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 Rv2817c/-:

update plot	correlation	link to info on gene
Rv2818c/-	(cc=0.6446)	info on Rv2818c/-
Rv1225c/-	(cc=0.6111)	info on Rv1225c/-
Rv0505c/serB1	(cc=0.5354)	info on Rv0505c/serB1
Rv1059/-	(cc=0.527)	info on Rv1059/-
Rv1984c/cfp21	(cc=0.526)	info on Rv1984c/cfp21
Rv2929/-	(cc=0.5259)	info on Rv2929/-
Rv1752/-	(cc=0.5161)	info on Rv1752/-
Rv2717c/-	(cc=0.4912)	info on Rv2717c/-
Rv2809/-	(cc=0.4873)	info on Rv2809/-
Rv3116/moeB2	(cc=0.4868)	info on Rv3116/moeB2

Correlation of Rv2817c/- with Rv1984c/cfp21

Normalized LFCs for Rv2817c/-:
(description and provenance of datasets)

	Rv2817c/-	Rv1984c/cfp21
Fe_supp_jason_reseq	0.212	0.775
low_pH_jason_reseq	1.256	-0.08
NO_jason_reseq	0.092	-0.307
B6_jason_reseq	-0.04	-0.195
MHCII_jason_reseq	0.067	-0.398
Isoniazid02	0.735	0.14
Rifampicin4	0.244	-0.03
Ethambutol3	0.839	0.339
Meropenem3	0.259	0.258
Vancomycin16	0.0	-0.623
Rv2680_day32	-2.793	-0.478
H37Rv_KO_MarP	-0.467	-0.358
hypoxia_3wks	0.255	-0.215
hypoxia_6wks	0.0	-0.695
glycerol	-1.306	-2.041
cholesterol	-0.614	-0.796
AJ	0.698	-0.134
Bibs02	-0.566	-0.244
Bibs02c	1.216	0.239
BL6	0.473	-0.179
BL6a	1.73	0.532
BXD01	1.077	0.26
BXD010	1.274	0.816
BXD011	0.923	0.199
BXD03	1.691	0.416
BXD04	2.51	0.92
BXD05	0.901	0.235
BXD06	1.3	0.017
BXD07	0.739	0.321
BXD08	1.116	0.266
BXD09	1.26	0.138
CAST	-0.552	-0.307
CCcont	0.821	-0.551
DS01	-1.198	-0.373
DS02	0.113	-0.377
DS04	-0.533	-0.059
DS0c	0.168	-0.226
GP01	0.147	0.853
GP02	0.688	0.353
GP0c	0.194	0.409
NOD	-0.06	-0.14
NZO	0.678	-0.483
PWK	-0.222	-0.104
H37Rv_KO_CtpC	1.087	0.108
H37Rv_KO_CtpD	1.509	1.094
H37Rv_KO_Rv1272	0.73	1.786
H37Rv_KO_SugABC	1.353	0.713
H37Rv_KO_MbtN	0.583	0.425
Trans05	-0.359	0.807
macrophage_unactivated	1.966	0.464
IL1	0.492	-0.053
Rapamycin	0.509	0.092
Tcell	0.248	-0.137
GMCSF	0.702	0.079
IFNab	-0.181	-0.073
IFNg	0.152	0.436
IFNg_GMCSF1	0.0	0.289
Rv1432_day32	1.274	0.445
Rv1565c_day32	-0.461	0.567
secA2_input	-0.989	-0.78
delta_Rv3594	1.175	-0.147
delta_Rv3717	0.315	-0.551
delta_Rv3811	0.559	-0.604
delta_Rv0954	1.215	-0.466
PonA1	0.434	-0.905
EccD1_KO	0.51	-0.474
EspI_KO	0.371	0.14
PE35_KO	1.838	-0.012
PPE68_KO	2.125	0.074
glycerol2	0.235	-0.203
lignocerate	0.175	-0.379
oleate	0.675	0.203
phosphatidylcholine	0.27	0.303
acetate	0.176	-0.517
glucAc	-0.029	-1.067
Rv0950ko	-0.54	-0.286
Rv1096ko	-1.743	-1.463
Rv3684ko	-1.759	-0.088
delta_otsA_trehalose	-0.888	-1.63