Tip and Trik menulis artikel ilmiah

By Prof. Fatchiyah, Ph.D.

Apr

14

Ketika Penulis mengatur naskah Penulis, hal pertama yang perlu dipertimbangkan adalah bahwa urutan bagian akan sangat berbeda dari urutan item pada daftar periksa Penulis.

Sebuah artikel dimulai dengan Judul, Abstrak dan Kata Kunci.

Teks artikel mengikuti format IMRAD (Introduction, Methods, Results, and Discussion), yang menjawab pertanyaan di bawah ini:

  1. Pendahuluan: Apa yang Penulis / orang lain lakukan? Kenapa kamu melakukannya?
  2. Metode: Bagaimana Penulis melakukannya?
  3. Hasil: Apa yang Penulis temukan?
  4. Dan
  5. Diskusi: Apa artinya semua itu?
  6. Teks utama diikuti oleh Kesimpulan, Ucapan Terima Kasih, Referensi dan Bahan Pendukung.

Lebih lengkap, silahkan baca di tulisan saya berikat:

Tip and Trik menulis artikel ilmiah (PDF)

Manajemen Laboratorium berbasis GLP dan Penyusunan Dokumen

By Prof. Fatchiyah, Ph.D.

Oct

7

Kemenristekdikti sangat mendukung publikasi ilmiah di berbagai jurnal bereputasi nasional dan internasional. Untuk mendukung program tersebut lembaga riset di universitas maupun non universitas sebaiknya memiliki laboratorium-2 yang berstandar GLP atau good laboratory practice dan manajemen laboratorium yang memenuhi persyaratan sesuai dengan fungsi laboratorium yang ditetapkan masing-2 institusi. Manajemen laboratorium yang benar wajib menyusun dokumen-2 mutu dan pendukungnya.

Lampiran-lampiran yang bisa dipelajari

1. Modul Bimtek bioengineering Manajemen laboratorium

2. SNI-ISO-IEC-17025-2008-Standard

3. Pedoman gap_analysis_17025_2017_rev (1)_KAN

4. GLP Mangement and Document Fatchiyah

5. Pedoman Baru ISO 17025 2017 Fatchiyah_New

6. Peran PLP dalam Manajemen Laboratorium Pendidikan (Fatchiyah).compressed

SEMOGA BERMANFAAT

TABLE of GENETIC DISORDERS

By Prof. Fatchiyah, Ph.D.

