Chromosomal Microarray Analysis can diagnose all types of syndromes resulting from micro deletions or duplications in the genome. However this test will not detect mutations or sequence changes in the gene(s) which may cause these disorders. Also the detection rates may vary based on the array option/resolution chosen. This is an indicative list mentioning the major disorders covers. Please note that this list is neither exhaustive nor up to date list.  High resolution chips will invariably cover most of the changes and the expanding scientific knowledge about the functions of various genes and their disease association will keep improving the diagnostic yield and utility of arrays.

Sr.No Disorders Tested
1 Achondroplasia
2 Action myclonus-renal failure syndrome
3 Adrenal hypoplasia congenita (AHC)
4 Adrenoleukodystrophy
5 Adult-onset autosomal dominant leukodystrophy (ADLD)
6 Alagille
7 Allan-Herndon-Dudley syndrome
8 Albinism, ocular type 1
9 Albright hereditary osteodystrophy-like/Brachydactyly-MR
10 Alpha thalassemia mental retardation (ATR-16) (OS)
11 Alport syndrome, X-linked; ATS
12 Alzheimer disease, early onset with cerebral amyloid angiopathy (FISH)
13 Andersen cardiodysrhythmic periodic paralysis
14 Androgen insensitivity syndrome
15 Angelman
16 Aniridia II
17 Anterior segment mesenchymaldysgenesis
18 Apert syndrome
19 Archeiropodia, brazilian type
20 Arthropathy, progressive pseudorheumatoid, of childhood, PPAC
21 Ataxia-telangiectasia and Rad3-related; ATR
22 Atrial septal defect
23 Atrial septal defect (ASD) with atrioventricular conduction defects
24 Autism
25 Bannayan-Riley-Ruvalcaba (BRRS)
26 Bartter, antenatal 1
27 Bartter, antenatal 2
28 Bartter 3 (classic)
29 Bartter 4 (infantile with sensorineural deafness)
30 Basal cell nevus/Gorlin-Goltz
31 Beckwith-Wiedemann
32 Bilateral frontoparietalpolymicrogyria  (BFPP)
33 Birk-Barel mental retardation dysmorphism syndrome
34 Blepharophimosis, ptosis, epicanthus inversus (BPE)
35 Börjeson-Forssman-Lehmann syndrome
36 Brachydactly, type C
37 Branchiootic syndrome
38 Branchio-oto-renal (BOR)/Melnick-Fraser
39 Brunner syndrome
40 Buschke-Ollendorff
41 CADASIL
42 Campomelic dysplasia (CMPD)
43 Canavan disease
44 Cat-eye syndrome
45 Cerebral cavernous malformations
46 Cerebral cavernous malformations 2
47 Ceroidlipofuscinosis, neuronal 8, northern epilepsy variant
48 Char syndrome
49 CHARGE
50 Charcot-Marie-Tooth disease, demyelinating, type 1A
51 Chondrodysplasiapunctata 1, X-linked recessive
52 Choroideremia;
53 Chromosome 9p deletion syndrome
54 Cilliary dyskinesia, primary 1
55 Cilliary dyskinesia, primary 3
56 Cleidocranial dysplasia (CCD)
57 Conffin-Lowry syndrome
58 Congenital adrenal hyperplasia (CAH) (OS)
59 Congenital diaphragmatic hernia (CDH)
60 Congenital diaphragmatic hernia 2 (CDH2)
61 Cornelia de Lange 1
62 Cornelia de Lange 2
63 Cortical dysplasia-focal epilepsy syndrome
64 Convulsions, benign familial infantile, 3
65 Cowden
66 Craniofrontonasal syndrome
67 Craniometaphyseal dysplasia autosomal dominant
68 Craniosynostosis, type 2
