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 Rv1634/-:

update plot	correlation	link to info on gene
Rv0492c/-	(cc=0.5131)	info on Rv0492c/-
Rv2031c/hspX	(cc=0.4971)	info on Rv2031c/hspX
Rv2265/-	(cc=0.4764)	info on Rv2265/-
Rv2693c/-	(cc=0.4685)	info on Rv2693c/-
Rv1140/-	(cc=0.455)	info on Rv1140/-
Rv3433c/-	(cc=0.4428)	info on Rv3433c/-
Rv0344c/lpqJ	(cc=0.44)	info on Rv0344c/lpqJ
Rv2030c/-	(cc=0.4282)	info on Rv2030c/-
Rv2340c/PE_PGRS39	(cc=0.4236)	info on Rv2340c/PE_PGRS39
Rv1745c/idi	(cc=0.415)	info on Rv1745c/idi

Correlation of Rv1634/- with Rv0492c/-

Normalized LFCs for Rv1634/-:
(description and provenance of datasets)

	Rv1634/-	Rv0492c/-
Fe_supp_jason_reseq	0.385	0.414
low_pH_jason_reseq	-0.761	-1.029
NO_jason_reseq	0.391	-0.465
B6_jason_reseq	-0.282	-0.441
MHCII_jason_reseq	0.184	0.039
Isoniazid02	1.455	1.356
Rifampicin4	0.133	1.088
Ethambutol3	1.115	0.465
Meropenem3	0.253	0.997
Vancomycin16	0.215	0.846
Rv2680_day32	1.267	0.691
H37Rv_KO_MarP	-0.034	0.349
hypoxia_3wks	-2.129	-0.096
hypoxia_6wks	-1.796	-0.777
glycerol	0.856	0.929
cholesterol	0.866	0.496
AJ	-0.027	0.299
Bibs02	-0.114	0.156
Bibs02c	0.711	0.014
BL6	0.005	0.707
BL6a	0.376	0.362
BXD01	-0.081	0.304
BXD010	-0.458	0.118
BXD011	-0.415	0.0
BXD03	-0.021	-0.189
BXD04	0.099	0.0
BXD05	-0.079	-0.562
BXD06	-0.323	-0.187
BXD07	0.016	0.39
BXD08	-0.046	0.106
BXD09	-0.193	-0.01
CAST	-0.514	0.284
CCcont	-0.457	0.373
DS01	0.493	0.833
DS02	1.267	0.52
DS04	0.476	0.117
DS0c	0.952	-0.016
GP01	0.313	1.039
GP02	0.04	0.781
GP0c	0.357	0.521
NOD	0.075	0.33
NZO	-0.257	0.053
PWK	-0.304	0.335
H37Rv_KO_CtpC	0.83	0.588
H37Rv_KO_CtpD	0.37	0.855
H37Rv_KO_Rv1272	0.626	0.233
H37Rv_KO_SugABC	0.873	1.094
H37Rv_KO_MbtN	0.205	0.947
Trans05	0.7	0.641
macrophage_unactivated	0.489	-0.066
IL1	-0.475	0.181
Rapamycin	-0.451	-0.043
Tcell	-0.818	-0.023
GMCSF	0.494	0.61
IFNab	-0.342	0.206
IFNg	-0.267	0.075
IFNg_GMCSF1	-0.019	0.129
Rv1432_day32	0.086	0.913
Rv1565c_day32	1.668	0.046
secA2_input	-0.487	0.327
delta_Rv3594	0.057	0.083
delta_Rv3717	0.424	-0.253
delta_Rv3811	-0.144	0.091
delta_Rv0954	-0.287	0.43
PonA1	0.255	0.384
EccD1_KO	0.076	0.263
EspI_KO	-0.051	-0.279
PE35_KO	-0.613	-0.286
PPE68_KO	-0.637	-0.019
glycerol2	-0.332	0.102
lignocerate	0.142	-0.214
oleate	0.625	0.58
phosphatidylcholine	0.253	0.092
acetate	-0.512	-0.625
glucAc	-0.368	-0.348
Rv0950ko	0.461	0.549
Rv1096ko	0.03	0.621
Rv3684ko	-0.262	0.576
delta_otsA_trehalose	-1.008	-0.229