Sep

4

Disease Category Pathogenesis / Heredity Pathology, Cardinal Symptoms
Cystic Fibrosis Autosomal Recessive. CFTR gene defect on Chrom 7 ——> No Cl– transport and failure to hydrate mucous secretions (no NaCl transport) ——> excessively viscous mucoid exocrine secretions Meconium ileus (caused by thick, mucoid meconium), respiratory bronchiectasis,Pseudomonas pneumonia, pancreatic insufficiency, hypertonic (high Cl–concentration) sweat.
Fanconi Anemia Autosomal Recessive congenital pancytopenia. Normocytic anemia with neutropenia.Short stature, microcephaly, hypogenitalism, strabismus, anomalies of the thumbs, radii, and kidneys, mental retardation, and microphthalmia.
Hartnup’s Disease Autosomal Recessive. Defect in GI uptake of neutral amino acids ——> malabsorption oftryptophan (niacin precursor) ——> niacin deficiency among other things. Pellagra-like syndrome (diarrhea, dementia, dermatitis), light-sensitive skin rash, temporary cerebellar ataxia.
Kartagener’s Syndrome Autosomal Recessive. Defect in dynein arms ——> lost motility of cilia Recurrent sinopulmonary infections (due to impaired ciliary tract). Situs inversus, due to impaired ciliary motion during embryogenesis: lateral transposition of lungs, abdominal and thoracic viscera are on opposite sides of the body as normal. Possible dextrocardia, male sterility.
Pyruvate Dehydrogenase Deficiency Autosomal Recessive. Pyruvate Dehydrogenase deficiency ——> buildup of lactate and pyruvate ——> lactic acidosis. Neurologic defects.Treatment: Increase intake of ketogenic nutrients (leucine, lysine) ——> increase formation of Acetyl-CoA from other sources.
Xeroderma Pigmentosum Autosomal Recessive. Defect in DNA repair, inability to repair thymine dimers resulting fromUV-light exposure ——> excessive skin damage and skin cancer. Dry skin, melanomas, pre-malignant lesions, other cancers. Ophthalmic and neurologic abnormalities.
Familial Hypercholesterolemia Autosomal Dominant Disorders Autosomal Dominant. LDL-Receptor defect. Heterozygous: accelerated atherosclerosis. Homozygous: accelerated atherosclerosis, MI by age 35, xanthomas.
Hereditary Hemorrhagic Telangiectasia (Osler-Weber-Rendu Syndrome) Autosomal Dominant Disorders Autosomal Dominant. Telangiectasias of skin and mucous membranes.
Hereditary Spherocytosis Autosomal Dominant Disorders Autosomal Dominant. Band-3 deficiency in RBC membrane ——> spherical shape to cells. Other RBC structural enzyme deficiencies can cause it, too. Sequestration of spherocytes in spleen ——> hemolytic anemia.
Huntington’s Disease Autosomal Dominant Disorders Autosomal Dominant, 100% penetrance.Genetic defect on Chrom 4 ——> atrophy of caudate nuclei, putamen, frontal cortex. Progressive dementia with onset in adulthood, choreiform movements, athetosis.
Marfan’s Syndrome Autosomal Dominant Disorders Autosomal Dominant. Fibrillin deficiency ——> faulty scaffolding in connective tissue (elastin has no anchor). Arachnodactyly, dissecting aortic aneurysms, ectopia lentis (subluxation of lens), mitral valve prolapse.
Neurofibromatosis (Von Recklinghausen Disease) Autosomal Dominant Disorders Autosomal Dominant. NF1 gene defect (no GTPase protein) ——> dysregulation of Ras tumor-suppressor protein. Multiple neurofibromas (Café au Lait spots) which may become malignant,Lisch nodules (pigmented hamartomas of the iris).Increased risk for tumors: pheochromocytoma, Wilms tumor, Rhabdomyosarcoma, leukemias.
Tuberous Sclerosis Autosomal Dominant Disorders Autosomal Dominant. Tubers (glial nodules), seizures, mental retardation. Associated with adenoma sebaceum (facial lesion), myocardial rhabdomyomas, renal angiomyolipomas.
Von Hippel-Lindau Syndrome Autosomal Dominant Disorders Autosomal Dominant, short arm of chromosome 3. Same genetic region is associated with incidence of renal cell carcinoma. (1) Hemangioblastomas of cerebellum, medulla, or retina, (2) adenomas, (3) cysts in visceral organs. High risk for renal cell carcinoma.
Congenital Fructose Intolerance Carbohydrate Metabolism Defect Autosomal Recessive. Aldolase B deficiency ——> buildup of Fructose-1-Phosphate in tissues ——> inhibit glycogenolysis and gluconeogenesis. Severe hypoglycemia. Treatment: Remove fructose from diet.
Galactosemia Carbohydrate Metabolism Defect Autosomal Recessive. Inability to convert galactose to glucose ——> accumulation of galactose in many tissues.(1) Classic form: Galactose-1-phosphate Uridyltransferase deficiency.(2) Rarer form: Galactokinase deficiency. Failure to thrive, infantile cataracts, mental retardation. Progressive hepatic failure, cirrhosis, death.Galactokinase-deficiency: infantile cataracts are prominent.Treatment: in either case,remove galactose from diet.
Angelman Syndrome Chromosomal Deletion of part of short arm of chromosome 15, maternal copy. An example of genomic imprinting. Mental retardation, ataxic gait, seizures.Inappropriate laughter.
Cri du Chat Syndrome Chromosomal 5p-, deletion of the long arm of chromosome 5. “Cry of the cat.” Severe mental retardation, microcephaly, cat-like cry. Low birth-weight, round-face, hypertelorism (wide-set eyes), low-set ears, epicanthal folds.
Down Syndrome(Trisomy 21) Chromosomal Trisomy 21, with risk increasing with maternal age. Familial form (no age-associated risk) is translocation t(21,x) in a minority of cases. Most common cause of mental retardation. Will see epicanthal folds, simian crease, brushfield spots in eyes. Associated syndromes: congenital heart disease, leukemia,premature Alzheimer’s disease (same morphological changes).
Edward’s Syndrome(Trisomy 18) Chromosomal Trisomy 18 Mental retardation, micrognathia, rocker-bottom feet, congenital heart disease, flexion deformities of fingers. Death by 1 year old.
Patau’s Syndrome(Trisomy 13) Chromosomal Trisomy 13 Mental retardation, microphthalmia, cleft lip and palate, polydactyly, rocker-bottom feet, congenital heart disease. Similar to and more severe than Edward’s Syndrome. Death by 1 year old.
Prader-Willi Syndrome Chromosomal Deletion of part of short arm of chromosome 15, paternal copy. An example of genomic imprinting. Mental retardation, short stature, hypotonia, obesity and huge appetite after infancy. Small hands and feet, hypogonadism.
Fragile-X Syndrome ChromosomalSex chromosome Progressively longer tandem repeats on the long arm of the X-chromosome. The longer the number of repeats, the worse the syndrome. Tandem repeats tend to accumulate through generations. Second most common cause of mental retardation next to Down Syndrome. Macro-orchidism (enlarged testes) in males.
Klinefelter’s Syndrome (XXY) ChromosomalSex chromosome Non-disjunction of the sex chromosome during Anaphase I of meiosis ——> Trisomy (47,XXY) Hypogonadism, tall stature, gynecomastia. Mild mental retardation. Usually not diagnosed until after puberty. One Barr body seen on buccal smear.
Turner’s Syndrome (XO) ChromosomalSex chromosome Non-disjunction of the sex chromosome during Anaphase I of meiosis ——> Monosomy (45,X) Streak gonads, primary amenorrhea, webbed neck, short stature, coarctation of Aorta, infantile genitalia. No mental retardation. No Barr bodies visible on buccal smear.
XXX Syndrome ChromosomalSex chromosome Trisomy (47,XXX) and other multiple X-chromosome abnormalities. Usually phenotypically normal. May see menstrual abnormalities or mild mental retardation in some cases.
Ehlers-Danlos Syndrome Connective Tissue disease Various defects in collagen synthesis.

  • Type-I: Autosomal dominant, mildest form.
  • Type-IV: autosomal dominant. Defect in reticular collagen (type-III)
  • Type-VI: autosomal-recessive.
  • Type-VII: Defect in collagen type I
  • Type-IX: X-linked recessive
 Laxity of joints, hyperextensibility of skin, poor wound healing, aneurysms.

