TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2086/-:

update plot	correlation	link to info on gene
Rv0443/-	(cc=0.4875)	info on Rv0443/-
Rv3197A/whiB7	(cc=0.4797)	info on Rv3197A/whiB7
Rv1686c/-	(cc=0.4743)	info on Rv1686c/-
Rv1880c/cyp140	(cc=0.4637)	info on Rv1880c/cyp140
Rv1737c/narK2	(cc=0.44)	info on Rv1737c/narK2
Rv1263/amiB2	(cc=0.4343)	info on Rv1263/amiB2
Rv1960c/parD1	(cc=0.424)	info on Rv1960c/parD1
Rv1087/PE_PGRS21	(cc=0.4232)	info on Rv1087/PE_PGRS21
Rv1818c/PE_PGRS33	(cc=0.4221)	info on Rv1818c/PE_PGRS33
Rv0649/fabD2	(cc=0.4211)	info on Rv0649/fabD2

Correlation of Rv2086/- with Rv0443/-

Normalized LFCs for Rv2086/-:
(description and provenance of datasets)

	Rv2086/-	Rv0443/-
Fe_supp_jason_reseq	-3.309	-1.07
low_pH_jason_reseq	-0.694	-0.992
NO_jason_reseq	-0.286	0.16
B6_jason_reseq	-1.244	-0.502
MHCII_jason_reseq	-1.023	0.258
Isoniazid02	0.368	-0.627
Rifampicin4	0.054	0.227
Ethambutol3	0.406	-0.689
Meropenem3	-0.428	-0.012
Vancomycin16	0.398	-0.172
Rv2680_day32	2.066	-0.776
H37Rv_KO_MarP	-0.409	0.395
hypoxia_3wks	-1.049	-0.295
hypoxia_6wks	-0.616	-0.144
glycerol	-0.607	0.553
cholesterol	0.435	0.29
AJ	-0.644	0.158
Bibs02	-0.065	0.087
Bibs02c	-0.58	0.562
BL6	-1.093	0.1
BL6a	-1.505	0.175
BXD01	-0.221	0.004
BXD010	-0.76	0.329
BXD011	-0.353	-0.44
BXD03	-1.701	0.317
BXD04	0.063	0.387
BXD05	-1.072	-0.138
BXD06	-0.922	-0.28
BXD07	-0.517	-0.296
BXD08	0.067	-0.211
BXD09	-0.596	-0.376
CAST	1.003	0.402
CCcont	-0.194	0.14
DS01	-0.71	0.007
DS02	-2.28	0.402
DS04	1.154	0.526
DS0c	0.0	0.135
GP01	0.548	0.036
GP02	1.721	1.148
GP0c	1.753	0.277
NOD	0.586	1.097
NZO	-0.952	0.22
PWK	1.006	0.372
H37Rv_KO_CtpC	0.055	0.201
H37Rv_KO_CtpD	-1.75	-0.256
H37Rv_KO_Rv1272	0.598	-0.224
H37Rv_KO_SugABC	-1.583	-0.028
H37Rv_KO_MbtN	-0.154	-0.392
Trans05	0.584	-0.004
macrophage_unactivated	-0.805	-0.417
IL1	-1.51	-0.16
Rapamycin	-2.725	-0.623
Tcell	0.124	-0.248
GMCSF	1.296	0.639
IFNab	-0.632	-0.417
IFNg	-1.513	0.425
IFNg_GMCSF1	-1.103	-0.101
Rv1432_day32	1.269	0.24
Rv1565c_day32	0.0	0.401
secA2_input	-0.875	0.567
delta_Rv3594	-0.644	-0.037
delta_Rv3717	-0.849	0.0
delta_Rv3811	0.125	-0.132
delta_Rv0954	-1.226	-0.109
PonA1	-0.568	0.139
EccD1_KO	0.224	0.145
EspI_KO	-0.821	-0.248
PE35_KO	0.198	-0.405
PPE68_KO	0.269	-0.541
glycerol2	0.349	0.335
lignocerate	1.062	0.71
oleate	-0.38	0.293
phosphatidylcholine	0.381	0.371
acetate	0.667	0.336
glucAc	1.062	0.532
Rv0950ko	0.865	0.157
Rv1096ko	0.986	0.507
Rv3684ko	-1.605	-0.662
delta_otsA_trehalose	3.188	2.564