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 Rv0195/-:

update plot	correlation	link to info on gene
Rv0144/-	(cc=0.5278)	info on Rv0144/-
Rv2446c/-	(cc=0.5041)	info on Rv2446c/-
Rv3840/-	(cc=0.5004)	info on Rv3840/-
Rv3710/leuA	(cc=0.495)	info on Rv3710/leuA
Rv2443/dctA	(cc=0.4672)	info on Rv2443/dctA
Rv0477/-	(cc=0.4615)	info on Rv0477/-
Rv0397A/-	(cc=0.4611)	info on Rv0397A/-
Rv3043c/ctaD	(cc=0.4531)	info on Rv3043c/ctaD
Rv3218/-	(cc=0.4249)	info on Rv3218/-
Rv0701/rplC	(cc=0.412)	info on Rv0701/rplC

Correlation of Rv0195/- with Rv2446c/-

Normalized LFCs for Rv0195/-:
(description and provenance of datasets)

	Rv0195/-	Rv2446c/-
Fe_supp_jason_reseq	0.548	0.396
low_pH_jason_reseq	-1.151	0.746
NO_jason_reseq	-0.202	0.711
B6_jason_reseq	0.657	-0.028
MHCII_jason_reseq	0.35	0.417
Isoniazid02	-0.761	-0.761
Rifampicin4	-0.734	-0.206
Ethambutol3	-0.812	-0.201
Meropenem3	-0.359	0.026
Vancomycin16	-0.411	0.393
Rv2680_day32	0.043	0.614
H37Rv_KO_MarP	0.515	0.148
hypoxia_3wks	-0.263	0.052
hypoxia_6wks	0.04	-0.706
glycerol	-0.208	1.606
cholesterol	-0.314	0.532
AJ	0.129	2.25
Bibs02	0.072	0.498
Bibs02c	-0.641	0.844
BL6	-0.558	1.259
BL6a	0.014	0.36
BXD01	-0.735	0.494
BXD010	0.867	0.502
BXD011	0.162	0.663
BXD03	-0.41	0.196
BXD04	0.118	0.555
BXD05	0.135	1.522
BXD06	0.0	0.615
BXD07	0.325	1.112
BXD08	-0.197	0.232
BXD09	0.307	0.731
CAST	-0.571	-0.02
CCcont	-1.071	-0.251
DS01	0.352	0.325
DS02	0.44	0.443
DS04	-0.356	1.397
DS0c	0.487	0.379
GP01	-0.396	-0.26
GP02	1.316	1.363
GP0c	-0.23	-0.545
NOD	-0.869	-0.828
NZO	-0.215	0.984
PWK	0.917	1.638
H37Rv_KO_CtpC	0.14	-0.014
H37Rv_KO_CtpD	0.101	0.665
H37Rv_KO_Rv1272	0.277	1.323
H37Rv_KO_SugABC	0.662	1.913
H37Rv_KO_MbtN	0.578	0.475
Trans05	-0.271	0.247
macrophage_unactivated	-0.161	0.199
IL1	-0.044	1.109
Rapamycin	-0.31	-0.448
Tcell	-0.228	-0.14
GMCSF	0.132	0.375
IFNab	0.218	-0.033
IFNg	0.056	0.866
IFNg_GMCSF1	0.676	0.77
Rv1432_day32	0.043	0.095
Rv1565c_day32	0.101	-0.523
secA2_input	0.736	0.463
delta_Rv3594	-0.901	0.075
delta_Rv3717	-0.675	0.206
delta_Rv3811	-0.522	-0.193
delta_Rv0954	0.578	0.283
PonA1	0.142	0.839
EccD1_KO	-0.799	-0.437
EspI_KO	-0.904	-0.066
PE35_KO	-1.272	-1.068
PPE68_KO	-1.136	-1.414
glycerol2	-0.844	-2.484
lignocerate	-0.851	-1.796
oleate	-0.119	-1.096
phosphatidylcholine	-1.08	-1.125
acetate	-0.826	-0.397
glucAc	-0.683	-1.45
Rv0950ko	0.1	-0.823
Rv1096ko	-0.268	0.175
Rv3684ko	-0.547	-0.403
delta_otsA_trehalose	0.138	-1.613