  • Type-I: Diaphragmatic hernia. Common, normal life-expectancy.
  • Type-IV: Ecchymoses, arterial rupture. Dangerousdue to rupture aneurysms.
  • Type-VI: Retinal detachment, corneal rupture
Osteogenesis Imperfecta Connective tissue disease Defects in Collagen Type I formation. Multiple fractures after birth, blue sclerae, thin skin, progressive deafness in some types (due to abnormal middle ear ossicles).Type-I is most common;Type-II is most severe;Type-IV is mildest form.
Cori’s Disease(Glycogen Storage Disease Type III) Glycogen Storage Disease Autosomal Recessive. Debranching enzyme deficiency (can only break down linear chains of glycogen, not at branch points) ——> accumulate glycogen in liver, heart, skeletal muscle. Stunted growth, hepatomegaly, hypoglycemia.
McArdle’s Disease(Glycogen Storage Disease Type V) Glycogen Storage Disease Autosomal Recessive. muscle phosphorylase deficiency (cannot utilize glycogen in skeletal muscle) ——> accumulation of glycogen in skeletal muscle. Muscle cramps, muscle weakness, easy fatigability. Myoglobinuria with strenuous exercise.
Pompe’s Disease(Glycogen Storage Disease Type II) Glycogen Storage Disease Autosomal Recessive. alpha-1,4-Glucosidase deficiency (cannot break down glycogen) ——> accumulate glycogen in liver, heart, skeletal muscle. Cardiomegaly, hepatomegaly, and systemic findings, leading to early death.
Von Gierke’s Disease(Glycogen Storage Disease Type I) Glycogen Storage Disease Autosomal Recessive. Glucose-6-Phosphatase deficiency (cannot break down glycogen) ——> accumulate glycogen in liver and kidney. Severe fastinghypoglycemia, hepatomegaly from lots of glycogen in liver.
Hemophilia A (Factor VIII Deficiency) Hemophilia X-Linked Recessive. Factor VIII deficiency Hemorrhage, hematuria, hemarthroses. Prolonged PTT.
Hemophilia B (Factor IX Deficiency) Hemophilia X-Linked Recessive. Factor IX deficiency. Milder than Hemophilia A. Hemorrhage, hematuria, hemarthroses. Prolonged PTT.
Von Willebrand Disease Hemophilia Autosomal dominant and recessive varieties. Von Willebrand Factor deficiency ——> defect in initial formation of platelet plugs, and shorter half-life of Factor VIII in blood. Hemorrhage, similar to hemophilia.Type-I: Most mild. Type-II: Intermediate. Type-III: most severe, with recessive inheritance (complete absence).
Ataxia-Telangiectasia Immune deficiencyCombined Deficiency Autosomal Recessive. Unknown. Numerous chromosomal breaks and elevated AFP is found. Symptomatic by age 2 years. Cerebellar ataxia, telangiectasia (enlarged capillaries of face and skin), B and T-Cell deficiencies, IgA deficiency.
Chédiak-Higashi Syndrome Immune deficiencyPhagocyte Deficiency Defect in polymerization of microtubules in neutrophils ——> failure in neutrophil migration and phagocytosis. Also results in failure in lysosomal function in neutrophils. Recurrent pyogenic infections, Staphylococcus, Streptococcus.
Chronic Granulomatous Disease Immune deficiencyPhagocyte Deficiency X-Linked (usually) NADPH Oxidase deficiency ——> no formation of peroxides and superoxides ——> no oxidative burst in phagocytes. Failure of phagocytes leads to susceptibility to infections, especially Staph Aureus and Aspergillus spp. B and T cells usually remain normal.
Chronic Mucocutaneous Candidiasis Immune deficiencyT-Cell Deficiency T-Cell deficiency specific to Candida. Selective recurrentCandida infections. Treat with anti-fungal drugs.
Job’s Syndrome Immune deficiencyPhagocyte Deficiency A failure to produce gamma-Interferon by T-Helper cells, leading to an increase in TH2 cells (no negative feedback) ——> excessively high levels of IgE. High histamine levels, eosinophilia. Recurrentcold (non-inflammatory) Staphylococcal abscesses(resulting from high histamine), eczema.
Selective IgA Deficiency Immune deficiencyB-Cell Deficiency IgA deficiency may be due to a failure of heavy-chain gene switching. The most common congenital immune deficiency.  There also exists selective IgM and IgG deficiencies, but they are less common.
Severe Combined Immunodeficiency (SCID) Immune deficiencyCombined Deficiency Autosomal Recessive. Adenosine Deaminase deficiency ——> accumulation of dATP ——> inhibit ribonucleotide reductase ——> decrease in DNA precursors Severe deficiency in both humoral and cellular immunity, due to impaired DNA synthesis. Bone marrow transplant may be helpful in treatment.
Thymic Aplasia (DiGeorge Syndrome) Immune deficiencyT-Cell Deficiency Failure of development of the 3rd and 4th Pharyngeal Pouches ——> agenesis of the thymus and parathyroid glands. T-Cell deficiency from no thymus. Hypocalcemic tetany from primary parathyroid deficiency.
Wiskott-Aldrich Syndrome Immune deficiencyCombined Deficiency Inability to mount initial IgM response to the capsular polysaccharides of pyogenic bacteria. In infancy, recurrent pyogenic infections, eczema, thrombocytopenia, excessive bleeding. IgG levels remain normal.
X-Linked Agammaglobulinemia (Bruton’s Disease) Immune deficiencyB-Cell Deficiency X-Linked. Mutation in gene coding for tyrosine kinase causes failure of Pre-B cells to differentiate into B-Cells. Recurrent pyogenic infections after 6 months (when maternal antibodies wear off). Can treat with polyspecific gamma globulin preparations.
Fabry’s Disease Lysosomal Storage Disease X-Linked Recessive. alpha-Galactosidase A deficiency ——> buildup of ceramide trihexosidein body tissues. Angiokeratomas (skin lesions) over lower trunk, fever, severe burning pain in extremities, cardiovascular and cerebrovascular involvement.
Gaucher’s Disease Lysosomal Storage Disease Autosomal Recessive. Glucocerebrosidase deficiency ——> accumulation of glucocerebrosides (gangliosides, sphingolipids) in lysosomes throughout the body.
