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 Rv0327c/cyp135A1:

update plot	correlation	link to info on gene
Rv0567/-	(cc=0.5657)	info on Rv0567/-
Rv3445c/esxU	(cc=0.5568)	info on Rv3445c/esxU
Rv1200/-	(cc=0.5344)	info on Rv1200/-
Rv3896c/-	(cc=0.5299)	info on Rv3896c/-
Rv0134/ephF	(cc=0.5183)	info on Rv0134/ephF
Rv2644c/-	(cc=0.5009)	info on Rv2644c/-
Rv2919c/glnB	(cc=0.5007)	info on Rv2919c/glnB
Rv3100c/smpB	(cc=0.4928)	info on Rv3100c/smpB
Rv0843/-	(cc=0.4847)	info on Rv0843/-
Rv0441c/-	(cc=0.4595)	info on Rv0441c/-

Correlation of Rv0327c/cyp135A1 with Rv1200/-

Normalized LFCs for Rv0327c/cyp135A1:
(description and provenance of datasets)

	Rv0327c/cyp135A1	Rv1200/-
Fe_supp_jason_reseq	0.12	0.126
low_pH_jason_reseq	0.095	-0.236
NO_jason_reseq	-0.433	0.097
B6_jason_reseq	1.032	0.573
MHCII_jason_reseq	2.121	1.227
Isoniazid02	-0.463	-0.611
Rifampicin4	-0.615	-0.233
Ethambutol3	-0.173	-0.268
Meropenem3	-0.252	-0.289
Vancomycin16	-0.122	-0.769
Rv2680_day32	-0.688	-0.677
H37Rv_KO_MarP	-0.086	-0.027
hypoxia_3wks	-0.55	0.044
hypoxia_6wks	-0.403	-0.058
glycerol	-0.455	-0.383
cholesterol	-0.52	-0.156
AJ	0.605	-0.084
Bibs02	-0.242	0.51
Bibs02c	1.023	0.399
BL6	0.414	0.419
BL6a	0.393	0.284
BXD01	-0.636	0.021
BXD010	0.151	-0.324
BXD011	-0.136	0.02
BXD03	-0.372	0.093
BXD04	-0.573	0.215
BXD05	-0.44	0.551
BXD06	-0.367	-0.075
BXD07	-0.482	0.237
BXD08	-0.021	0.087
BXD09	-0.401	-0.109
CAST	0.335	0.167
CCcont	-0.308	0.035
DS01	0.108	0.512
DS02	-0.104	0.436
DS04	-0.514	0.119
DS0c	0.669	0.663
GP01	0.202	-0.574
GP02	0.999	0.013
GP0c	-0.219	-0.199
NOD	-0.22	0.33
NZO	-0.064	0.501
PWK	0.271	0.128
H37Rv_KO_CtpC	-1.103	-0.293
H37Rv_KO_CtpD	-0.273	0.417
H37Rv_KO_Rv1272	-0.778	0.178
H37Rv_KO_SugABC	-1.177	0.479
H37Rv_KO_MbtN	-0.902	0.779
Trans05	-0.346	0.036
macrophage_unactivated	0.65	0.549
IL1	-0.341	0.018
Rapamycin	-0.448	-0.052
Tcell	0.222	0.248
GMCSF	0.481	0.42
IFNab	0.245	0.23
IFNg	0.11	0.233
IFNg_GMCSF1	0.76	0.273
Rv1432_day32	0.0	0.216
Rv1565c_day32	0.398	0.174
secA2_input	-0.033	0.106
delta_Rv3594	-0.791	-0.346
delta_Rv3717	-0.268	0.0
delta_Rv3811	-0.457	0.028
delta_Rv0954	-0.16	-0.292
PonA1	0.557	-0.052
EccD1_KO	0.457	0.122
EspI_KO	-0.094	0.334
PE35_KO	0.362	0.54
PPE68_KO	0.538	0.739
glycerol2	0.298	0.853
lignocerate	1.14	0.706
oleate	-0.578	0.44
phosphatidylcholine	0.604	0.926
acetate	1.119	0.426
glucAc	0.696	0.731
Rv0950ko	1.173	0.317
Rv1096ko	0.627	0.44
Rv3684ko	0.96	0.57
delta_otsA_trehalose	-1.732	-0.776