69 Creatine deficiency syndrome
70 Cri-du-Chat
71 Currarino
72 Cystinosis, nephropathic
73 Dandy-Walker malformation (DWM)
74 Danon disease
75 Deafness, congenital, with inner ear agenesis, microtia, and microdontia
76 Deafness, X-linked 2
77 Dent disease 1
78 Diabetes insipidus, nephrogenic, X-linked
79 Diabetes mellitus, insulin-dependent 5
80 Diabetes mellitus, transient neonatal 1
81 DiGeorge/Velocardiofacial (VCF)
82 DiGeorge 2
83 DMD
84 Dosage-sensitive sex reversal
85 Down syndrome critical region (DSCR)
86 Dyggve-Melchior-Clausen syndrome
87 Dyskeratosiscongenita, X-linked
88 Dyssegmental dysplasia, Silverman-Handmaker type
89 Ectodermal dysplasia, hypohidrotic, autosomal recessive
90 Ectodermal dysplasia, hypohidrotic, X-linked
91 Epilepsy, benign neonatal 2
92 Epilepsy, childhood absence susceptibility to 6,; ECA6
93 Epilepsy, juvenile absence, susceptibility to,1; EJA1
94 Epilepsy, myoclonic juvenile;EJM
95 Epilepsy, idiopathic generalized
96 Epilepsy, lateral temporal lobe, autosomal dominant; ADLTE
97 Epilepsy, nocturnal frontal lobe, type 3
98 Epilepsy, nocturnal frontal lobe, type 1
99 Epilepsy, X-linked, with variable learning disablities and behavior disorders
100 Epileptic encephalopathy, early infantile, 3
101 Episodic Ataxia, Type 1
102 Fabry disease
103 Faciogenital dysplasia
104 Familial adenomatous polyposis (FAP)/Gardner/MR
105 Familial hypocalciurichypercalcemia 1 (HHC1)
106 Febrile seizures associated with afrebile seizures
107 Feingold
108 FG syndrome
109 FG 5
110 FMR1 Microdeletion
111 Focal dermal hypoplasia
112 Forebrain defects
113 Fryns
114 Generalized epilepsy with febrile seizures plus 1,2,3 (GEFS+1)
115 Gitelman
116 Glucose transport defect, blood-brain barrier
117 Glycerol kinase deficiency (GKD)
118 Granulomatous disease, chronic, X-linked
119 Greigcephalopolysyndactyly
120 Hand-foot-uterus syndrome
121 Hemophilia A
122 Heterotaxy, visceral, 2, autosomal
123 Heterotopia, periventricular, X-linked dominant
124 Hirschprung disease, susceptibility to, 1-2
125 Holoprosencephaly 1-9
126 Holoprosencephaly and preaxialpolydactyly
127 Holt-Oram
128 Hyperekplexia and epilepsy
129 Hyperostosis corticalisgeneralisata
130 Hypoparathyroidism, sensorineural deafness, renal disease (HDR)
131 Hypophosphatemic rickets, X-linked dominant
132 Hypotonia-cystinuria syndrome
133 Ichythyosis, X-linked
134 Immunodeficiency-centromeric instability-facial anomalies syndrome
135 Incontinentiapigmenti
136 Jacobsen/11q terminal deletion disorder
137 Johanson-Blizzard syndrome
138 Joubert 3,4,5
139 Juvenile polyposis syndrome (JPS), BMPR1A-related
140 Juvenile polyposis syndrome (JPS), MADH4-related
141 Kallmann 1
142 Langer-Giedion
143 Langer mesomelic dysplasia (LMD) (OS)
144 Leber congenital amaurosis X (LCAX)
145 Leri-Weill dyschondrosteosis (LWD) (OS)
146 Lesch-Nyhan syndrome
147 Leukodystrophy with microdeletion 11q14.3
148 Li-Fraumeni 1 (LFS)
149 Lissencephaly 1
150 Lissencephaly with cerebellar hypoplasia
151 Loeys-Dietz (LDS), TGFBR1-related
152 Loeys-Dietz (LDS), TGFBR2-related
153 Lowe