  • Type-I: Adult form. 80% of cases, retain partial activity. Hepatosplenomegaly, erosion of femoral head, mild anemia. Normal lifespan with treatment.
  • Type-II: Infantile form. Severe CNS involvement. Death before age 1.
  • Type-III: Juvenile form. Onset in early childhood, involving both CNS and viscera, but less severe than Type II.
Niemann-Pick Lipidosis Lysosomal Storage Disease Autosomal Recessive. Sphingomyelinase deficiency ——> accumulation of sphingomyelin in phagocytes. Sphingomyelin-containingfoamy histiocytes in reticuloendo-thelial system and spleen. Hepatosplenomegaly, anemia, fever, sometimes CNS deterioration. Death by age 3.
Hunter’s Syndrome Lysosomal Storage Disease X-Linked Recessive. L-iduronosulfate sulfatase deficiency ——> buildup ofmucopolysaccharides (heparan sulfate and dermatan sulfate) Similar to but less severe than Hurler Syndrome. Hepatosplenomegaly, micrognathia, retinal degeneration, joint stiffness, mild retardation, cardiac lesions.
Hurler’s Syndrome Lysosomal Storage Disease Autosomal Recessive. alpha-L-iduronidase deficiency ——> accumulation ofmucopolysaccharides (heparan sulfate, dermatan sulfate) in heart, brain, liver, other organs. Gargoyle-like facies, progressive mental deterioration, stubby fingers, death by age 10. Similar to Hunter’s Syndrome.
Tay-Sachs Disease Lysosomal Storage Disease Autosomal Recessive. Hexosaminidase A deficiency ——> accumulation of GM2 ganglioside in neurons. CNS degeneration, retardation, cherry red-spot of macula, blindness (amaurosis). Death before age 4.
Albinism Nitrogen Metabolism Defect Autosomal Recessive. Tyrosinase deficiency ——> inability to synthesize melanin from tyrosine. Can result from a lack of migration of neural crest cells. Depigmentation, pink eyes, increased risk of skin cancer.
Alkaptonuria Nitrogen Metabolism Defect Autosomal Recessive. Homogentisic Oxidase deficiency (inability to metabolize Phe and Tyr) ——> buildup and urinary excretion of homogentisic acid. Urine turns dark and black on standing, ochronosis(dark pigmentation of fibrous and cartilage tissues), ochronotic arthritis, cardiac valve involvement. Disease is generally benign.
Homocystinuria Nitrogen Metabolism Defect Autosomal Recessive. Cystathionine synthase defect (either deficiency, or lost affinity for pyridoxine, Vit. B6) ——> buildup of homocystine and deficiency of cysteine. Mental retardation, ectopia lentis, sparse blond hair, genu valgum, failure to thrive, thromboembolic episodes, fatty changes of liver.Treatment: Cysteine supplementation, give excess pyridoxine to compensate for lost pyridoxine affinity.
Lesch-Nyhan Syndrome Nitrogen Metabolism Defect X-Linked Recessive. Hypoxanthine-Guanine Phosphoribosyltransferase (HGPRT) deficiency ——> no salvage pathway for purine re-synthesis ——> buildup of purine metabolites Hyperuricemia (gout), mental retardation, self-mutilation (autistic behavior), choreoathetosis, spasticity.
Maple Syrup Urine Disease Nitrogen Metabolism Defect Autosomal Recessive. Deficiency of branched chain keto-acid decarboxylase ——> no degradation of branched-chain amino acids ——> buildup of isoleucine, valine, leucine. Severe CNS defects, mental retardation, death. Person smells like maple syrup or burnt sugar. Treatment: remove the amino acids from diet.
Phenylketonuria (PKU) Nitrogen Metabolism Defect Autosomal Recessive. Phenylalanine hydroxylase deficiency (cannot break down Phe nor make Tyr) ——> buildup of phenylalanine, phenyl ketones (phenylacetate, phenyl lactate, phenylpyruvate) in body tissues and CNS. Symptoms result from accumulation of phenylalanine itself. Mental deterioration, hypopigmentation (blond hair and blue eyes), mousy body odor (from phenylacetic acid in urine and sweat).Treatment: remove phenylalanine from diet.
Glucose-6-Phosphate Dehydrogenase (G6PD) Deficiency RBC Disease X-Linked Recessive. Glucose-6-Phosphate Dehydrogenase (G6PD) deficiency ——> no hexose monophosphate shunt ——> deficiency in NADPH ——> inability to maintain glutathione in reduced form, in RBC’s Susceptibility to oxidative damage to RBC’s, leading to hemolytic anemia. Can be elicited by drugs (primaquine, sulfonamides, aspirin), fava beans (favism). More prevalent in blacks.
Glycolytic enzyme deficiencies RBC Disease Autosomal Recessive. Defect in hexokinase, glucose-phosphate isomerase, aldolase, triose-phosphate isomerase, phosphate-glycerate kinase, or enolase. Any enzyme in glycolysis pathway. Hemolytic anemia results from any defect in the glycolysis pathway, as RBC’s depend on glycolysis for energy.
Autosomal Recessive Polycystic Kidney Disease (ARPKD) Renal Autosomal Recessive. Numerous, diffuse bilateral cysts formed in the collecting ducts. Associated with hepatic fibrosis.
Bartter’s Syndrome Renal Juxtaglomerular Cell Hyperplasia, leading to primary hyper-reninemia. Elevated renin and aldosterone, hypokalemic alkalosis. No hypertension.
Fanconi’s Syndrome Type I(Child-onset cystinosis) Renal Autosomal Recessive. Deficient resorption in proximal tubules. (1) Cystine deposition throughout body, cystinuria. (2) Defective tubular resorption leads to amino-aciduria, polyuria, glycosuria, chronic acidosis;Hypophosphatemia andVitamin-D-resistant Rickets.
Fanconi’s Syndrome II(Adult-onset) Renal Autosomal Recessive. Defective resorption in proximal tubules. Similar to Fanconi Syndrome Type I, but without the cystinosis. Adult onset osteomalacia, amino-aciduria, polyuria, glycosuria.
Autosomal Dominant Polycystic Kidney Disease (ADPKD) RenalAutosomal Dominant Disorders Autosomal Dominant. Numerous, disparate, heterogenous renal cysts occurring bilaterally. Onset in adult life. Associated with liver cysts.

