Y., Mishima H., Takahashi K., Kondo O., Imai K., Morio T., Ohara O., Ogi T., Furukawa F., Inoue M., Yoshiura K., Kanazawa N. Novel compound heterozygous DNA ligase IV mutations in an adolescent with a slowly-progressing radiosensitive-severe combined immunodeficiency. Clin. Immunol. 2015;160(2):255-260. DOI 10.1016/j.clim.2015.07.004.</mixed-citation></citation-alternatives></ref><ref id="cit38"><label>38</label><citation-alternatives><mixed-citation xml:lang="ru">Van der Auwera G.A., Carneiro M.O., Hartl C., Poplin R., del Angel G., Levy-Moonshine A., Jordan T., Shakir K., Roazen D., Thibault J., Banks E., Garimella K.V., Altshuler D., Gabriel S., DePristo M.A. From FastQ data to high-confidence variant calls: the genome analysis toolkit best practices pipeline. Curr. Protoc. Bioinformatics. 2013;11:11.10.11-11.10.33. DOI 10.1002/0471250953.bi1110s43.</mixed-citation><mixed-citation xml:lang="en">Van der Auwera G.A., Carneiro M.O., Hartl C., Poplin R., del Angel G., Levy-Moonshine A., Jordan T., Shakir K., Roazen D., Thibault J., Banks E., Garimella K.V., Altshuler D., Gabriel S., DePristo M.A. From FastQ data to high-confidence variant calls: the genome analysis toolkit best practices pipeline. Curr. Protoc. Bioinformatics. 2013;11:11.10.11-11.10.33. DOI 10.1002/0471250953.bi1110s43.</mixed-citation></citation-alternatives></ref><ref id="cit39"><label>39</label><citation-alternatives><mixed-citation xml:lang="ru">Vrijenhoek T., Kraaijeveld K., Elferink M., De Ligt J., Kranendonk E., Santen G., Nijman I.J., Butler D., Claes G., Costessi A., Dorlijn W., van Eyndhoven W., Halley D.J., van den Hout M.C., van Hove S., Johansson L.F., Jongbloed J.D., Kamps R., Kockx C.E., de Kon¬ing B., Kriek M., Lekanne Dit Deprez R., Lunstroo H., Mannens M., Mook O.R., Nelen M., Ploem C., Rijnen M., Saris J.J., Sinke R., Sistermans E., van Slegtenhorst M., Sleutels F., van der Stoep N., van Tienhoven M., Vermaat M., Vogel M., Waisfisz Q., Marjan Weiss J., van den Wijngaard A., van Workum W., Ijntema H., van der Zwaag B., van IJcken W.F., den Dunnen J., Veltman J.A., Hennekam R., Cuppen E. Next-generation sequencing-based genome diagnostics across clinical genetics centers: implementation choices and their effects. Eur. J. Hum. Genet. 2015;23(9):1142-1150. DOI 10.1038/ejhg.2014.279.</mixed-citation><mixed-citation xml:lang="en">Vrijenhoek T., Kraaijeveld K., Elferink M., De Ligt J., Kranendonk E., Santen G., Nijman I.J., Butler D., Claes G., Costessi A., Dorlijn W., van Eyndhoven W., Halley D.J., van den Hout M.C., van Hove S., Johansson L.F., Jongbloed J.D., Kamps R., Kockx C.E., de Koning B., Kriek M., Lekanne Dit Deprez R., Lunstroo H., Mannens M., Mook O.R., Nelen M., Ploem C., Rijnen M., Saris J.J., Sinke R., Sistermans E., van Slegtenhorst M., Sleutels F., van der Stoep N., van Tienhoven M., Vermaat M., Vogel M., Waisfisz Q., Marjan Weiss J., van den Wijngaard A., van Workum W., Ijntema H., van der Zwaag B., van IJcken W.F., den Dunnen J., Veltman J.A., Hennekam R., Cuppen E. Next-generation sequencing-based genome diagnostics across clinical genetics centers: implementation choices and their effects. Eur. J. Hum. Genet. 2015;23(9):1142-1150. DOI 10.1038/ejhg.2014.279.</mixed-citation></citation-alternatives></ref><ref id="cit40"><label>40</label><citation-alternatives><mixed-citation xml:lang="ru">Wang K., Li M., Hakonarson H. ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data. Nucleic Acids Res. 2010;38(16):e164. DOI 10.1093/nar/gkq603.</mixed-citation><mixed-citation xml:lang="en">Wang K., Li M., Hakonarson H. ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data. Nucleic Acids Res. 2010;38(16):e164. DOI 10.1093/nar/gkq603.</mixed-citation></citation-alternatives></ref></ref-list><fn-group><fn fn-type="conflict"><p>The authors declare that there are no conflicts of interest present.</p></fn></fn-group></back></article>