154 Lubs X-linked mental retardation syndrome;
155 Macrocephaly-autism
156 Macrocephaly/seizures
157 Marfan Syndrome
158 Masa syndrome
159 McCune-Albright syndrome
160 McKusick-Kaufman syndrome
161 Meckel 4
162 Menkes disease
163 Mental retardation, autosomal dominant 1
164 Mental retardation and microcephaly with pontine and cerebellar hypoplasia
165 Mental retardation-hypotonic facies syndrome, X-linked
166 Mental retardation, X-linked, associated with fragile site  FRAXE
167 Mental retardation, X-linked, Snyder-Robinson type
168 Mental retardation, X-linked, syndromic, Christianson type
169 Mental retardation, X-linked, syndromic, Jarid1C-related
170 Mental retardation, X-linked, syndromic, 10
171 Mental retardation , X-linked, syndromic, Turner type
172 Mental retardation, X-linked, syndromic, ZDHHC9
173 Mental retardation, X-linked, with cerebellar hypoplasia
174 Mental retardation, X-linked with epilepsy
175 Mental retardation, X-linked, with short stature, small testes, muscle wasting and tremor
176 Mental retardation, X-linked
177 Mesomelic dysplasia, savarirayan type
178 Metachromatic leukodystrophy
179 Micropthalmia, isolated, with cataract 2
180 Microphthalmiasyndromic 2
181 Microphthalmia 3
182 Micropthalmiasyndromic 6
183 Microphthalmia 7 with linear skin defects
184 Microtia with nasalacrimal duct imperforation and eye coloboma
185 Miller-Dieker
186 Mohr-Tranebjaerg
187 Mowat-Wilson
188 Mucopolysaccharidosis type II
189 Multiple synostoses syndrome 1
190 Muscle-eye-brain disease
191 Myoclonic epilepsy, juvenile, susceptibility to, 3
192 Myoclonic epilepsy of Lafora
193 Nablus mask-like facial
194 Nail-patella (NPS)
195 Nance-Horan
196 Nephronophthisis 1
197 Neonatal severe primary hypoparathyroidism (NSHPT)
198 Neurofibromatosis 1 (NF1)/MR
199 Neurofibromatosis 2 (NF2)
200 Neuromotor development delay, cerebellar ataxia, and epilepsy
201 Neuropathy, hereditary, with liability to pressure palsies
202 NFIA Haploinsufficiency
203 Nievergelt syndrome
204 Noonan
205 Norrie disease
206 Oculocutaneous albinism 2 (OCA2)  (OS)
207 Oculopharyngeal muscular dystrophy
208 Okihiro
209 Omodysplasia 1; OMOD1
210 Opitz GBBB syndrome, X-linked
211 Ornithine transcarbamylase deficiency (OTC)
212 Orofacial cleft 10
213 Oro-facio-digital 1 (OFD1)
214 Osler-Rendu-Webeer syndrome 2 (telangiectasia, hereditary hemmorhagic, type 2)
215 Osteogenesisimperfecta type IIA
216 Osteogenesisimperfecta type IV
217 Oto-facio-cervical (OFC)
218 Overgrowth
219 Pallister-Killian
220 Pancreatic agenesis, congenital
221 Pancreatitis, hereditary; PCTT
222 Papillorenal syndrome
223 Pelizaeus-Merzbacher
224 Perisylvianpolymicrogyria (Polymicrogyria, bilateral perisylvian; BPP)
225 Persistent mullerian duct syndrome, type I
226 Persistent mullerian duct syndrome, type 2
227 Phosphoglycerate kinase deficiency
228 Phosphoribosylpyrophosphatesynthetasesuperactivity
229 Pitt-Hopkins syndrome
230 Polycystic kidney disease 1 (PKD1) (OS)
231 Polydactyly, preaxial II
232 Potocki-Lupski syndrome
233 Potocki-Shaffer
234 Prader-Willi (PWS)