TABLE of GENETIC DISORDERS PDF

Ref.
http://www.kumc.edu/AMA-MSS/Study/table_of_genetic_disorders.htm
https://www.genome.gov/10001204/specific-genetic-disorders/

Jadual Kuliah Biologi Molekuler (MAB 4162: 2sks) JB-UB, Semester Ganjil 2016-2017 Kelas: B

By Prof. Fatchiyah, Ph.D.

Sep

4

Hari: Rabu                                           9:20-11:00                              Ruang: MP 2.4

Tanggal

Topik

Dosen

Ket
1 Pendahuluan, konsep dasar dan prespektif  biologi molekuler

F

 Ceramah, Diskusi,

Laptop, LCD
2
  1. Struktur Molekuler dari gen dan Kromosom
  2. Replikasi DNA

F

 Presentasi, Makalah, Diskusi

Laptop. LCD, Video
3 Proses Transkripsi Gen pada sintesis protein

F

 Presentasi, Makalah, Diskusi

Laptop. LCD, Video
4 Proses Translasi Gen pada sintesis protein

F

 Presentasi, Makalah, Diskusi

Laptop. LCD, Video
5 Mekanisme regulasi secara umum level seluler & molekuler

ELA

 Ceramah, Diskusi,

Laptop, LCD,
6 Mekanisme regulasi gen prokariota

ELA

 Presentasi, Diskusi

Laptop. LCD, Video, Kuis
7 Mekanisme regulasi gen eukariota, Tanaman

ELA

 Presentasi, Diskusi

Laptop. LCD, Video
 

UTS

   

10 Mekanisme regulasi gen eukariota: Human and animal

ELA

 Presentasi, Diskusi

Laptop. LCD, Video, Kuis
11 Struktur dasar Protein: determinasi & klasifikasi

SW

 Ceramah, Diskusi,

Laptop, LCD
12 Protein modification

SW

 Ceramah, Diskusi,

Laptop, LCD, Kuis
13 Functional Protein

SW

 Presentasi, Makalah,Diskusi

Laptop. LCD, Video
14 Interaksi antara  DNA-Protein & Protein-Protein

SW

 Presentasi, Makalah, Diskusi

Laptop. LCD, Video, Kuis
15
  1. Proteomics, Metabolomics, and Systems Biology
  2. Gene Regulation in Development and Evolution

Dosen Tamu

 Ceramah, Diskusi,

Laptop, LCD, Kuis

 

Keterangan:

Dosen Utama: F (Fatchiyah, Ph.D); ELA (Dr.Ir. Estri Laras A., MSc.St), SW (Dr. Sri Widyarti, MS)

Dosen tamu: akan ditetapkan kemudian

Jadual Kuliah Biologi Molekuler (MAB 4162: 2sks) JB-UB, Semester Ganjil 2016-2017 Kelas: A

By Prof. Fatchiyah, Ph.D.

Sep

4

Hari: Rabu                                           07:30-09:15                            Ruang: MP 2.4

Minggu ke

Topik

Dosen

Ket
1,

7.8.16

 Pendahuluan, konsep dasar dan prespektif biologi molekuler

F

 Ceramah, Diskusi,

Laptop, LCD
2
  1. Struktur Molekuler dari gen dan Kromosom
    1. Replikasi DNA

F

 Presentasi, Diskusi

Laptop. LCD, Video
3 Proses Transkripsi Gen pada sintesis protein

F

 Presentasi, Diskusi

Laptop. LCD, Video
4 Proses Translasi Gen pada sintesis protein

F

 Presentasi, Diskusi

Laptop. LCD, Video
5 Mekanisme regulasi secara umum level seluler & molekuler

ELA

 Ceramah, Diskusi,

Laptop, LCD,
6 Mekanisme regulasi gen prokariota

ELA

 Presentasi, Diskusi

Laptop. LCD, Video, Kuis
7 Mekanisme regulasi gen eukariota, Tanaman

ELA

 Presentasi, Diskusi

Laptop. LCD, Video
24-10

UTS

   

