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 Rv1696/recN:

update plot	correlation	link to info on gene
Rv2392/cysH	(cc=0.4219)	info on Rv2392/cysH
Rv2521/bcp	(cc=0.3942)	info on Rv2521/bcp
Rv1714/-	(cc=0.3923)	info on Rv1714/-
Rv3550/echA20	(cc=0.3823)	info on Rv3550/echA20
Rv1406/fmt	(cc=0.3797)	info on Rv1406/fmt
Rv2530A/vapB39	(cc=0.3746)	info on Rv2530A/vapB39
Rv1188/-	(cc=0.3721)	info on Rv1188/-
Rv0633c/-	(cc=0.3673)	info on Rv0633c/-
Rv0650/-	(cc=0.3607)	info on Rv0650/-
Rv1534/-	(cc=0.3585)	info on Rv1534/-

Correlation of Rv1696/recN with Rv1188/-

Normalized LFCs for Rv1696/recN:
(description and provenance of datasets)

	Rv1696/recN	Rv1188/-
Fe_supp_jason_reseq	-0.218	-0.553
low_pH_jason_reseq	1.051	1.205
NO_jason_reseq	1.299	0.801
B6_jason_reseq	-1.184	-0.514
MHCII_jason_reseq	-0.494	0.426
Isoniazid02	0.265	0.696
Rifampicin4	-0.076	-0.29
Ethambutol3	-0.14	0.441
Meropenem3	-0.103	0.12
Vancomycin16	0.0	0.512
Rv2680_day32	0.816	-0.617
H37Rv_KO_MarP	-0.512	0.892
hypoxia_3wks	0.171	0.861
hypoxia_6wks	-0.495	2.382
glycerol	0.635	-0.269
cholesterol	0.329	-0.3
AJ	0.729	0.56
Bibs02	-1.274	-0.078
Bibs02c	-1.458	-0.433
BL6	-0.189	0.513
BL6a	-0.577	0.271
BXD01	0.036	0.496
BXD010	-0.194	0.469
BXD011	0.07	0.265
BXD03	-0.446	0.0
BXD04	0.1	0.075
BXD05	0.212	0.796
BXD06	-0.492	0.69
BXD07	0.283	0.818
BXD08	0.499	1.058
BXD09	0.186	0.69
CAST	-0.275	0.272
CCcont	0.531	0.772
DS01	0.792	0.098
DS02	0.06	0.764
DS04	-0.715	1.099
DS0c	0.979	0.523
GP01	0.808	0.64
GP02	-0.074	-0.841
GP0c	0.204	0.027
NOD	-0.34	0.888
NZO	0.162	0.61
PWK	-0.114	0.57
H37Rv_KO_CtpC	-1.32	-0.337
H37Rv_KO_CtpD	0.596	0.0
H37Rv_KO_Rv1272	0.761	-0.257
H37Rv_KO_SugABC	0.63	-0.638
H37Rv_KO_MbtN	-1.047	0.703
Trans05	0.267	0.803
macrophage_unactivated	-1.016	-0.17
IL1	0.463	0.0
Rapamycin	0.479	0.466
Tcell	-0.137	0.114
GMCSF	0.412	0.803
IFNab	0.124	-0.109
IFNg	0.0	-0.144
IFNg_GMCSF1	-0.698	-0.229
Rv1432_day32	-1.027	0.05
Rv1565c_day32	1.308	0.256
secA2_input	0.631	0.772
delta_Rv3594	0.985	1.754
delta_Rv3717	0.774	0.779
delta_Rv3811	0.129	0.818
delta_Rv0954	0.416	1.451
PonA1	0.84	0.862
EccD1_KO	0.102	-0.967
EspI_KO	-0.473	0.411
PE35_KO	-0.093	1.155
PPE68_KO	0.195	1.449
glycerol2	-0.601	0.167
lignocerate	0.278	0.772
oleate	-0.457	-0.612
phosphatidylcholine	-0.181	0.409
acetate	1.041	0.68
glucAc	0.804	0.782
Rv0950ko	0.446	1.764
Rv1096ko	2.247	1.068
Rv3684ko	1.608	1.916
delta_otsA_trehalose	-1.369	-1.275