235 Prader-Willi syndrome imprinting center
236 Proteus/Proteus-like
237 Pseudoachondroplasia
238 Pseudoxanthomaelasticum, FormeFruste
239 PTEN hamartomatumor
240 Pulmonary venoocclusive disease
241 Pyruvate decarboxylase deficiency
242 Renal cysts and diabetes (RCAD)
243 Renpenning syndrome
244 Retinoblastoma/MR
245 Rett syndrome
246 Rett syndrome, congenital variant, included
247 Rieger 1 (RIEG1)
248 Rubinstein-Taybi (RTS)
249 Saethre-Chotzen
250 Schizencephaly
251 Schizophrenia 9
252 Schwartz-Jampel syndrome, type 1
253 Seizures
254 Senior-Loken 6
255 Severe myoclonic epilepsy of infancy (SMEI)
256 Short stature, pituitary and cerebellar defects, small sellaturcica
257 Siderius X-linked mental retardation syndrome
258 Simpson-Golabi_Behmel syndrome, type 1
259 Smith-Lemli-Opitz (SLOS)
260 Smith-Magenis (SMS)
261 Sotos
262 Speech-language disorder 1
263 Spermatogenic failure, nonobstructive, Y-linked
264 Spinocerebellar ataxia
265 Split-hand/foot malformation
266 Spondylocostaldysostosis 1, autosomal recessive
267 SRY dosage abnormalities
268 Stapes ankylosis with broad thumb and toes
269 Steroid sulfatase deficiency
270 Stickler I, II
271 Stoccos dos Santos
272 Stuve-Wiedemann syndrome (Schwartz-Jampel syndrome, type 2)
273 Symphalangism
274 Synpolydactyly/Syndactyly I
275 Teleangiectasia, hereditary hemorrhagic, of Rendu, Osler, and Weber
276 Tetralogy of Fallot
277 Timothy syndrome
278 Tooth agenesis, selective, 3
279 Torg-Winchester syndrome
280 Townes-Brocks 1
281 Treacher Collins-Franceschetti syndrome
282 Trichorhinophalangeal 1
283 Trigonocephaly (9p)
284 Tuberous sclerosis 2 (TSC2) (OS)
285 Ulnar-mammary
286 Usher syndrome, type IIC
287 Van der Woude
288 Variably charged, X chromosome, 3A
289 Vascular endothelial growth factor (VEGFA)-related disorders
290 Von Hippel-Lindau syndrome
291 Waardenburg syndrome, type 1
292 Waardenburg syndrome IIA
293 WAGR
294 Waardenburg-Shah syndrome
295 Williams-Beuren
296 WilmsTumor 1
297 Wiskott-Aldrich syndrome
298 Witkop syndrome
299 Wolf-Hirschhorn
300 Wolff-Parkinson-White syndrome
301 X inactivation-specific transcript; XIST
302 X-linked agammaglobulinemia
303 X-linked heterotaxy
304 X-linked idiopathic short stature (ISSX) (OS)
305 X-linked infantile spasms, ARX-related, CDKL5-related
306 X-linked juvenile retinoschisis
307 X-linked lissencephaly
308 X-linked lissencephaly with ambiguous genitalia
309 X-linked lymphoproliferative syndrome (XLP)
310 X-linked mental retardation
311 X-linked mental retardation with isolated growth hormone deficiency
312 XX male
313 XY gonadal dysgenesis
314 XY sex-reversal, +/- adrenal failure
315 46, XY gonadal dysgenesis, complete or partial, with or without adrenal failure
316 46, XY gonadal dysgenesis, complete or partial, with 9p24.3 deletion
317 1p36 Microdeletion
318 1q21.1 Microdeletion with susceptibility for thrombocytopenia-absent radius (TAR)
319 1q21.1 Microdeletion with susceptibility for mental retardation, autism, or congenital anomalies
320 All 41 unique subtelomeric regions
321 All 43 unique pericentromeric regions