10 Mekanisme regulasi gen eukariota: Human and animal

ELA

 Presentasi, Diskusi

Laptop. LCD, Video, Kuis
11 Struktur dasar Protein: determinasi & klasifikasi

SW

 Ceramah, Diskusi,

Laptop, LCD
12 Protein modification

SW

 Ceramah, Diskusi,

Laptop, LCD, Kuis
13 Functional Protein

SW

 Presentasi, Diskusi

Laptop. LCD, Video
14 Interaksi antara  DNA-Protein & Protein-Protein

SW

 Presentasi, Diskusi

Laptop. LCD, Video, Kuis
15
  1. Proteomics, Metabolomics, and Systems Biology
  2. Gene Regulation in Development and Evolution

Dosen Tamu

 Ceramah, Diskusi,

Laptop, LCD, Kuis

 

Keterangan:

Dosen Utama: F (Fatchiyah, Ph.D); ELA (Dr.Ir. Estri Laras A., MSc.St), SW (Dr. Sri Widyarti, MS)

Dosen tamu: akan ditetapkan kemudian

Schedule Lecture of Human Genetics (S1: MAB4161/ 2 sks) and Medical Genetics (S2) Biology Dept. UB, Odd Semester, Year 2016-2017

By Prof. Fatchiyah, Ph.D.

Sep

4

Day: Tuesday                                                            14:45 – 16:30                                                                         Room: RB

week

Lerning Outcome

Focus study

 Topics

Subtopics

Learning methods

Lecturer
1 start on 7.9.2015 Understand basic concepts of human genetics Basic concepts of human genetics Role of lectureBasic concepts of human genetics

 

 – Lecture and discussion F
2 Understand Mendelian inheritance patterns of the different types of inheritance patterns of human disease. Identify and  Compare a Mendelian inheritance pattern of different types of inheritance patterns of human disease Mendelian inheritance pattern of human disease Types of inheritance patterns of human disease Mendel law, single gene and polygenetics factors Sex-linked, multifactorial and maternal inheritance 

 

 Presentation, Lecture and discussion, student homework F
3-4 Understand Gene-environment interaction in behavior related Genomics to the study of complex diseases Identifify Gene-environment interaction in behavior related Genomics to the study of complex diseases Mapping and characterizing “complex” genetic diseases Genomics for the study of complex diseases, genetic study of type 2 diabetes and obesity, Gene-environment interaction in behavior, pharmacogenetics Presentation, Lecture and discussion F
5-6 Understanding gene inheritance: Genes to proteins to traits Identify Gene to protein synthesis Transcription, post-transcription (mRNA maturation)  and translation , post-translation (functional protein modification) how a gene provides the instructions for making a protein and how genes can cause albinism or sickle cell anemia or other disease Presentation, Lecture and discussion 

student homework

 WN
6-8 Understand multigenic inheritance patterns. Identify a multigenic inheritance pattern. Mapping and characterizing “simple” genetic disease Mapping disease genes, disease-associated mutations, diseases associated with a gene loss-function effect, nuclear and mitochondrial genome mutations,  Evolution of a gene cluster and divergence of function Presentation, Lecture and discussion 

student homework

 WN

MIDDLE SEMESTER EXAMINATION
9-10 Understand the current research into epigenetic and transgenerational inheritance. Explain the basics of epigenetic and transgenerational inheritance. Sex, prions, and epigenetics Epigenetic inheritance of chromatin states / Role of DNA methylation in human disease,dysregulation of the histone modification machinery, transgenerational epigenetic inheritance, sex determination,  prion diseases Presentation, Lecture and discussion 

student homework

 WN
11-12 Understand  how to interpret data from a genome-wide association (GWA) study and Genetic Testing Analyze data from genome-wide association studies. Genome-wide association (GWA) study and Genetic Testing Genome-wide association (GWA) studyType, across the life span (prenatal, pediatric and adult), technology, molecular, clinical and ethical perspectives Presentation, Lecture and discussion 

student homework

 WN
13 Understand Chromosomal and genomic disorders Identify Chromosomal and genomic disorders Chromosomal and genomic disorders Mechanisms and maternal age influence the origin of aneuploidy in humans, mechanisms causing these aberrations, fragile X syndrome Presentation, Lecture and discussion 

student homework

 F
14 Understand the potential implications of personalized and genomic medicine Explain the potential benefits and risks/challenges of genomic medicine. Natural genetics resources: the potential benefits and risks/challenges Pharcogenenomic and/orNutrigenomic:

Bioactive compound, phytopharmaca, functional food for healthy controlling

 Presentation, Lecture and discussion 

student homework

 F
15 Understand some of the ethical issues facing genomic researchers. Explain some of the ethical challenges raised by the prevalence of genomic data Medical genetics and the associated ethical, legal, and social implications Ethical clearanceInform consent

ELSI for medical research based on samples of  human or animal model

 Presentation, Lecture and discussion F

Lecturer: F (Prof. Fatchiyah, PhD) and WN (Prof. Wolfgang Nellen)

 


Daftar Pustaka

Rick Lewis. 2011. Basic Human Genetics. Routledge Taylor & Francis group, NY ·  ISBN-10: 0415579864 · ISBN-13: 978-0415579865,

 

Ricki Lewis. 2011. Human Genetics concepts and application. McGraw-Hill Education; 10 edition ISBN-13: 978-0073525303, ISBN-10: 0073525308 or ISBN: 007246268x

 

Tom Strachan & Andrew Read.2003. Human Molecular genetics. Garland Science; 3 edition. ·  ISBN-10: 0815341822 ·  ISBN-13: 978-0815341826

 

Julian Knight.2009. Human Genetic Diversity. Oxford Univrsity Press. London.

