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 Rv3483c/-:

update plot	correlation	link to info on gene
Rv3705c/-	(cc=0.5625)	info on Rv3705c/-
Rv3197/-	(cc=0.5439)	info on Rv3197/-
Rv0418/lpqL	(cc=0.4988)	info on Rv0418/lpqL
Rv3561/fadD3	(cc=0.4912)	info on Rv3561/fadD3
Rv1193/fadD36	(cc=0.4865)	info on Rv1193/fadD36
Rv0409/ackA	(cc=0.4762)	info on Rv0409/ackA
Rv1791/PE19	(cc=0.4739)	info on Rv1791/PE19
Rv2053c/fxsA	(cc=0.4685)	info on Rv2053c/fxsA
Rv3000/-	(cc=0.4636)	info on Rv3000/-
Rv0317c/glpQ2	(cc=0.4625)	info on Rv0317c/glpQ2

Correlation of Rv3483c/- with Rv0317c/glpQ2

Normalized LFCs for Rv3483c/-:
(description and provenance of datasets)

	Rv3483c/-	Rv0317c/glpQ2
Fe_supp_jason_reseq	1.085	-0.726
low_pH_jason_reseq	-0.341	-1.099
NO_jason_reseq	-0.488	-0.822
B6_jason_reseq	-0.514	-0.272
MHCII_jason_reseq	-0.697	0.263
Isoniazid02	1.433	0.221
Rifampicin4	-0.187	0.766
Ethambutol3	1.747	0.055
Meropenem3	3.141	0.604
Vancomycin16	0.252	0.178
Rv2680_day32	-0.025	0.034
H37Rv_KO_MarP	-0.048	0.724
hypoxia_3wks	0.044	0.841
hypoxia_6wks	-0.157	0.117
glycerol	0.317	0.334
cholesterol	0.289	0.59
AJ	-0.373	-0.541
Bibs02	0.371	0.466
Bibs02c	-0.42	-0.218
BL6	0.031	-0.521
BL6a	-0.339	-0.197
BXD01	-0.428	-0.581
BXD010	0.56	-0.572
BXD011	0.026	-0.353
BXD03	0.154	-0.35
BXD04	0.056	-0.61
BXD05	0.178	-0.186
BXD06	-0.516	-0.415
BXD07	-0.171	-0.2
BXD08	-0.974	0.077
BXD09	-0.253	-0.437
CAST	-0.891	-0.439
CCcont	-0.051	-0.749
DS01	0.628	-0.38
DS02	0.419	0.206
DS04	-0.342	0.271
DS0c	0.173	0.377
GP01	0.512	1.097
GP02	0.699	2.108
GP0c	0.312	0.48
NOD	0.055	0.519
NZO	-0.896	-0.465
PWK	-0.807	-0.787
H37Rv_KO_CtpC	0.273	0.47
H37Rv_KO_CtpD	1.786	0.226
H37Rv_KO_Rv1272	-0.363	-0.269
H37Rv_KO_SugABC	-0.204	-0.39
H37Rv_KO_MbtN	-0.713	0.744
Trans05	0.468	0.275
macrophage_unactivated	0.884	0.199
IL1	1.332	0.857
Rapamycin	1.415	0.77
Tcell	0.303	0.29
GMCSF	0.692	-0.198
IFNab	0.472	0.054
IFNg	0.235	-0.2
IFNg_GMCSF1	0.581	-0.267
Rv1432_day32	-0.494	-0.345
Rv1565c_day32	0.586	-0.313
secA2_input	0.529	0.1
delta_Rv3594	-0.246	0.116
delta_Rv3717	-0.385	0.021
delta_Rv3811	-0.694	0.064
delta_Rv0954	0.663	0.221
PonA1	0.469	0.284
EccD1_KO	-0.602	-0.862
EspI_KO	-0.337	-0.804
PE35_KO	-1.21	-0.983
PPE68_KO	-0.95	-1.552
glycerol2	-0.198	0.129
lignocerate	0.163	0.023
oleate	0.6	-0.027
phosphatidylcholine	0.367	0.19
acetate	-0.442	0.168
glucAc	-0.425	0.02
Rv0950ko	1.285	0.766
Rv1096ko	1.01	0.072
Rv3684ko	-0.246	-0.026
delta_otsA_trehalose	1.284	2.255