 

Robert Nussbaum, Roderick R. McInnes, and Huntington F Willard. 2007. Genetics in Medicine, 7th Edition. Sounders. ·  ISBN: 9781416030805

 

John Quackenbush. 2011. The Human Genome: Book of Essential Knowledge. ISBN-13: 978-1936140152

 

Bruce R. Korf  and Mira B. Irons. 2013. Human Genetics and Genomics. 4th Edition. Wiley-Blackwell. ISBN-10: 0470654473; ISBN-13: 978-0470654477

 

 

 

Jadual Kuliah Sidik Jari Molekuler (MAB4266: 2sks) JB-UB, Semester Ganjil 2016-2017

By Prof. Fatchiyah, Ph.D.

Sep

4

Hari: Selasa                                                      13:00-14:45                                                           Ruang: RB

Week

Topic

Learning Methods

 lecture
Pertama

6.9.2016

 Overview DNA Fingerprinting & DNA typing on Forensic Biology Lecture F
2 Sample tracking: Sample collection. extraction, purification, & storage

Molecular sample preparation: isolasi dan analysis sampel molecular dan sekuensing

 Lecture, Practice, mini project

Lecture, Practice, mini project

 F
3 Genetic basis  of DNA typing (genomic or mtDNA) Lecture, discussion of article DNA typing F
4 Comparation of Fingerprinting DNA  & Forensic DNA (CODIS, Y-chromosome, SNP, STR, SSP, DDGE) discussion of articles on forensic DNA testing F
5 Biomarker for microbe DNA Barcoding analysis Lecture, Practice, mini project

 

 F
6 DNA Barcoding analysis on molecular biodiversity and taxonomy of microbe discussion of articles on microbe DNA typing & Barcoding F
  Middle test Two weeks F
7 Bioinformatic Analysis: DNA Seq analysis, alignment, phylogenetic tree

 

 Lecture Practice, online NK
8 Molecular data Interpretation (UPGM, stat analysis, Clad)  Lecture, Practice, mini project NK
9 Biomarker for animal DNA Barcoding analysis Lecture, Practice, mini project  NK
10 DNA Barcoding analysis on animal molecular biodiversity and taxonomy discussion of articles on insect DNA Barcoding NK
11 DNA Barcoding analysis on animal molecular biodiversity and taxonomy discussion of articles on insect DNA Barcoding NK
12 Biomarker for plant DNA Finge typing and Barcoding analysis Lecture, Practice, mini project ELA
13 DNA Fingerprinting analayis on molecular biodiversity and taxonomy of plant discussion of articles on Plant DNA Fingerprinting ELA
14 DNA Fingerprinting analayis on molecular biodiversity and taxonomy of plant discussion of articles on Plant DNA Fingerprinting ELA

Tim Dosen: Prof. Fatchiyah, M.Kes., PhD. (F, Koordinator), Prof. Dr.Ir.Estri Laras Arumingtyas, MScSt (ELA), dan Nia Kurniawan, MP, Ph.D. (NK).

Practice dan Mini Project akan dilakukan saat praktikum–>Praktikum Mandiri

 

Acuan Bacaan

Bashinski, J. “Laboratory Standards: Accreditation, Training, and Certification of Staff in the Forensic Context.” p. 159-173. Ballantyne J, Sensabaugh G. DNA Technology and Forensic Science, Cold Spring Harbor, NY: Cold Spring Harbor Press, 1989.

Balke,  M. and Schmidt S. 2012. Training of Trainers and Students Module II: DNA Barcoding Course material. Implementation of  Indonesian-German Network for Teaching, Training and Research Collaborations (IGN-TTRC) UB Councils. Zoologische Staatssammlung, Munchen. German

Hughey, J. Bio 13- Introduction To Forensic DNA Analysis Lecture Manual: Section 5052, Fall 2011.

Kobilinsky, L., Liotti, T. F. & Oeser-Sweat, J. DNA: Forensic and Legal Applications. Wiley-Interscience, New Jersey, 2004.  ISBN: 0471414786.

Kirby, L.T. 1990. DNA Fingerprinting: An Introduction.     W. H. Freeman.

Krawczak, M. & J. Schmidtke. 1994. DNA Fingerprinting.  Books International, Inc.

Moriniere, Jerome. 2012. Apractical lab manual for  molecularphylogenetics, barcoding and friends. Bavarian state collection of zoology. Zoologische Staatssammlung, Munchen. German

OSHA Bloodborne Pathogen Standard. 1992. Fisher Scientific.

Saferstein, R. 2001. Forensic Science Handbook.  Prentice Hall

Weedn VW, Roby RK. Forensic DNA Testing. Arch Pathol Lab Med 1993;117:486-491

 

Weblink:

http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0014448

http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0028832

http://fatchiyah.lecture.ub.ac.id

Inviting Speaker on Int Conf Obesity & Chronic Disease, LV, Nevada, USA July 25-27, 2016

By Prof. Fatchiyah, Ph.D.

Jul

22

Black Tea Leaves and Rambutan Peel from Indonesia Natural Plant has Biological Function as Anti-obesity Agents: Nutritional Genomic Study

Fatchiyah Fatchiyah

Head of Research Center of Smart Molecule from Natural Genetics Resources, Department of Biology, Faculty of Mathematic and Natural Sciences, Brawijaya University, Jl. Veteran, Malang 5145, INDONESIA. Email: fatchiya@ub.ac.id; +62 341575841

Abstract

Obesity is one global problem not only in developed countries, but also developing country. The number of obese people in Indonesia is increasing in line with the change of lifestyle. Nowadays, Indonesia entered into the top ten countries with developing overweight and obesity, around 40% of the adult population. This is alarming to become a major public health concern. Obesity is a complex disease causing lack energy balance in the body, genetics & environmental factors, lifestyle and malnutrition. Indeed, Indonesia has a rich of natural plants such as tea leaves, rambutan peels, legumes, brown rice, fruits and vegetables. The ingredients of natural plants are able to control the developing obesity through the cell signaling pathway which is organized at the level of proteins and biological active compounds and has ability to interact and modulate molecular mechanisms underlying an organism’s physiological function. Our previous studies by animal model and in silico analysis shown the  catechin of black tea leaves could lose the rat body weight gain and inhibit the Igf-1 protein and Igf-1 receptor interaction in the adipocyte. The ability of EC, EGC and EGCG of black tea was only prevented the L1-domain of IGF-1R binds of IGF-1 protein and reduced the adipocyte proliferation. The rambutan peel extract (RPE) was also protected the receptor of Igf-1 interact with its ligand protein in obese rats, both expressions were lower than control rat group. RPE has an ability to down regulate directly the adipogenesis regulation of PPARγ gene expression and mRNA level of FABP4 genes and also prevent the body weight gain by the declining size of the adipocyte in an obese rat model, respectively. Conclusion: catechin of black tea leaves and bioactive compound of rambutan peel extract has potential  as an anti-obesity agents through regulation of the molecular signaling pathway of the adipogenesis gene cascade.

Keywords: adipogenesis, black tea, catechin, obese animal model, rambutan peel extract

USG_ICOCD-2016_Program

New Publication 2016

By Prof. Fatchiyah, Ph.D.

Jul

9

Takeshi Ohta, Yasufumi Toriniwa, Naruhiko Ryumon, Nobuhiro Inaba, Tadaaki Hirao, Saori Yamanaka, Takayuki Maeno, Wakako Sakakibara, Morio Sumikawa, Kaoru Chiba, Akiko Nakamura, Katsuhiro Miyajima, Fatchiyah Fatchiyah, And Takahisa Yamada. Maternal high-fat diet promotes onset of diabetes in rat offspring. Animal Science Journal (2016) ••, ••–••, doi:10.1111/asj.12606

Siti Nur Aisyah, Hafid Harnas, Sulastri Sulastri, Retmi Retmi, Helmi Fuaddi, Fatchiyah Fatchiyah, Amri Bakhtiar, Jamsari Jamsari. Enhancement of a Novel Isolate of Serratia plymuthica as Potential Candidate for an Antianthracnose. Pakistan Journal of Biological Sciences. 2016: 1-9 ISSN 1028-8880, DOI: 10.3923/pjbs.2016

Elly Syafriani , Femi Riwany, Rahmi Kamelia,  Istino Ferita, Fatchiyah Fatchiyah, Jamsari Jamsari. A Promising Novel Rhizobacteria Isolate UBCR_12 as Antifungal for Colletotrichum gloeosporioides. Research Journal of Pharmaceutical, Biological and Chemical Sciences. May 2016;  7 (3): 2201-2209

 

 

Hasil-hasil Riset peneliti RG Smonagenes UB disitasi dalam Sigma-Aldrich

By Prof. Fatchiyah, Ph.D.

Feb

20

Hasil-hasil Riset peneliti RG Smonagenes UB disitasi dalam Sigma-Aldrich bisa dicek di

Pogestemon herba

Pogestemon herba

http://www.sigmaaldrich.com/catalog/papers/25484897

http://www.sigmaaldrich.com/catalog/papers/23559751#

Pachouil alcohol

Pachouil alcohol

http://www.sigmaaldrich.com/catalog/papers/61adea67-e075-46a4-8c40-00af77f419ab#

http://www.sigmaaldrich.com/catalog/papers/26483598

http://www.sigmaaldrich.com/catalog/papers/26005274#

http://www.sigmaaldrich.com/catalog/papers/8e007c84-23a7-4a3a-a358-407eaa2f7552#

http://www.sigmaaldrich.com/catalog/papers/aabdb08b-4ab0-41ec-ade7-1b91555c4e93

http://www.sigmaaldrich.com/catalog/papers/3997fd80-a96d-487f-a74d-db48b9ac8c3f

http://www.sigmaaldrich.com/catalog/papers/90d936e5-aeb0-4343-8a1f-2d70b712692a

 

Obese Rambutan peel

Obese Rambutan peel

PPAR gamma CSN1S2

PPAR gamma rambutan peel

CSN1S2 RA disease RAGE

CSN1S2 RA disease RAGE

CSN1S2 Pre-Osteoblast

CSN1S2 Pre-Osteoblast

CSN1S2 Diabetes

CSN1S2 Diabetes

CSN1S2 RA disease

CSN1S2 RA disease

CSN1S2 Jak-Stat3

CSN1S2 Jak-Stat3